Transgenic corn event Zm_CSM63715 and methods for its detection and use
Transgenic corn event Zm_CSM63715 with PPO herbicide tolerance addresses weed competition and resistance issues, enhancing weed control and crop productivity through specific nucleotide sequences and detection methods.
Patent Information
- Application Number
- JP2025536161
- Authority / Receiving Office
- JP · JP
- Patent Type
- Applications
- Current Assignee / Owner
- Priority Date
- 2022-12-20
- Filing Date
- 2023-12-15
- Publication Date
- 2025-12-25
AI Technical Summary
Weeds compete with crops for resources and cause significant yield losses, and existing herbicide-tolerant corn traits are facing challenges due to weed resistance, necessitating new herbicide modes of action and trait combinations for effective weed management.
Development of transgenic corn event Zm_CSM63715 with PPO herbicide tolerance, utilizing a recombinant DNA molecule containing specific nucleotide sequences, and methods for detecting and utilizing this event to enhance weed control options.
Provides additional herbicide tolerance traits, allowing for effective weed management with PPO herbicides, reducing yield losses, and maintaining crop productivity by diversifying weed control systems.
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Abstract
Description
[Technical Field]
[0001] CROSS-REFERENCE TO RELATED APPLICATIONS This application claims priority to U.S. Provisional Application No. 63 / 476,272, filed December 20, 2022, the entire disclosure of which is incorporated herein by reference.
[0002] Incorporating a sequence listing The Sequence Listing contained in the 269 kilobyte (measured in MS-Windows) file entitled "MONS555WO_ST26.xml", created on October 19, 2023, is submitted herewith by electronic submission and is incorporated herein by reference in its entirety.
[0003] The present disclosure relates generally to the fields of agriculture, plant biotechnology, and molecular biology. More specifically, the present disclosure relates to compositions and methods for conferring herbicide resistance to transgenic corn plants. More specifically, a recombinant DNA molecule of corn event Zm_CSM63715 is provided. Also provided are transgenic corn plants, plant parts, seeds, cells, and agricultural products comprising the corn event Zm_CSM63715, as well as methods for producing and using transgenic corn plants, plant parts, seeds, cells, and agricultural products comprising the corn event Zm_CSM63715, methods for detecting the corn event Zm_CSM63715, and methods for controlling weeds. The transgenic corn plants, plant parts, seeds, and cells comprising the corn event Zm_CSM63715 are resistant to various PPO herbicides. [Background technology]
[0004] Increasing sustainable crop production using limited natural resources is crucial to meet the need for food for a growing global population, feed for the increasing demand for animal-based diets in developing countries, and the expanding use of crop products to produce biofuels, fiber, and other agro-based commodities. In agricultural systems, effective management of weed species in fields is essential to maintaining favorable crop growing conditions and yields. Weeds compete with crops for space, nutrients, water, and light and can be introduced into harvests, presenting one of the major challenges to sustainable crop production. Over the seven-year average period from 2007 to 2013, weed interference with corn in the United States and Canada caused an average yield loss of 50%, equivalent to a loss of 148 tons of corn per year, valued at more than $26.7 billion (Soltani et al., 2016). Furthermore, yield losses due to weeds are affected by weather. Under drought conditions, numerous weed species become more competitive with maize (Patterson, 1995; Steckel & Sprague, 2004). Selective herbicides contributed significantly to herbicide management before the development of herbicide-tolerant crops. Herbicide application provides an important tool for reducing weed pressure, improving productivity, and enhancing the safety of crop production worldwide.
[0005] Corn (Zea mays) is an important crop in many regions of the world. The introduction of genetically modified crops containing herbicide-tolerance traits has been successful in providing farmers with additional tools to better control weeds. Transgenic herbicide resistance allows for the use of herbicides in the crop's growing environment with no or minimal phytotoxicity (e.g., less than approximately 10%). Transgenic corn traits have been used to confer tolerance to glyphosate, glufosinate, and 2,4-D and are widely used for weed control in commercial corn production. However, weeds are developing resistance to herbicides, and weed resistance currently represents a challenge in corn production. Therefore, additional herbicide-tolerance trait options are needed to effectively manage weeds and maintain crop productivity. One solution is to use herbicides with new or different modes of action(s) and / or multiple herbicides with different modes of action.
[0006] Protoporphyrinogen IX oxidase (PPO) catalyzes the oxidation of protoporphyrinogen IX to produce protoporphyrin IX. This enzymatic step is conserved across prokaryotes and eukaryotes for the synthesis of tetrapyrroles such as heme. In plants, protoporphyrin IX is a key precursor for chlorophyll synthesis, so chlorophyll production depends on this PPO-catalyzed reaction. Due to the important role of PPO in plant chlorophyll synthesis, various protoporphyrinogen oxidase (PPO)-inhibiting herbicides have been developed and used for agricultural weed control since the 1960s. Application of PPO-inhibiting herbicides to susceptible plants results in the blockage of the heme and chlorophyll biosynthetic pathways in plastids, leading to the accumulation of pathway intermediates that leak from the plastid and undergo nonspecific oxidation to protoporphyrin IX in the cytoplasm. In the presence of oxygen and light, protoporphyrin IX rapidly generates singlet oxygen, resulting in uncontrolled membrane lipid peroxidation and plant death. The development of PPO-inhibiting herbicide tolerance traits through biotechnology provides farmers with additional tools and additional herbicide modes of action to diversify their weed control systems to control weeds and reduce / prevent the development of herbicide resistance. Such PPO herbicide tolerance traits can be deployed alone or stacked with other herbicide tolerance traits.
[0007] Combining herbicide tolerance traits is desirable to provide growers with greater flexibility and weed control options that allow them to use multiple herbicide modes of action to control difficult weeds. Combining multiple desired traits within a genome can be achieved by several approaches. 1) performing a cross between two parents each carrying the desired traits at a random insertion site to identify a progeny plant with the desired combination of traits; 2) re-transforming the transgenic plant containing one or more desired trait(s) with one or more genes for additional desired traits, either by random integration or by targeted integration of one or more genes for additional desired traits; 3) inserting multiple genes at one location or locus as a single DNA molecule into the genome, providing a useful tool in weed control that is much easier and cheaper to maintain during subsequent breeding into a diverse pool of elite seed propagules; and 4) targeting one or more desired traits in a new transformation event to a specific genomic location (site-specific integration) that carries one or more desired traits, and then performing a cross between the new event and another event carrying the one or more desired events at the specific genomic location, resulting in progeny plants that have the desired combination of traits at one location and segregate together.
[0008] The expression of a transgene in a transgenic plant, plant part, seed, cell, or progeny, and therefore its effectiveness, can be affected by many factors, such as the regulatory elements used in the expression cassette of the transgene, the combination and / or interaction of those regulatory elements, the chromosomal location of the transgene insertion site, the chromatin structure of the genome at or near the transgene insertion site, and the presence or proximity of any endogenous cis- and / or trans-regulatory elements or genes near the transgene insertion site. Furthermore, the productivity of the trait in a transgenic plant becomes even more complicated when the transgenic insert contains multiple expression cassettes, each carrying a different transgene that confers a different trait. These differences or factors can lead to variations in the level of transgene expression or the spatial or temporal pattern of transgene expression between different transgenic insertion events of the same expression cassette. Furthermore, different transgenic events can vary in terms of the molecular nature of the event. For example, a transgenic event may contain two or more copies of a transgene insertion at one or more chromosomal locations; the transgenic insertion may be truncated compared to the intended insertion or may contain a vector backbone sequence; the transgene may be inserted into an endogenous gene or may be within a repeat region. In the case of site-specific integration of a desired trait, the mechanism for site-specific integration, such as gRNA or nuclease, which must be excised from the commercial event, may not be completely removed. Such characteristics may result in undesirable consequences, such as gene silencing, changes in the pattern and / or expression of the transgene, or changes in the pattern and / or expression of the endogenous gene. In addition, there may be undesirable phenotypic or agronomic differences between various events.
[0009] Even in the case of targeted sequence insertion, variability in the level of transgene expression among independent but genetically identical targeted sequence insertion (TSI) events was observed in a subset of transgenic events (Verkest et al., 2019). This variability in expression and silencing occurred independently of the transgene sequence and may have been due to DNA methylation, which further led to different DNA methylation mechanisms. Transgene integration into targeted loci via Cre-lox-mediated recombination has also been reported to produce a majority of targeted integration events that exhibited a partial spatial pattern of transgene expression due to differential silencing (Day et al., 2000). The fact that significant variability in transgene expression was observed indicates that even when integration events are targeted, selection, similar to that performed for random integration events, is still required to identify those that stably and desirably express the gene of interest over generations.
[0010] Commercially useful transgenic events require that the transgene(s) in the transgenic insert be expressed in the manner necessary to achieve the trait, which involves rigorous testing, evaluation, and selection. Such testing includes testing different regulatory elements (e.g., promoters, introns, leaders, and 3'UTRs) and different combinations of regulatory elements for the desired spatial and temporal expression of the transgene(s), and determining whether the product (protein(s)) of the transgene(s) targets a subcellular compartment, such as the chloroplast, to select for the best expression cassette(s). For site-specific integration of the transgene, once a targeted insertion strategy / method is selected, target sites are identified, screened, and selected. The selected combination of expression cassette(s), targeting site, and gRNA is then used for transformation to produce transgenic plants.
[0011] For these reasons, the productivity of different transformation events from the same transformation construct can vary widely, and identification of transformation events that confer the most beneficial traits or characteristics and are free of other potential anomalies or concerns is necessary to select superior events for commercial exploitation. Therefore, to select events with superior commercial properties, it is necessary to produce and analyze large numbers of individual transgenic events, which can be a significant task involving analysis and selection among many different transformation events.
[0012] To establish a transgenic event for commercial use, rigorous molecular characterization, greenhouse trials, and multi-year field trials are required over multiple years, in multiple locations, and under a variety of conditions, allowing for the acquisition of extensive agronomic, phenotypic, and molecular data. The resulting data is then analyzed, and events suitable for commercial purposes are selected. Once a commercial event has been identified as having the desired transgene expression, molecular characteristics, efficacy, and field performance, it can be introgressed into other corn genetic backgrounds using plant breeding methods. The resulting corn variety will contain the new trait in combination with other desired properties, such as native traits, disease resistance traits, insect control traits, high-yield germplasm or traits, and / or one or more other transgenic herbicide tolerance traits. Summary of the Invention
[0013] Recombinant DNA molecules are provided herein, including, for example, recombinant DNA molecules comprising a nucleotide sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, a polynucleotide having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9, and the complete complement of any of the foregoing. In some embodiments, the recombinant DNA molecule is derived from a corn plant, seed, plant part, plant cell, progeny plant, or commercial product comprising corn event Zm_CSM63715, a representative sample of seeds comprising the event having been deposited under ATCC Accession No. PTA-127361. In some embodiments, the recombinant DNA molecule is contained in a corn plant, seed, plant part, plant cell, or progeny plant comprising corn event Zm_CSM63715, or a commercial product produced therefrom, a representative sample of seeds comprising the event having been deposited under ATCC Accession No. PTA-127361. The recombinant DNA molecule can be formed by inserting a heterologous nucleic acid molecule into the genomic DNA of a corn plant or corn cell. The recombinant DNA molecule can comprise an amplicon used to diagnose the presence of corn event Zm_CSM63715.
[0014] Provided is a DNA molecule that can function as a DNA probe. An example of such a DNA molecule is a DNA molecule that contains a polynucleotide segment of sufficient length to function as a DNA probe that specifically hybridizes with the DNA of corn event Zm_CSM63715 in a sample under stringent hybridization conditions. Detecting hybridization of the DNA molecule under stringent hybridization conditions is used to diagnose the presence of corn event Zm_CSM63715 in the sample.
[0015] Also provided is a DNA molecule comprising a polynucleotide segment of sufficient length to function as a DNA probe specific for detecting, in a sample, at least one of the 5' junction sequence between the flanking corn genomic DNA and the transgenic insert of corn event Zm_CSM63715, the 3' junction sequence between the transgenic insert of corn event Zm_CSM63715 and the flanking corn genomic DNA, SEQ ID NO: 9, and a fragment of SEQ ID NO: 9 comprising consecutive nucleotides of SEQ ID NO: 9 of sufficient length to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715.
[0016] The DNA probe may comprise SEQ ID NO: 16. Alternatively, the DNA probe may comprise a nucleotide sequence selected from the group consisting of SEQ ID NO: 1, SEQ ID NO: 2, SEQ ID NO: 3, SEQ ID NO: 4, SEQ ID NO: 5, SEQ ID NO: 6, SEQ ID NO: 7, SEQ ID NO: 8, SEQ ID NO: 9, SEQ ID NO: 10, and complements of any of the foregoing. The sample may be derived from a corn plant, a seed, a plant part, a plant cell, a progeny plant, or a commercial product.
[0017] A pair of DNA molecules is provided, the pair of DNA molecules comprising a first DNA molecule and a second DNA molecule. The first and second DNA molecules comprise a fragment of SEQ ID NO:10 or its complement, and when used together in an amplification reaction with DNA comprising corn event Zm_CSM63715, function as DNA primers to produce an amplicon for use in diagnosing corn event Zm_CSM63715 in a sample. For example, the first and second DNA molecules can comprise SEQ ID NOs:14 and 15. The amplicon can comprise a nucleotide sequence selected from the group consisting of SEQ ID NOs:1, 2, 3, 4, 5, 6, 7, 8, 9, 10, and a fragment of any of SEQ ID NOs:1, 2, 3, 4, 5, 6, 7, or 8, which is at least 10 nucleotides in length and comprises nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:10.
[0018] Methods for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product are provided. In a first example of such a method, the method includes: a) contacting the sample with any of the DNA molecules described herein that function as DNA probes specific to corn event Zm_CSM63715; b) subjecting the sample and the DNA molecule that functions as a probe to stringent hybridization conditions; and c) detecting hybridization of the DNA molecule that functions as a probe to the DNA molecule in the sample. Hybridization of the DNA molecule that functions as a probe to the DNA molecule in the sample is used to diagnose the presence of corn event Zm_CSM63715 in the sample.
[0019] Another method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part or plant cell, progeny plant, or commercial product is provided. The method includes: a) contacting the sample with any of the pairs of DNA molecules described herein that can be used as primers to produce an amplicon for use in diagnosing corn event Zm_CSM63715; b) performing an amplification reaction sufficient to produce a DNA amplicon; and c) detecting the presence of the DNA amplicon. The DNA amplicon includes at least one of the following: a 5' junction sequence between the flanking corn genomic DNA and the transgenic insert of corn event Zm_CSM63715, a 3' junction sequence between the flanking corn genomic DNA and the transgenic insert of corn event Zm_CSM63715, SEQ ID NO:9; and a fragment of SEQ ID NO:9 containing consecutive nucleotides of SEQ ID NO:9 long enough to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715. The presence of the DNA amplicon indicates the presence of corn event Zm_CSM63715 in the sample. The DNA amplicon can be at least 10 nucleotides in length, at least 11 nucleotides in length, at least 12 nucleotides in length, at least 13 nucleotides in length, at least 14 nucleotides in length, at least 15 nucleotides in length, at least 16 nucleotides in length, at least 17 nucleotides in length, at least 18 nucleotides in length, at least 19 nucleotides in length, at least 20 nucleotides in length, at least 25 nucleotides in length, at least 30 nucleotides in length, at least 35 nucleotides in length, at least 40 nucleotides in length, at least 45 nucleotides in length, at least 50 nucleotides in length, at least 60 nucleotides in length, at least 70 nucleotides in length, at least 80 nucleotides in length, at least 90 nucleotides in length, or at least 100 nucleotides in length.The DNA amplicon may comprise a nucleotide sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:9, SEQ ID NO:8, SEQ ID NO:7, SEQ ID NO:6, SEQ ID NO:5, SEQ ID NO:4, SEQ ID NO:3, SEQ ID NO:2, SEQ ID NO:1, and fragments of any of SEQ ID NO:10, SEQ ID NO:8, SEQ ID NO:7, SEQ ID NO:6, SEQ ID NO:5, SEQ ID NO:4, SEQ ID NO:3, SEQ ID NO:2, and SEQ ID NO:1, which are at least 10 nucleotides in length and include nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:10.
[0020] Further provided are methods for detecting the presence of corn event Zm_CSM63715 in a sample of DNA derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product, comprising: a) contacting the sample with any of the DNA molecules described herein that function as a probe specific for corn event Zm_CSM63715, and performing a sequencing reaction to produce a target sequence, the target sequence comprising a nucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, a complete complement of any of them, and a fragment of any of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, and SEQ ID NO:10, the fragment being at least 10 nucleotides in length and comprising nucleotides 1,000-1,001 or 4,552-4,553 of SEQ ID NO:10.
[0021] Another method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part, cell, progeny plant, or commercial product is provided, comprising: a) contacting the sample with an antibody specific for the PPO (protoporphyrinogen oxidase) protein encoded by corn event Zm_CSM63715; and b) detecting binding of the antibody to the protein in the sample. Binding of the antibody indicates the presence of corn event Zm_CSM63715 in the sample.
[0022] A DNA detection kit for detecting the presence of corn event Zm_CSM63715 in a sample is provided. One example of such a DNA detection kit is a kit containing any of the pairs of DNA primers described herein that can be used as primers to produce a diagnostic amplicon for corn event Zm_CSM63715. Another example of a DNA detection kit is a kit containing any of the DNA molecules described herein that function as probes specific for corn event Zm_CSM63715.
[0023] Also provided is a protein detection kit for detecting the presence of corn event Zm_CSM63715 in a sample. One example of such a kit is a kit containing an antibody specific to the PPO protein encoded by corn event Zm_CSM63715. Detecting binding of the antibody to the protein encoded by corn event Zm_CSM63715 in a sample is used to diagnose the presence of corn event Zm_CSM63715 in the sample.
[0024] Methods for determining the zygosity of a corn plant, plant part, plant seed, or plant cell containing corn event Zm_CSM63715 are provided. One example of such a method includes: (a) contacting a sample containing DNA derived from the corn plant, plant part, plant seed, or plant cell with a first primer set capable of producing a first amplicon used to diagnose the presence of corn event Zm_CSM63715 and a second primer set capable of producing a second amplicon used to diagnose wild-type corn genomic DNA not containing corn event Zm_CSM63715; (b) performing a nucleic acid amplification reaction; and (c) detecting the first amplicon and the second amplicon. The presence of both amplicons indicates that the plant, plant part, seed, or cell is heterozygous for corn event Zm_CSM63715. The presence of only the first amplicon indicates that the plant, plant part, seed, or cell is homozygous for corn event Zm_CSM63715. For example, a first primer set may comprise SEQ ID NO:14 and SEQ ID NO:15, and a second primer set may comprise SEQ ID NO:20 and SEQ ID NO:21, or SEQ ID NO:15 and SEQ ID NO:21.
[0025] Another method for determining the zygosity of a corn plant, plant part, plant seed, or plant cell containing corn event Zm_CSM63715 is provided. The method includes: (a) contacting a sample containing DNA derived from the corn plant, plant part, plant seed, or plant cell with a probe set including at least a first probe that specifically hybridizes to corn event Zm_CSM63715 and at least a second probe that specifically hybridizes to corn genomic DNA disrupted by the insertion of heterologous DNA in corn event Zm_CSM63715 but does not hybridize to corn event Zm_CSM63715; and (b) hybridizing the probe set to the sample under stringent hybridization conditions. Detecting hybridization of only the first probe under the hybridization conditions is used to diagnose a corn plant, plant part, seed, or plant cell that is homozygous for corn event Zm_CSM63715. Detecting hybridization of both the first probe and the second probe under the hybridization conditions is diagnostic of a corn plant, plant part, seed, or plant cell heterozygous for the corn event Zm_CSM63715. For example, a probe set can include SEQ ID NO: 16 and SEQ ID NO: 22.
[0026] DNA constructs are provided. One example of a DNA construct provided herein is a DNA construct comprising an expression cassette, the expression cassette comprising, in operable linkage, i) a ubiquitin (UBQ) promoter, leader sequence, and intron sequence from Andropogon gerardii, ii) an APG6 (Albino and Pale Green 6) chloroplast transit peptide coding sequence from Arabidopsis thaliana, iii) a codon-optimized protoporphyrinogen oxidase coding sequence from Enterobacter cloacae, and iv) a 3' UTR sequence of the alpha-tubulin gene from Arundo donax. For example, the DNA construct may comprise SEQ ID NO:9. The DNA construct may further comprise a) at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164, or b) at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 at the 5' or 3' end of the construct.
[0027] Another DNA construct is provided, which comprises a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the entire length of SEQ ID NO: 9. The DNA construct comprises (i) at least 50 consecutive nucleotides of SEQ ID NO: 11 or SEQ ID NO: 164, or (ii) at least 50 consecutive nucleotides of SEQ ID NO: 12 or SEQ ID NO: 165 at the 5' or 3' end of the construct.
[0028] Any of the DNA constructs may comprise, at the 5' end of the construct, one or more nucleotide sequences selected from SEQ ID NOs: 44 to 103. Any of the DNA constructs may comprise, at the 3' end of the construct, one or more nucleotide sequences selected from SEQ ID NOs: 104 to 163.
[0029] Methods for controlling or preventing the growth of weeds in an area are provided. One example of such a method includes planting corn containing event Zm_CSM63715 in the area and applying a PPO herbicide in an amount effective to control weeds in the area without damaging the corn or with less than about 10% damage to the corn. The effective amount of PPO herbicide can be from about 0.0009 lb / acre to about 1.5 lb / acre throughout the growing season.
[0030] Methods for controlling volunteer corn containing corn event Zm_CSM63715 in an area are provided. One example of such a method includes applying a herbicidally effective amount of at least one herbicide other than a PPO herbicide, where application of the herbicide prevents growth of corn containing corn event Zm_CSM63715. The herbicide other than a PPO herbicide may be selected from the group consisting of FOP herbicides such as pyrithiobac, trifluralin, fluometuron, trifloxysulfuron, quizalofop, or fluazifop, DIM herbicides such as clethodim or sethoxydim, fenoxaprop, glyphosate, glufosinate, and any combination thereof.
[0031] A method for obtaining corn seeds or corn plants that are tolerant to PPO herbicides is provided. One example of such a method includes: a) obtaining a population of progeny seeds or plants grown therefrom, at least one of which includes the corn event Zm_CSM63715; and b) identifying at least a first progeny seed or plant grown therefrom that includes the corn event Zm_CSM63715. Identifying progeny seeds or plants grown therefrom that include the corn event Zm_CSM63715 can include: a) growing the progeny seeds or plants to produce progeny plants; b) treating the progeny plants with an effective amount of a PPO herbicide; and c) selecting progeny plants that are tolerant to the PPO herbicide. The effective amount of the PPO herbicide can be from about 0.0009 lb / acre to about 1.5 lb / acre throughout the growing season. Alternatively or additionally, identifying progeny seeds comprising corn event Zm_CSM63715 or plants grown therefrom can comprise detecting the presence of corn event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom.Alternatively or additionally, identifying progeny seeds comprising corn event Zm_CSM63715 or plants grown therefrom comprises detecting the presence of a PPO protein encoded by corn event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom.
[0032] Methods for improving tolerance to PPO herbicides in corn plants are provided. One example of such a method includes: a) inserting any of the DNA constructs described herein into the genome of a corn cell; b) generating a corn plant from the corn cell; and c) selecting a corn plant containing the DNA construct. The selection can include treating the corn cell or plant with an effective amount of a PPO herbicide. The effective amount of the PPO herbicide can be from about 0.0009 lb / acre to about 1.5 lb / acre throughout the growing season.
[0033] Corn plants, plant seeds, plant parts, and plant cells containing a recombinant DNA molecule are provided. The recombinant DNA molecule comprises a polynucleotide having a sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, the full length of SEQ ID NO:10, or the full length of SEQ ID NO:9, which is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to a sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, or a complete complement of any of the above. The corn plants, plant seeds, plant parts, or plant cells express a PPO herbicide-tolerance gene. The corn plant, plant seed, plant part, or plant cell is tolerant to one or more PPO herbicides.The corn plant, plant seed, plant part, or plant cell can further comprise at least one additional transgene for tolerance to at least one additional herbicide.The corn plant, plant seed, plant part, or plant cell can comprise the corn event Zm_CSM63715, and a representative sample of seeds comprising this event has been deposited under ATCC accession number PTA-127361.The corn plant, plant seed, plant part, or plant cell according to any one of claims can also be defined as any generation progeny plant of the corn plant comprising the corn event Zm_CSM63715, or the corn plant part, plant seed, or plant cell derived therefrom.
[0034] Further provided are corn plants, plant parts, plant seeds, or plant cells, comprising corn event Zm_CSM63715, and a representative sample of seeds comprising corn event Zm_CSM63715 has been deposited under ATCC Accession No. PTA-127361.
[0035] Maize plant parts include microspores, pollen, anthers, silks, spikes, ovules, ovaries, pods, flowers, cobs, embryos, stems, leaves, roots, or callus.
[0036] Further provided are corn plants, plant parts, plant seeds, or plant cells that are tolerant to one or more PPO herbicides and contain any of the DNA constructs described herein.
[0037] Any of the corn plants, plant seeds, plant parts, or plant cells can be obtained by any of the methods for obtaining a corn plant or seed of a corn plant that is tolerant to a PPO herbicide, or any of the methods for improving tolerance to a PPO herbicide in a plant described herein.
[0038] Additional corn plants, plant cells, plant parts, and plant seeds are provided. The corn plants, plant cells, plant parts, and plant seeds contain a recombinant DNA construct integrated into chromosome 8. The recombinant DNA construct confers tolerance to at least one PPO herbicide. The recombinant DNA construct is integrated into the chromosome at a location flanked by at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164 and 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165. The at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164 can comprise one or more nucleotide sequences selected from SEQ ID NOs:44-103. The at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 can comprise one or more nucleotide sequences selected from SEQ ID NOs:104-163.
[0039] For any of the methods for controlling or preventing the growth of weeds in a region, comprising applying to any of the corn plants, plant parts, or plant seeds that are tolerant to one or more PPO herbicides described herein an effective amount of any of the PPO herbicides described herein, the methods for obtaining corn plant seeds or corn plants that are tolerant to PPO herbicides described herein, and the methods for improving tolerance to PPO herbicides in corn plants described herein, the PPO herbicide can be selected from the group consisting of diphenyl ether, N-phenylphthalimide, oxadiazole, oxazolidinedione, phenylpyrazole, pyrimidinedione, thiadiazole, triazolinone, benzoxazinone derivatives, other PPO herbicides, and any combination thereof. The diphenyl ether may be selected from the group consisting of acifluorfen, bifenox, ethoxyfen, fluorodifen, fluoronitrofen, furyloxyfen, halosafen, clomethoxyfen, chlornitrofen, ethoxyfen-ethyl, fluoroglycofen, lactofen, nitrofen, oxyfluorfen, fomesafen, any salt thereof, and any ester thereof. The N-phenylphthalimide may be selected from the group consisting of cinidon-ethyl, flumiclorac, flumiclorac-pentyl, and flumioxazin. The oxadiazole may be selected from the group consisting of oxadiargyl and oxadiazone. The oxazolidinedione may be pentoxazone. The phenylpyrazole may be selected from the group consisting of fluazolate, pyraflufen, and pyraflufen-ethyl. The pyrimidinediones may be selected from the group consisting of benzphendizone, butafenacil, epirifencasil (S-3100), flupropacil, flufenoximacil, saflufenacil, and thiafenacil. The thiadiazoles may be selected from the group consisting of fluthiacetomethyl and thiadiazimine. The triazolinones may be selected from the group consisting of azafenidin, bencarbazone, carfentrazone, salts and esters thereof,and sulfentrazone. The benzoxazinone derivative can be 1,5-dimethyl-6-thioxo-3-(2,2,7-trifluoro-3,4-dihydro-3-oxo-4-prop-2-ynyl-2H-1,4-benzoxazin-6-yl)-1,3,5-triazinane-2,4-dione (trifludimoxazine). Other PPO herbicides include chlorphthalim, flufenpyr, flufenpyr-ethyl, flumipropyne, pyraclonil, profluazole, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo-4-fluoro -5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate;Methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, methyl (2R)-2-{[(E)-{2-chloro chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate (flufenoximacil), methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate,Methyl 2-{[(Z)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, Ethyl 2-{[(Z)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, Ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl Ethyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, Ethyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidine}amino]oxy}propanoic acid benzylidene}amino]oxy}propanoic acid, (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate,Ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate, methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl (2R)-2-{[(E)-{2-chloro methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, ... so-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate,Methyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, Methyl (2S ... dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3, 5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, ethyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate,Methyl (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, methyl (2S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate Panoate, 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, (2, S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, methyl 3-{2-chloro-4-fluoro-5-[3-methyl- 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4 -(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, ethyl (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, ethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-Dihydropyrimidin-1(2H)-yl]phenyl}-5-propyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-ethyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate] 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, methyl 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl -4,5-dihydro-1,2-oxazole-5-carboxylic acid, 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5R)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, )-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazol-3-yl)phenyl]-1,5-dimethyl-6-sulfanylidene-1,3,5-triazinane-2,4-dione, ethyl 3-{5-[3-amino-2,6-Dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, methyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo -4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, methyl 3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate -5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, 2-ethoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate, {[(1-{2-chloro-4-fluoro-5-[3- methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropyl)carbonyl]oxy}acetic acid, 2-methoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate, and cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy) acetate.
[0040] Methods for producing progeny corn plants comprising corn event Zm_CSM63715 are provided. The methods include: a) sexing a first corn plant comprising corn event Zm_CSM63715 with itself or with a second corn plant; b) collecting one or more seeds produced from the cross; c) growing the one or more seeds to produce one or more progeny plants; and d) selecting at least a first progeny plant or seed comprising corn event Zm_CSM63715. Also provided herein are inbred and hybrid corn plants and seeds comprising corn event Zm_CSM63715 produced by the methods.
[0041] Non-viable or non-regenerable corn plant material is provided, which comprises any of the recombinant DNA molecules provided herein or any of the DNA constructs provided herein.
[0042] Another non-viable or non-regenerable corn plant material is provided, the non-viable or non-regenerable corn plant material comprising corn event Zm_CSM63715, and a representative sample of seeds comprising corn event Zm_CSM63715 has been deposited under ATCC Accession No. PTA-127361.
[0043] Commodity products are provided. The commodity products include any of the recombinant DNA molecules provided herein or any of the DNA constructs provided herein. The commodity products can be produced from transgenic corn plants, plant parts, plant seeds, or plant cells containing the corn event Zm_CSM63715. The commodity products can include whole seeds or processed seeds; viable or non-viable seeds; viable plant parts (such as roots and leaves); viable plant cells; processed plant parts; processed plant tissue; dehydrated plant tissue; dehydrated plant parts; frozen plant tissue; frozen plant parts; foods for human consumption such as corn oil, corn meal, corn flour, corn grit, corn flakes, corn bran, and corn starch; sweeteners such as high fructose corn syrup (HFCS), glucose and dextrose, beverage alcohol, brewers' grit for beer production, and fiber; animal feed such as corn and corn biomass; industrial alcohol; fuel ethanol; corn pollen; corn plastic; dried distillers' grains (DDG); or biodegradable packaging materials.
[0044] Methods for producing a commodity product are provided, comprising: a) obtaining a transgenic corn plant, plant part, or plant seed comprising corn event Zm_CSM63715; and b) producing a commodity product from the transgenic corn plant, plant part, or plant seed.
[0045] A method for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds is provided, comprising culturing in a crop environment a corn plant that contains a transgene that confers tolerance to (i) a PPO herbicide and (ii) at least three additional herbicides with a herbicide mode of action, each of which is distinct from the other three additional herbicides.
[0046] Further provided is a method for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds, comprising: (a) cultivating, in a crop growing environment, a corn plant comprising any of the DNA constructs provided herein and at least three additional transgenes for conferring tolerance to herbicides having at least three additional herbicide modes of action, each of the three additional herbicide modes of action being different from one another; and (b) applying to the crop growing environment at least one herbicide selected from the group consisting of dicamba, glufosinate, 2,4-D, a PPO inhibitor, glyphosate, and any combination thereof, wherein the corn plant is tolerant to the at least one herbicide.
[0047] In any of the methods for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds, the transgenes providing tolerance to herbicides having at least three additional herbicide modes of action can be present at a single genomic location within the corn plant.
[0048] Also provided is a method of reducing a locus for corn breeding by site-specific insertion of a transgene conferring tolerance to a PPO herbicide at a genomic location in a corn plant that is within about 3-8 cM of the locus in the corn genome, the transgene conferring tolerance to at least three additional herbicide modes of action, each of the three additional herbicide modes of action being distinct from one another.
[0049] In any of the corn plants, plant seeds, plant parts, or plant cells described herein, comprising at least one additional transgene conferring tolerance to at least one additional herbicide, and in any of the methods for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds or for reducing genetic loci for corn breeding, the additional transgene can be selected from the group consisting of FT_T, dicamba monooxygenase (DMO), phosphinothricin N-acetyltransferase (PAT), 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), and any combination thereof. For example, the FT_T transgene can comprise a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 171. The DMO transgene can comprise a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 169. The PAT transgene can comprise a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 167. The EPSPS transgene can comprise a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 173. The additional transgene can provide tolerance to herbicides having a mode of action selected from the group consisting of inhibitors of glutamine synthetase, inhibitors of acetyl-CoA carboxylase (ACCase) in the aryloxyphenoxypropionate (FOP) group, inhibitors of EPSPS, synthetic auxins, and any combination thereof.Inhibitors of acetyl-CoA carboxylase (ACCase) in the aryloxypropionate (FOP) group include cloradifop, clodinafop, clodinafop-ethyl, clodinafop-propargyl, clofop, cyhalofop, cyhalofop-butyl, diclofop, diclofop-methyl, diclofop-P, diclofop-P-methyl, fenoxaprop, fenoxaprop-P, fenoxaprop-P-ethyl, fentiaprop, fluazifop, fluazifop-buf The synthetic auxin may be selected from the group consisting of dicamba, 2,4-D, dichlorprop, mecoprop, 2,4,5-trichlorophenoxyacetic acid (2,4,5-T), and any combination thereof. The inhibitor of glutamine synthetase may include glufosinate. The inhibitor of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) may include glyphosate.
[0050] In any of the corn plants, plant seeds, plant parts, or plant cells described herein that include at least one additional transgene that confers tolerance to at least one additional herbicide, and in any of the methods for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds or for reducing genetic loci for corn breeding, the corn plant, plant seed, plant part, or plant cell can further include corn event MON87429.
[0051] In any of the corn plants, plant seeds, plant parts, or plant cells described herein comprising at least one additional transgene that confers tolerance to at least one additional herbicide, and in any of the methods for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds or for reducing genetic loci for corn breeding, the corn plant, plant seed, plant part, or plant cell is selected from the group consisting of SEQ ID NO:212, SEQ ID NO:213, SEQ ID NO:214, SEQ ID NO:215, SEQ ID NO:216, SEQ ID NO:217, SEQ ID NO:218, SEQ ID NO:219, SEQ ID NO:220, SEQ ID NO:221. The recombinant DNA molecule may further include a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to a sequence selected from the group consisting of SEQ ID NO:212, the full length of SEQ ID NO:213, and the full complement of any of the above.
[0052] Corn plants, plant seeds, plant parts, plant cells, or progeny plants are provided. The corn plants, plant seeds, plant parts, plant cells, or progeny plants comprise a recombinant nucleic acid molecule. The recombinant nucleic acid molecule comprises a target corn genomic nucleic acid sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 174-190. The recombinant nucleic acid molecule further comprises a DNA sequence of interest, wherein the DNA sequence of interest is inserted into the target corn genomic nucleic acid sequence. In some embodiments, the corn plants, seeds, plant parts, plant cells, or progeny plants comprise a recombinant nucleic acid molecule, wherein the recombinant nucleic acid molecule comprises a target corn genomic nucleic acid sequence having a sequence selected from the group consisting of SEQ ID NOs: 174-190. The DNA sequence of interest can comprise a gene of agronomic interest. For example, the gene of agronomic interest can confer herbicide resistance in the plant. In some embodiments, the target corn genomic nucleic acid sequence is at least 1 kb from the MON87429 insertion site. In some embodiments, the target maize genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site. In some embodiments, the target maize genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation of 10% or less of the genome-wide population average, and / or has a redundancy score of 30% or less.
[0053] A method for generating a recombinant corn plant cell is provided. The method includes: (a) obtaining a corn plant, seed, or cell, wherein the plant, seed, or cell contains a target corn genomic nucleic acid molecule having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 174-190, or complements thereof; (b) introducing into the corn plant, seed, or cell a site-specific nuclease capable of specifically binding to and cleaving the target corn genomic nucleic acid molecule; (c) introducing into the corn plant, seed, or cell a DNA sequence of interest; and (d) selecting a recombinant corn plant, seed, or cell containing the DNA sequence of interest inserted into the target corn genomic nucleic acid molecule. The site-specific nuclease can be selected from the group consisting of an RNA-guided nuclease, a zinc finger nuclease, and a TALEN. In some embodiments, the RNA-guided nuclease is Cas12a. The method may further include introducing into the corn plant, seed, or cell a guide polynucleotide comprising a nucleic acid sequence substantially complementary to a target corn genomic nucleic acid, wherein the guide polynucleotide and the RNA-guided nuclease form a complex capable of binding to and cleaving the corn genomic nucleic acid molecule. For example, the guide polynucleotide comprises a nucleotide sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. The guide polynucleotide may further comprise SEQ ID NO: 23. In some embodiments, the target corn genomic nucleic acid sequence is at least 1 kb from the MON87429 insertion site. In some embodiments, the target corn genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site.In some embodiments, the target maize genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation less than or equal to 10% of the genome-wide population average, and / or has a redundancy score less than or equal to 30%.
[0054] Recombinant DNA molecules are provided, comprising a DNA sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. In some embodiments, the recombinant DNA molecule comprises a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. The DNA sequence can be operably linked to a heterologous promoter sequence. The recombinant DNA molecule can further comprise SEQ ID NO: 23.
[0055] Recombinant RNA molecules are provided, comprising an RNA sequence that is at least 85% complementary, at least 90% complementary, or at least 95% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. In some embodiments, the RNA sequence is 100% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
[0056] In certain embodiments, the disclosure provides a method for controlling or preventing the growth of weeds in an area, the method comprising planting corn comprising event Zm_CSM63715 and event MON87429 in the area and applying an effective amount of at least one herbicide selected from the group consisting of a PPO herbicide, dicamba, glufosinate, 2,4-D, glyphosate, an FOP herbicide, and any combination thereof to control weeds in the area, wherein there is no phytotoxicity to the corn or there is less than about 10% phytotoxicity to the corn. [Brief explanation of the drawings]
[0057] [Figure 1]The sequence of corn event Zm_CSM63715 is shown. Horizontal lines correspond to the positions of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:11, and SEQ ID NO:12 relative to SEQ ID NO:10. Horizontal arrows (SEQ ID NO:14, SEQ ID NO:15, SEQ ID NO:20, and SEQ ID NO:21) represent the approximate locations of exemplary primer pairs that can be used to detect corn event Zm_CSM63715. Horizontal lines labeled SEQ ID NO:16 and SEQ ID NO:22 represent the approximate locations of exemplary DNA probes that can be used to detect corn event Zm_CSM63715 or wild-type corn sequences. "RB" refers to the right border of the Agrobacterium T-DNA, and "LB" refers to the left border of the Agrobacterium T-DNA. "Promoter" represents a promoter element, "leader" represents a leader (5'UTR) element, "intron" represents an intron element, "CTP" represents a chloroplast transit peptide element, "3'UTR" represents a 3'UTR, "PPO" represents a protoporphyrinogen oxidase coding element, and "Lox" represents a lox recombination site. The horizontal line labeled SEQ ID NO: 13 represents the relative position or location in the wild-type maize genome where the transgene (SEQ ID NO: 9) has been inserted. The dashed line represents a 19-nucleotide deletion in the maize genome at the transgene (SEQ ID NO: 9) insertion site. [Figure 2]Schematic representation of the T-DNA cassette in the Agrobacterium Ti plasmid used to transform and generate maize event Zm_CSM63715 before and after T-DNA integration, and after Cre-mediated excision of the marker cassette. "RB" refers to the right border of the Agrobacterium T-DNA, and "LB" refers to the left border of the Agrobacterium T-DNA. "CP4," "Cpf1," "PPO," and "gRNA" represent the CP4 selectable marker cassette, Cpf1 nuclease cassette, protoporphyrinogen oxidase cassette, and gRNA cassette, respectively. "Lox" represents a lox recombination site. "5' flank" and "3' flank" represent the 5' and 3' flanking maize genomic sequences at the T-DNA integration site, respectively. A: "Pre-integrated T-DNA" represents the T-DNA containing the CP4, Cpf1, gRNA, and PPO cassettes before transformation. B: "Inserted T-DNA after integration" represents the T-DNA containing the CP4, Cpf1, gRNA, and PPO cassettes integrated into the maize genome after transformation. C: "Inserted T-DNA after Cre excision" represents the integrated T-DNA cassette after the CP4, Cpf1, and gRNA cassettes have been excised, leaving two Lox sites, the PPO cassette, and one of the left and right borders. [Figure 3] Shown is the approximate timeline of research, testing, and development leading to the selection of commercial event corn event Zm_CSM63715. "POC" stands for proof of concept, "TFN" stands for transformation, "GH" stands for greenhouse, "SA" stands for South America, and "NA" stands for North America. [Figure 4]Illustrative illustration of the breeding process for producing marker-free maize events from Type 1 constructs. "R0 transformants" are initial transgenic events generated by transformation with a binomial transformation vector that was hemizygous for the T-DNA alleles containing the CP4, Cpf1, gRNA, and PPO cassettes. The R0 transformants were cross-pollinated with a transgenic maize line containing a transgene cassette for Cre-recombinase expression to produce the F1 generation, many of whose progeny lost the CP4, Cpf1, and gRNA cassettes flanked by two Lox sites due to Cre-recombinase excision. Hemizygous T-DNA-positive, CP4, Cpf1, and gRNA-negative (also known as marker-free) and Cre-free plants were selected and self-pollinated to produce the F2 generation. F2 plants homozygous for the inserted T-DNA, lacking the CP4, Cpf1, and gRNA cassettes and the Cre-recombinase transgene cassette, were selected and self-pollinated to produce the F3 generation. The F3 generation plants were self-pollinated to produce a pure line of F4 reference seed. The F2 marker-free plants, homozygous for the inserted T-DNA allele, were also cross-pollinated with elite lines to produce an R1 population for hybrid efficacy and agronomic testing. Subsequent "R" generations (R1, R2, and R3) represent successive generations produced by self-pollination of plants derived from the initial R0 transformant that resulted in the corn event Zm_CSM63715. The R3 generation plants, which were marker-free and homozygous for the T-DNA insertion, were used for inbred efficacy and agronomic testing. [Figure 5]This is a diagram of the breeding process for producing marker-free events from Type 2 constructs. "R0 transformants" are initial transgenic events generated by transformation with a binomial transformation vector that was hemizygous for the T-DNA allele containing the CP4, Cre, Cpf1, gRNA, and PPO cassettes. R0 transformants were self-pollinated to produce the R1 generation, and many of the progeny lost the CP4, Cre, Cpf1, and gRNA cassettes flanked by two Lox sites due to autoexcision. Hemizygous T-DNA-positive, CP4, Cpf1, and gRNA-negative (also known as marker-free) plants were selected and self-pollinated to produce the R2 generation. R2 plants homozygous for the inserted T-DNA allele, lacking the CP4, Cre, Cpf1, and gRNA cassettes, were selected and self-pollinated to produce the R3 generation. R1 plants hemizygous for the PPO and marker genes were cross-pollinated with a Cre line to produce F1 progeny as a backup in case autoexcision failed. Progeny plants hemizygous for PPO and negative for CP4, Cpf1, and the gRNA cassette were selected and self-cultured to produce F2 progeny.
[0058] A brief description of arrays SEQ ID NO:1 is a 30-nucleotide sequence representing the 5' junction region of maize genomic DNA and the integrated transgene insert. SEQ ID NO:1 corresponds to nucleotide positions 986-1,015 of SEQ ID NO:10.
[0059] SEQ ID NO:2 is a 30-nucleotide sequence representing the 3' junction region of the integrated transgene insert and maize genomic DNA. SEQ ID NO:2 corresponds to nucleotide positions 4,538 to 4,567 of SEQ ID NO:10.
[0060] SEQ ID NO:3 is a 60-nucleotide sequence representing the 5' junction region of maize genomic DNA and the integrated transgene insert. SEQ ID NO:3 corresponds to nucleotide positions 971 to 1,030 of SEQ ID NO:10.
[0061] SEQ ID NO:4 is a 60 nucleotide sequence representing the 3' junction region of the integrated transgene insert and maize genomic DNA. SEQ ID NO:4 corresponds to nucleotide positions 4,523 to 4,582 of SEQ ID NO:10.
[0062] SEQ ID NO:5 is a 100-nucleotide sequence representing the 5' junction region of maize genomic DNA and the integrated transgene insert. SEQ ID NO:5 corresponds to nucleotide positions 951 to 1,050 of SEQ ID NO:10.
[0063] SEQ ID NO:6 is a 100 nucleotide sequence representing the 3' junction region of the integrated transgene insert and maize genomic DNA. SEQ ID NO:6 corresponds to nucleotide positions 4,503 to 4,602 of SEQ ID NO:10.
[0064] SEQ ID NO:7 is a 1,050 nucleotide sequence representing the 5' genomic flanking region of maize genomic DNA and the 50 bp integrated transgene insert. SEQ ID NO:7 corresponds to nucleotide positions 1 to 1,050 of SEQ ID NO:10.
[0065] SEQ ID NO:8 is a 1,050 nucleotide sequence representing the 50 bp 3' junction region of the integrated transgene insert and the 3' genomic flanking region of maize genomic DNA. SEQ ID NO:8 corresponds to nucleotide positions 4,503 to 5,552 of SEQ ID NO:10.
[0066] SEQ ID NO:9 is the 3,552 nucleotide sequence corresponding to the transgene insert of corn event Zm_CSM63715. SEQ ID NO:9 corresponds to nucleotide positions 1,001 to 4,552 of SEQ ID NO:10.
[0067] SEQ ID NO:10 is a 5,552 nucleotide sequence corresponding to the contiguous nucleotide sequence of the 5' corn genomic DNA sequence (SEQ ID NO:11), the transgene insert in event Zm_CSM63715 (SEQ ID NO:9), and the 3' corn genomic DNA sequence (SEQ ID NO:12).
[0068] SEQ ID NO:11 is a 1,000 nucleotide sequence representing the 5' flanking corn genomic DNA to the transgene insert (SEQ ID NO:9). SEQ ID NO:11 corresponds to nucleotide positions 1-1,000 of SEQ ID NO:10.
[0069] SEQ ID NO:12 is a 1,000 nucleotide sequence representing the 3' flanking maize genomic DNA after the transgene insert (SEQ ID NO:9). SEQ ID NO:12 corresponds to nucleotide positions 4,553 to 5,552 of SEQ ID NO:10.
[0070] SEQ ID NO:13 is a 2,019-nucleotide sequence representing wild-type maize genomic DNA at the position where the transgenic sequence (SEQ ID NO:9) was inserted into event Zm_CSM63715. A 19-nucleotide fragment of SEQ ID NO:13 (nucleotides 1,001 to 1,019) was deleted in event Zm_CSM63715 by the insertion of the T-DNA.
[0071] SEQ ID NO: 14 is a 30-nucleotide sequence corresponding to a thermal amplification primer designated SQ21524 used in event-specific and zygosity assays to detect DNA of corn event Zm_CSM63715 in samples, and is identical to the reverse complement of the nucleotide sequence corresponding to positions 1,053 to 1,082 of SEQ ID NO: 10.
[0072] SEQ ID NO: 15 is a 30-nucleotide sequence corresponding to a thermal amplification primer designated SQ51880 used in event-specific and zygosity assays to detect DNA of corn event Zm_CSM63715 in samples, and is identical to the nucleotide sequence corresponding to positions 956 to 985 of SEQ ID NO: 10.
[0073] Sequence number 16 is a 16-nucleotide sequence corresponding to the 6FAM-MGB probe designated PB10269 used in event-specific and zygosity assays to detect DNA of corn event Zm_CSM63715 in samples, and is identical to the nucleotide sequence corresponding to positions 11,108 to 11,123 of sequence number 10.
[0074] SEQ ID NO: 17 is a 24 nucleotide sequence corresponding to a thermal amplification primer designated SQ20222 that hybridizes to a region of the corn genome used as an internal control for the event assay of corn event Zm_CSM63715.
[0075] SEQ ID NO: 18 is a 28 nucleotide sequence corresponding to a thermal amplification primer designated SQ20221 that hybridizes to a region of the corn genome used as an internal control for the event assay of corn event Zm_CSM63715.
[0076] SEQ ID NO: 19 is the 17 nucleotide sequence corresponding to the VIC-MGB probe designated PB50298 used as an internal control for the event assay of corn event Zm_CSM63715, which hybridizes to a region of the corn genome.
[0077] SEQ ID NO:20 is the 34-nucleotide sequence corresponding to the thermal amplification forward primer designated SQ52146 used in the zygosity assay for the detection of wild-type (WT) allele DNA in a sample, which hybridizes to a region of the maize genome corresponding to positions 948-981 of SEQ ID NO:10.
[0078] SEQ ID NO:21 is the 32-nucleotide sequence corresponding to the thermal amplification reverse primer designated SQ52147 used in the zygosity assay for detection of WT allele DNA in a sample, which hybridizes to a region of the maize genome corresponding to positions 4606-4637 of SEQ ID NO:10.
[0079] SEQ ID NO:22 is the 24-nucleotide sequence corresponding to the probe designated PB50707 used in the zygosity assay for the detection of WT allele DNA in a sample, which hybridizes to a region of the maize genome corresponding to positions 4555-4578 of SEQ ID NO:10.
[0080] SEQ ID NO: 23 is the 21 nucleotide downstream mature crRNA scaffold sequence.
[0081] SEQ ID NOs:24-32 are the nucleotide sequences of the genetic elements in the transgenic insert of corn event Zm_CSM63715, and are further described below in Table 1A.
[0082] SEQ ID NOs: 33 and 34 are the nucleotide and amino acid sequences, respectively, of LbCpf1 (also known as LbCas12a) of Lachnospiraceae bacterium ND2006.
[0083] SEQ ID NO: 35 is the amino acid sequence of LbCas12a_V1 (G532R / K595R).
[0084] SEQ ID NO: 36 is the amino acid sequence of LbCas12a_V2 (G532R / K538V / Y542R).
[0085] SEQ ID NO: 37 is the amino acid sequence of Cas12a (FnCas12a) of Francisella novicida.
[0086] SEQ ID NO: 38 is the nucleotide sequence of the gRNA repeat of LbCas12a.
[0087] SEQ ID NO: 39 is the nucleotide sequence of the gRNA repeat of FnCas12a.
[0088] SEQ ID NO: 40 is the nucleotide sequence of gRNA gRNA_5F-63.
[0089] SEQ ID NO: 41 is the nucleotide sequence of gRNA gRNA_3F-4.
[0090] SEQ ID NOs: 42 and 43 are the codon-optimized coding sequence and amino acid sequence, respectively, of protoporphyrinogen oxidase (PPO) from Enterobacter cloacae.
[0091] SEQ ID NOs:44-103 are the sequences of 50 nucleotides in the 5' flanking genomic sequence of event Zm_CSM63715. SEQ ID NOs:44-63 are based on the genomic sequence of transformed germplasm, and SEQ ID NOs:64-103 are based on the genomic sequence of maize B73 germplasm.
[0092] SEQ ID NOs:104-163 are the sequences of 50 nucleotides in the 3' flanking genomic sequence of event Zm_CSM63715. SEQ ID NOs:104-123 are based on the genomic sequence of transformed germplasm, and SEQ ID NOs:124-163 are based on the genomic sequence of maize B73 germplasm.
[0093] SEQ ID NO:164 is a 5,000 nucleotide sequence representing the maize genomic DNA adjacent to the 5' end of the transgenic insert. Nucleotides 4,001-5,000 of SEQ ID NO:164 are identical to the nucleotides of SEQ ID NO:11. The remaining nucleotides of SEQ ID NO:164 (nucleotides 1-4,000) are based on the genomic sequence of maize B73 germplasm.
[0094] SEQ ID NO:165 is a 5,000 nucleotide sequence representing the maize genomic DNA adjacent to the transgenic insert at its 3' end. Nucleotides 1-1,000 of SEQ ID NO:165 are identical to those of SEQ ID NO:12. The remaining nucleotides of SEQ ID NO:165 (nucleotides 1,001-5,000) are based on the genomic sequence of maize B73 germplasm.
[0095] SEQ ID NOs:166 and 167 are the nucleotide and amino acid sequences of the phosphinothricin N-acetyltransferase gene (PAT).
[0096] SEQ ID NOs: 168-169 are the nucleotide and amino acid sequences of the dicamba monooxygenase (DMO) gene.
[0097] SEQ ID NOs: 170 to 171 are the nucleotide and amino acid sequences of the FT_T gene.
[0098] SEQ ID NOs: 172 to 173 are the nucleotide and amino acid sequences of the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene.
[0099] SEQ ID NOs: 174 to 190 are the nucleotide sequences of the gRNA target sites.
[0100] SEQ ID NO: 191 is the nucleotide sequence of the nuclear localization signal (NLS) from the tomato heat stress transcription factor HSFA1.
[0101] SEQ ID NO: 192 is the nucleotide sequence of the polyubiquitin promoter from Zea mays Cv. Mexicana.
[0102] SEQ ID NO: 193 is the 3'UTR sequence of lipid transfer protein from Oryza sativa.
[0103] SEQ ID NO: 194 is the 36 nucleotide upstream pre-crRNA scaffold (also called direct repeat) sequence.
[0104] SEQ ID NOs: 195-211 are 21-nucleotide gRNA spacer sequences corresponding to SEQ ID NOs: 174-190.
[0105] SEQ ID NO:212 is the nucleotide sequence of corn event MON87429, which corresponds to the contiguous nucleotide sequence of 5' flanking corn genomic sequence plus the transgenic insert plus 3' flanking corn genomic sequence.
[0106] SEQ ID NO:213 is the nucleotide sequence of the transgenic insert in corn event MON87429.
[0107] SEQ ID NOs:214-217 are the 5' junction sequences in corn event MON87429.
[0108] SEQ ID NOs:218-221 are the 3' junction sequences in corn event MON87429. DETAILED DESCRIPTION OF THE INVENTION
[0109] The following definitions, explanations, and methods are provided to better define the present invention and to guide those of ordinary skill in the art in the practice of the present invention. Unless otherwise noted, terms are to be understood according to conventional usage by those of ordinary skill in the relevant art.
[0110] Herbicide tolerance is an important agronomic trait for effective weed control to maintain favorable crop growing conditions and crop yields, and is achieved by using modern plant biotechnology techniques to engineer herbicide-tolerance transgenes into crops. Maize event Zm_CSM63715 confers tolerance to PPO herbicides, providing an alternative mode of action for weed control and herbicide-tolerant weed management.
[0111] Maize event Zm_CSM63715 is presented. Event Zm_CSM63715 was produced by Agrobacterium-mediated transformation of embryonic explants derived from maize seeds with a DNA construct containing four transgene cassettes. The first cassette encoded protoporphyrinogen oxidase (PPO) from Enterobacter cloacae to confer resistance to PPO herbicides. The second cassette encoded 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS, also known as CP4) from Agrobacterium tumefaciens strain CP4 as a selectable marker for selection of transgenic events. The third cassette encoded Cpf1 nuclease from Lachnospiraceae bacterium ND2006 (LbCpf1 or LBCas12a) for site-specific integration of the transgene. The fourth cassette encoded a gRNA to target the Cpf1 nuclease to its target region in the maize genome. The CP4, Cpf1, and gRNA cassettes were flanked by two lox sites, which were removed when crossed to a transgenic maize line producing the Cre enzyme.
[0112] Plant transformation techniques, such as Agrobacterium-mediated or biolistic transformation, can be used to randomly insert foreign DNA (also known as transgenic DNA) into plant cell chromosomes to produce genetically engineered plant cells, also called "transgenic" or "recombinant" cells. These transformation techniques can be used to transform many individual cells, each of which produces a unique "transgenic event" or "event" resulting from the random insertion of foreign DNA into the genome. Transgenic plants can then be regenerated from the individual transgenic cells. As a result, all cells of the transgenic plant contain the uniquely inserted transgenic event as a stable part of its genome. The transgenic plants can then be used to produce progeny plants, each of which contains a unique transgenic event. The term "transgenic" refers to a plant, plant part, plant cell, seed, progeny plant, or DNA molecule, construct, or sequence containing a transgene. For example, a "transgenic cell" refers to a cell containing a transgene.
[0113] The corn event Zm_CSM63715 was produced and identified through a complex research and development process. This process included: (i) design and selection of a DNA construct containing four transgene cassettes based on the design and testing of individual transgene cassettes with different expression element combinations; (ii) identification and screening of different transgene target sites, followed by design and testing of different guide RNAs for efficient cleavage at the target sites; (iii) transformation of thousands of corn cells with the DNA construct; (iv) regeneration of numerous transgenic events; and (v) rigorous multi-year construct and event selection involving molecular characterization of numerous transgenic events and greenhouse and field testing for herbicide resistance efficacy and agronomic performance in different locations and geographies. The corn event Zm_CSM63715 was thus produced and selected as a unique, superior event useful for large-scale agronomic commercial purposes. Figure 3 shows the approximate timeline of research, testing, and development leading to the selection of the commercial corn event Zm_CSM63715.
[0114] Detailed molecular characterization was performed on the transgenic event. Event Zm_CSM63715 was selected based on stringent molecular criteria as well as other selection criteria, such as herbicide resistance efficacy and agronomic productivity. Results from this molecular analysis confirmed the following: (1) Event Zm_CSM63715 contains a single T-DNA segment inserted at the target site, with one copy of the transgenic insert containing only the PPO cassette. (2) Other than the PPO expression cassette and one lox site between the left and right borders of the T-DNA, no additional elements from the transformation construct, such as the transformation construct backbone sequence or the CP4, Cpf1, and gRNA cassettes, are present. (3) The transgenic DNA was inserted into an intergenic region, far from any endogenous genes or repetitive regions. (4) The transgenic event produced transcripts and proteins of sizes consistent with the PPO transgene by Northern and Western hybridization, respectively. (5) The event did not contain a Cre cassette. Furthermore, DNA sequence analysis was performed to (1) determine the 5' and 3' transgenic insert-to-plant genomic junctions, (2) confirm the organization of elements within the insert, (3) verify the complete nucleotide sequence (SEQ ID NO: 9) of the inserted transgenic DNA, and (4) determine PPO protein levels in different tissues, such as leaves, roots, silk, and seeds, as well as in leaves, over multiple generations. Furthermore, primers and probes were designed and a thermal amplification assay was developed to produce specific amplicons used to diagnose the presence of event Zm_CSM63715 in a sample. As used herein, the 5' and 3' designations for the junction, direction, and side of the insertion of a transgenic event refer to the 5' to 3' direction of the transgene, with the 5' junction and genomic sequence being upstream of the transgene and the 3' junction and genomic sequence being downstream of the transgene.
[0115] As used herein, an "expression cassette" or "cassette" or "transgene cassette" is a recombinant DNA molecule or sequence that contains a combination of different elements for expressing RNA and / or protein encoded by the coding sequence of a transgene in a transformed plant cell or transformed plant that contains a transgene. As provided herein, an "expression cassette" or "cassette" or "transgene cassette" comprises one or more regulatory element(s) operably linked to a coding or transcribable DNA sequence. The regulatory elements may include a promoter, leader, 5' untranslated region (5' UTR), introns, and / or 3' untranslated region (3' UTR) region. An "expression cassette" or "cassette" or "transgene cassette" is recombinant and heterologous with respect to the transformed plant cell genome. For purposes of this disclosure, such an "expression cassette" or "cassette" or "transgene cassette" is a recombinant DNA molecule or sequence that encodes a protein to confer tolerance to at least one class of herbicide as described herein. Table 1A provides a list of the genetic elements contained in the transgene cassette in the transgenic insert of corn event Zm_CSM63715 (SEQ ID NO: 9).
[0116] Insertion of transgenic DNA into the genome of a corn plant is accomplished by plant transformation methods known in the art, creating a new transgenic genomic DNA sequence known as a "transgenic event" or "event." The DNA sequence of the event consists of the inserted foreign DNA (termed the "transgenic insert") and genomic DNA adjacent to, or "flanking," the transgenic insert on either side of the insertion site. As used herein, the term "flanking," with respect to a transgenic event, refers to the plant's genomic sequence(s) adjacent to the transgenic DNA insert in the genome of the transformed plant, plant part, plant tissue, or plant cell that contains the transgenic event at the 5' and / or 3' end(s) of the transgenic event's insertion. Similarly, "flanking DNA" refers to a length of genomic DNA sequence adjacent to the transgenic DNA insert in the genome of the transformation event at the 5' and / or 3' end(s) of the insertion. Thus, "5'-flanking" refers to maize genomic DNA sequences adjacent to and upstream (or 5'-terminal) of the transgenic DNA insert. For example, "5'-flanking" can include maize genomic DNA sequences immediately adjacent and upstream (5'-terminal) of the transgenic insert, or any maize genomic DNA sequence upstream (5'-terminal) of the transgenic insert that is not immediately adjacent to the transgenic insert but is within about 5000, 3000, or 1000 nucleotides upstream of the transgenic insert. Similarly, "3'-flanking" refers to maize genomic DNA sequences adjacent to and downstream (or 3'-terminal) of the transgenic insert.For example, "3'-flanking" can include corn genomic DNA sequences immediately adjacent and downstream (toward the 3' end) of the transgenic insert, or any corn genomic DNA sequence downstream (toward the 3' end) of the transgenic insert that is not immediately adjacent to the transgenic insert but is within about 5,000, 3,000, or 1,000 nucleotides downstream of the transgenic insert. The DNA sequence of an event is unique and specific to the event and can be readily identified when compared to other DNA sequences, for example, sequences of other events or sequences of untransformed corn genomic DNA. Corn event Zm_CSM63715 has a novel and unique DNA sequence provided as SEQ ID NO: 10, which comprises contiguous sequences including the 5' corn genomic flanking sequence provided as SEQ ID NO: 11, the transgenic insert sequence provided as SEQ ID NO: 9, and the 3' corn genomic flanking sequence provided as SEQ ID NO: 12 (Figure 1). Thus, corn event Zm_CSM63715 is an integral part of the chromosomes of transgenic corn cells and plants containing the event, and is therefore a DNA molecule that can be fixed and passed on to progeny cells and plants. As further described in the Examples below, various gene editing tools exist that allow for modification of the transgenic insert and / or adjacent genomic DNA of corn event Zm_CSM63715, e.g., deletion, insertion, transposition, or substitution of nucleic acid sequence(s), yet the event is specifically characterized by the presence of heterologous DNA at a specific location within the genome occupied by corn event Zm_CSM63715 relative to the adjacent regions of the native corn genome. [Table 1-1] [Table 1-2]
[0117] Progeny of the original transformed cells and plants containing the corn event Zm_CSM63715 are provided. Such progeny can be produced by selfing a corn plant containing the corn event Zm_CSM63715, or by sex-crossing or outcrossing between a corn plant containing the corn event Zm_CSM63715 and another plant that may or may not contain the event, or by any other method known in the art, including any plant cell or tissue culture method, and the progeny contain the corn event Zm_CSM63715. The other plant may be a transgenic or non-transgenic plant containing the same and / or different event(s), and each parent plant in a cross or outcross may be the same germplasm or breeding line or a different germplasm or breeding line. The corn event Zm_CSM63715 is passed down through each generation from the original parent to the progeny. A "transgenic plant" or "plant" may therefore be the original transformed plant regenerated from a transformed plant cell and containing transgenic DNA and events, or a progeny plant of the original transformed plant, which may be separated from the transformant one or more times over and retains the transgenic DNA and events in the same specific location and sequence relationship within the plant's genome. The transformant or progeny plant may be homozygous or heterozygous for event Zm_CSM63715. Furthermore, a "transgenic plant" may include a plant having a transgene stably inserted into the genome of at least one cell of the plant (i.e., corn event Zm_CSM63715 in at least one cell of the plant), and the plant may be chimeric or non-chimeric with respect to the transgene and / or event. A transgenic plant is chimeric with respect to a transgene if not all cells of the plant contain the transgene.
[0118] This disclosure describes the introduction of event Zm_CSM63715 into corn, and thus the term "corn event Zm_CSM63715" is used herein to refer to that event. However, one of skill in the art will understand that event Zm_CSM63715 can be introduced into other varieties or related corn species, such as Zea diploperennis, Zea perennis, Zea luxurians, and Zea nicaraguensis, by crossing.
[0119] Corn event Zm_CSM63715 provides tolerance to PPO herbicides to corn cells, plants, plant parts, seeds, and progeny containing the event. The terms "PPO herbicide," "PPO inhibitor," and "PPO-inhibiting herbicide" are used interchangeably herein and refer to chemical agents that target and inhibit the enzymatic activity of protoporphyrinogen oxidase (PPO).Corn Event Zm_CSM63715 is a compound containing flumioxazin, epirifenacil (also known as S-3100 or lapidisil, IUPAC name: ethyl [(3-{2-chloro-5-[3,6-dihydro-3-methyl-2,6-dioxo-4-(trifluoromethyl)pyrimidin-1(2H)-yl]-4-fluorophenoxy}-2-pyridyl)oxy]acetate), lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2- Chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-di oxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-di and provides tolerance to various PPO herbicides, including, but not limited to, 2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate (flufenoximacil), cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine.
[0120] Maize event Zm_CSM63715 is characterized as a single-copy insertion at a site-specific locus in the maize genome, resulting in two new loci or junction sequences (e.g., the sequences set forth in SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, and SEQ ID NO:8) spanning the inserted DNA and portions of the maize genomic DNA that are not known to naturally appear or exist in the maize genome or other transgenic maize events, i.e., are unique to event Zm_CSM63715. SEQ ID NO:1, SEQ ID NO:3, SEQ ID NO:5, and SEQ ID NO:7 span the 5' junction of the maize genomic sequence and the transgenic DNA insert, and SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, and SEQ ID NO:8 span the 3' junction. These junction sequences are useful for detecting the presence of event Zm_CSM63715 in maize cells, seeds, plants, plant parts, progeny, and plant products, such as commercial maize crops. Polynucleotide or DNA molecular probes and / or primer pairs are described herein for use in identifying the presence of these various junction sequences in biological samples that contain, are derived from, or are suspected to contain or be derived from corn cells, seeds, plants, plant parts, progeny, or commercial products containing event Zm_CSM63715.
[0121] As used herein, the term "derived from" or "derived from" in reference to a particular DNA molecule, amplicon, or sequence in the context of a corn plant, plant part, seed, progeny, cell, and / or corn plant product, e.g., a commodity product, means that the DNA molecule, amplicon, or sequence is obtained, purified, isolated, or produced, directly or indirectly, from such corn plant, plant part, seed, progeny, cell, and / or corn plant product, e.g., a commodity product. Alternatively, the term "derived from" or "derived from" in reference to a corn plant, plant part, seed, progeny, or cell in reference to a corn plant product, e.g., a commodity product, means that the corn plant product is obtained, purified, isolated, or produced, directly or indirectly, from such corn plant, plant part, seed, progeny, or cell.
[0122] "Detectable" refers to the ability of a particular DNA molecule, segment, or sequence to be detected in a sample by amplification and determination of its presence, size, or sequence, e.g., DNA sequence analysis, and / or binding of a probe to said target DNA molecule, segment, or sequence.
[0123] The term "sample" is intended to refer to any composition that contains or is derived, either directly or indirectly, from a biological sample, source, or material. The sample may generally contain corn DNA and / or substantially or completely pure, purified, or isolated corn DNA. A "biological sample" includes biological materials, including, but not limited to, DNA obtained or derived directly or indirectly from the genome of corn cells, tissues, seeds, plants, plant parts, and / or corn plant product(s), e.g., commodity product(s). Such corn cells, tissues, seeds, plants, plant parts, and / or corn plant product(s), e.g., commodity product(s), may contain corn event Zm_CSM63715, or DNA molecule(s) and / or DNA segment(s) comprising corn event Zm_CSM63715. In some embodiments, the sample or biological sample may include corn cell(s), corn tissue(s), corn seed(s), corn plant(s), corn plant part(s), and / or corn plant product(s), whose cells or cell membranes have been disrupted (e.g., broken or opened) to release the contents of the corn cell(s), including genomic DNA or proteins, and / or to make the contents of the corn cell(s), including genomic DNA or proteins, accessible or usable for assay or testing. "Directly" refers to obtaining DNA directly from the corn genome by dividing the corn cells (or by obtaining a corn sample containing divided corn cells) to expose or use genomic DNA or proteins from the corn cells for purposes of detection."Indirectly" refers to obtaining the target or specific reference DNA in a particular sample (e.g., the novel and unique junction segment(s) described herein as diagnostic of the presence of Event Zm_CSM63715) by means other than directly obtaining it through disruption of corn cells or by obtaining a corn sample containing disrupted corn cells. Such indirect means include, but are not limited to, amplification of a DNA segment containing a DNA sequence targeted by a specific probe(s) and / or primer set(s), or amplification of a DNA segment containing all or a portion of a target sequence that can be measured and characterized (e.g., measured by migration or separation from other segments and / or identification of DNA in an effective matrix such as an agarose or acrylamide gel, or characterized by direct sequence analysis of the amplicon(s)), or cloning of the amplicon(s) into vector(s) and direct sequencing of the inserted amplicon(s) present within such vector(s).
[0124] As used herein, the term "recombinant" refers to non-naturally occurring DNA, protein, combination, or organism created by human intervention that is not normally found or exists in nature. As used herein, a "recombinant DNA molecule" is a DNA molecule that contains a combination of DNA molecules that do not occur together in nature and are the result of human intervention. Two or more elements of such a combination of DNA sequences may be operably linked to each other. For example, a recombinant DNA molecule may include a combination of at least two DNA molecules that are heterologous to each other, such as a DNA molecule comprising a coding sequence operably linked to a heterologous promoter and / or other regulatory expression element(s), and / or a transgene, and heterologous plant genomic DNA flanking the transgene, and / or a DNA molecule that includes a polynucleotide sequence that is artificially synthesized and deviates from any polynucleotide sequence that normally occurs in nature. A recombinant DNA molecule may include all or a portion of the junction sequence of the event's genome, and all or a portion of the transgenic insert of the event's genome, and / or may include recombinant or heterologous DNA fragments of corn event Zm_CSM63715. Examples of recombinant DNA molecules include DNA molecules comprising at least one polynucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, and SEQ ID NO:10, polynucleotides having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9, as well as the complete complement of any of the above. Such recombinant DNA molecules can be derived from corn plants, seeds, plant parts, plant cells, progeny plants, or commercial products comprising corn event Zm_CSM63715.Alternatively, such recombinant DNA molecules can be contained in corn plants, seeds, plant parts, plant cells, or progeny plants containing corn event Zm_CSM63715, or commercial products produced therefrom. A representative sample of seeds containing corn event Zm_CSM63715 has been deposited under ATCC Accession No. PTA-127361. Such recombinant DNA molecules can be formed by inserting a heterologous nucleic acid molecule into the genomic DNA of a corn plant or corn cell. Such recombinant DNA molecules can be amplicons used to diagnose the presence of corn event Zm_CSM63715.
[0125] As used herein, a "recombinant" with respect to a plant, plant part, seed, plant cell, or progeny is a plant, plant part, seed, plant cell, or progeny that does not normally occur in nature, is the result of human intervention, and contains a transgenic DNA molecule stably integrated into the genome of the plant, plant part, seed, plant cell, or progeny. As a result of such genomic insertion, the recombinant or transgenic plant, plant part, seed, plant cell, or progeny is novel and distinct from any related wild-type or naturally occurring plant, plant part, seed, plant cell, or progeny. An example of a recombinant plant is a corn plant containing the corn event Zm_CSM63715.
[0126] As used herein, the term "transgene" refers to a DNA molecule that has been artificially integrated into the genome of an organism as a result of human intervention, for example, by plant transformation methods. The transgene may be heterologous to the organism. As used herein, the term "transgenic insert" refers to foreign or heterologous DNA that has been inserted into the maize genome by plant transformation techniques to produce the maize event Zm_CSM63715. The sequence of the transgenic insert of the maize event Zm_CSM63715 is provided as SEQ ID NO:9.
[0127] As used herein, the term "heterologous," with respect to a combination of two or more DNA sequences or elements, means that the two or more DNA sequences or elements do not normally exist together in such a combination in nature without human intervention. For example, a DNA molecule can be derived from a first species or a recombinant DNA molecule and inserted into the genome of a second species. The DNA molecule is therefore heterologous to the genome and organism. As used herein, the term "heterologous," with respect to a DNA molecule, construct, sequence, or protein associated with a plant, microorganism, plant cell, or plant genome, means that the DNA molecule, construct, sequence, or protein does not naturally exist as part of such plant, microorganism, plant cell, or plant genome and / or does not naturally exist in the same physical or genomic location, context, or orientation as part of such plant, microorganism, plant cell, or plant genome without human intervention.
[0128] As used herein, the term "chimera" refers to a single DNA molecule produced by fusing a first DNA molecule to a second DNA molecule, where neither the first nor the second DNA molecule is normally found fused to the other. Thus, the chimeric DNA molecule is a novel DNA molecule not normally found in nature. An example of a chimeric DNA molecule is a DNA molecule containing at least one sequence selected from SEQ ID NOs: 1-10.
[0129] As used herein, the term "isolated" with respect to a molecule means that the molecule is at least partially separated from other molecules with which it is normally associated in its native or natural state. In some embodiments, the term "isolated" refers to a DNA molecule that has been at least partially separated from nucleic acids or polynucleotides or DNA sequence(s) that normally flank and covalently link the sequence of the DNA molecule in its native or natural state. An "isolated" DNA molecule may have a DNA sequence corresponding to a portion of the genome of a plant cell that is free from other genomic DNA sequence(s) that normally flank and covalently link the native DNA sequence. Such an "isolated" DNA molecule may contain all or a portion of a transgene and / or transgenic event, which may include the corn event Zm_CSM63715 described herein or all or a portion of a transgene or expression cassette. A nucleic acid sequence or element naturally found in the DNA of the genome of an organism, e.g., a coding sequence, intron sequence, 5' UTR, promoter sequence, 3' UTR, etc., is not considered "isolated" so long as the element is in the genome of the organism and in the location in the genome in which it is naturally found. However, each of these elements, and subportions of these elements, is "isolated" within the scope of this disclosure so long as the element or subportion is not within the genome of an organism and is not in the location in the genome of the organism in which the element or subportion is found in nature. An "isolated" DNA molecule may be any recombinant DNA molecule or amplification product or amplicon, and / or may include any DNA sequence that has been removed from its natural or biological state and covalently fused to another DNA molecule or sequence with which it is not naturally associated. Such isolated DNA molecules may be created by using biotechnology techniques, for example, by making recombinant DNA or by integrating a foreign or heterologous DNA molecule into the chromosome of a cell, plant, or seed.Thus, any DNA molecule containing a transgenic, recombinant, chimeric, or artificial nucleotide sequence, transgene, or expression cassette, whether or not these sequences, transgene, or expression cassette are present in the genome of a plant, plant part, plant tissue, plant cell, or progeny, in a plasmid, vector, or construct used to transform a plant cell, or present in detectable amounts in a tissue, progeny, biological sample, or commercial product derived from the plant, plant part, plant tissue, progeny, or plant cell, is considered to be an "isolated" DNA molecule because these sequences do not occur in nature. Recombinant DNA molecules or sequences containing all or a portion of the transgene or junction sequence of the corn event Zm_CSM63715, or any fragment derived therefrom, are therefore similarly considered to be "isolated." An "isolated" DNA molecule may be extracted or purified from transgenic plant(s), plant part(s), plant cell(s) and / or tissue(s), or may be present in a homogenate, extract or lysate from such transgenic plant(s), plant part(s), plant cell(s) and / or tissue(s), or may be produced as an amplicon or amplification product from plant genomic DNA and / or from DNA extracted or purified from transgenic plant(s), plant part(s), plant cell(s) and / or tissue(s), or a homogenate, extract or lysate from the plant(s), plant part(s), plant cell(s) and / or tissue(s). For the purposes of this disclosure, any transgenic polynucleotide or DNA sequence, i.e., a nucleotide sequence of DNA that is inserted into the genome of a plant or bacterium or that is present in an extrachromosomal vector, is considered to be an "isolated" nucleotide or DNA sequence, whether it is present in a plasmid or similar structure used to transform the cell, present in the genome of the plant or bacterium, or present in detectable amounts in tissues, progeny, biological samples, or commercial products derived from the plant or bacterium.An "isolated" DNA molecule is a chemical or biochemical molecule, regardless of whether the molecule is referred to as a nucleic acid, a nucleic acid sequence, a polynucleotide sequence, a DNA sequence, a nucleic acid molecule, a polynucleotide molecule, a DNA molecule, etc. An "isolated" molecule can provide industrial applicability when present in a plant cell or plant genome, or when present outside a plant cell, thus providing and offering (and is intended to provide and offer) utility regardless of where the molecule is located.
[0130] As used herein, terms such as "corresponding" or "corresponding," when used in the context of a nucleotide position, mutation, insertion, and / or substitution in any given polynucleotide (e.g., SEQ ID NO: 9) relative to a reference polynucleotide sequence (e.g., SEQ ID NO: 10), refer to the position(s) of the polynucleotide residue(s) in the given sequence that have identity to the residue(s) in the reference nucleotide sequence when the given polynucleotide is aligned to the reference polynucleotide sequence using a global or local sequence alignment algorithm.
[0131] DNA molecules, fragments, and their corresponding DNA sequences, as well as detection methods, are provided. As used herein, the terms "DNA," "DNA molecule," and "nucleic acid molecule" refer to deoxyribonucleic acid (DNA) molecules. DNA molecules may be of genomic or synthetic origin and / or may comprise recombinant or heterologous DNA molecules or sequences. DNA molecules may, by convention, be written from the 5' (upstream) end to the 3' (downstream) end. As used herein, the term "DNA sequence" refers to the polynucleotide sequence of a DNA molecule, i.e., the sequence of consecutive nucleotides within a DNA molecule. As used herein with respect to the nucleotides of a polynucleotide or DNA sequence or molecule, the terms "consecutive" and "contiguous" are interchangeable and synonymous and refer to nucleotides in 5' to 3' order within a polynucleotide or DNA sequence, strand, or molecule, with no gaps or interruptions between them. The nomenclature used is that required by 37 CFR § 1.822 and set forth in WIPO Standard ST.25 (1998) Annex 2, Tables 1 and 3. By convention, DNA sequences and fragments thereof are disclosed with reference to the 5' to 3' direction of only one of the two complementary DNA sequence strands of a DNA molecule. By implication and intent, complementary sequences (sequences of the complementary strand) of the sequences provided herein, also referred to in the art as reverse complementary or reverse complement sequences, are expressly intended to be within the scope of this disclosure and the claimed subject matter. As used herein, references to SEQ ID NOS: 1-10 and fragments thereof include and refer to the sequences of the complementary strand and fragments thereof.
[0132] Also provided is a nucleic acid molecule comprising a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the entire length of any one of SEQ ID NOs: 1-10.
[0133] For example, nucleic acid molecules are provided that include a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9.
[0134] DNA molecules, or fragments derived therefrom, can also be extracted from the plant(s), plant part(s), seed(s), progeny or plant cell(s), or homogenates, extracts or lysates from the plant(s), plant part(s), plant cell(s) or seed(s) or progeny, or can be produced as amplicons from DNA extracted, purified or isolated from the plant part(s), plant cell(s) and / or tissue(s), progeny, or homogenates, extracts or lysates from the plant(s), plant part(s), plant cell(s), progeny and / or seeds, which may further comprise the maize event Zm_CSM63715.
[0135] As used herein, the term "percent sequence identity" or "% sequence identity" refers to the percentage of identical nucleotides or amino acids in a linear polynucleotide or polypeptide sequence of a reference ("query") sequence (or its complement) compared to a test ("subject") sequence (or its complement) when the two sequences are optimally aligned (with appropriate nucleotide or amino acid insertions, deletions, or gaps totaling less than 20 percent of the reference sequence over the comparison window). Optimal alignment of sequences over a comparison window is well known to those skilled in the art and may be performed, for example, using default parameters, by tools such as the Smith and Waterman local homology algorithm, the Needleman and Wunsch homology alignment algorithm, the Pearson and Lipman similarity search method, and by computer implementations of these algorithms, such as GAP, BESTFIT, FASTA, and TFASTA, available as part of the sequence analysis software package GCG® Wisconsin Package® (Accelrys Inc., San Diego, Calif.), MEGAlign (DNAStar Inc., 1228 S. Park St., Madison, Wis. 53715), and MUSCLE (version 3.6) (Edgar, "MUSCLE: multiple sequence alignment with high accuracy and high throughput" Nucleic Acids Research 32(5):1792-7 (2004)). The "identity fraction" for an aligned segment of a test sequence and a reference sequence is the number of identical elements shared by the two aligned sequences in the portion of the segment of the reference sequence that is being aligned, i.e., the entire reference sequence or a smaller, defined portion of the reference sequence, divided by the total number of elements. Percent sequence identity is expressed as the percent identity multiplied by 100. Comparison of one or more sequences can be to the full-length sequence, a portion thereof, or to a longer sequence.Within the scope of the present disclosure are corn plants, progeny, seeds, cells, plant parts and commercial products that contain a detectable amount of a polynucleotide having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9.
[0136] As used herein, the term "fragment" refers to a smaller piece or sequence of a larger or entire DNA molecule or sequence. For example, a fragment of any one of SEQ ID NOs: 1-12 and 164-165 may be a fragment of at least about 10 contiguous nucleotides, at least about 11 contiguous nucleotides, at least about 12 contiguous nucleotides, at least about 13 contiguous nucleotides, at least about 14 contiguous nucleotides, at least about 15 contiguous nucleotides, at least about 16 contiguous nucleotides, at least about 17 contiguous nucleotides, at least about 18 contiguous nucleotides, at least about 19 contiguous nucleotides, at least about 20 contiguous nucleotides, at least about 21 contiguous nucleotides, at least about 22 contiguous nucleotides, at least about 23 contiguous nucleotides, at least about 24 contiguous nucleotides of the larger, entire, or complete DNA molecule or sequence. The nucleotide sequence may comprise a sequence that is at least about 25 contiguous nucleotides, at least about 30 contiguous nucleotides, at least about 35 contiguous nucleotides, at least about 40 contiguous nucleotides, at least about 45 contiguous nucleotides, at least about 50 contiguous nucleotides, at least about 60 contiguous nucleotides, at least about 70 contiguous nucleotides, at least about 80 contiguous nucleotides, at least about 90 contiguous nucleotides, at least about 100 contiguous nucleotides, at least about 150 contiguous nucleotides, at least about 200 contiguous nucleotides, at least about 250 contiguous nucleotides, at least about 300 contiguous nucleotides, at least about 400 contiguous nucleotides, or at least about 500 contiguous nucleotides.
[0137] For example, a "fragment" of the transgenic insert sequence of corn event Zm_CSM63715 (SEQ ID NO:9) can comprise at least about 10, at least about 11, at least about 12, at least about 13, at least about 14, at least about 15, at least about 16, at least about 17, at least about 18, at least about 19, at least about 20, at least about 21, at least about 22, at least about 23, at least about 24, at least about 25, at least about 30, at least about 35, at least about 40, at least about 45, at least about 50, at least about 60, at least about 70, at least about 80, at least about 90, at least about 100, at least about 150, at least about 200, at least about 250, at least about 300, at least about 400, or at least about 500 contiguous nucleotides of SEQ ID NO:9. Additionally, the present disclosure encompasses nucleotide sequences that are at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8% or at least 99.9% identical to SEQ ID NO:9 or any fragment thereof.
[0138] Similarly, a fragment of the 5' flank (SEQ ID NO:11 or SEQ ID NO:164) or 3' flank (SEQ ID NO:12 or SEQ ID NO:165) of maize event Zm_CSM63715 can comprise at least about 10, at least about 11, at least about 12, at least about 13, at least about 14, at least about 15, at least about 16, at least about 17, at least about 18, at least about 19, at least about 20, at least about 21, at least about 22, at least about 23, at least about 24, at least about 25, at least about 30, at least about 35, at least about 40, at least about 45, at least about 50, at least about 60, at least about 70, at least about 80, at least about 90, at least about 100, at least about 150, at least about 200, at least about 250, at least about 300, at least about 400, or at least about 500 consecutive nucleotides of SEQ ID NO:11 or SEQ ID NO:164, or SEQ ID NO:12 or SEQ ID NO:165. Additionally, the present disclosure encompasses nucleotide sequences that are at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8% or at least 99.9% identical to SEQ ID NO:11 or SEQ ID NO:12, or SEQ ID NO:164 or SEQ ID NO:165, or any fragment of any of them.
[0139] As used herein, the term "about" is understood as the equivalent of a stated value and indicates a value or range of values that may be greater than or less than the stated value or range of values. Each value or range of values preceded by the term "about" is also intended to encompass the embodiment of the stated absolute value or range of values.
[0140] The term "or" is used herein to mean "and / or" unless expressly indicated to refer to alternatives only or the alternatives are not mutually exclusive. Thus, the term "and / or" as used herein in phrases such as "X and / or Y" is intended to include "X and Y," "X or Y," "X" (alone), and "Y" (alone). Similarly, the term "and / or" as used in phrases such as "X, Y, and / or Z" is intended to encompass each of the following embodiments: X (alone); Y (alone); Z (alone); X and Y; X and Z; Y and Z; X, Y, and Z; X, Y, or Z; X or Z; Y or Z; Y or Z.
[0141] When used in conjunction with the word "comprise" or other open language, the words "a" and "an" mean "one or more" unless expressly noted otherwise. The terms "comprise," "having," and "include" are open-ended linking verbs. Any form or tense of one or more of these verbs, such as "comprises," "comprising," "have," "having," "includes," and "including," are also open-ended. For example, any method that "comprises," "has," or "includes" one or more steps is not limited to having only those one or more steps, but also encompasses other unlisted steps.
[0142] Maize event Zm_CSM63715 is characterized as a transgenic insertion into a locus within the maize genome, resulting in two new junctions (or junctions or connection points). The DNA sequence of the region spanning the phosphodiester bond connection of one end of the transgenic insert to the adjacent maize genomic DNA is referred to herein as a "junction." In other words, a junction is the point of connection or covalent linkage of one end of the transgenic insert and the adjacent genomic DNA as one continuous molecule, formed by the insertion of a heterologous nucleic acid molecule into the maize genomic DNA. One junction is found at the 5' end of the transgenic insert, and the other is found at the 3' end of the transgenic insert, referred to herein as the 5' and 3' junctions, respectively. A "junction sequence" refers to a DNA sequence of contiguous nucleotides of any length spanning the 5' or 3' junction of a transgenic event within a plant genome. In the case of a "junction sequence" specific to the junction between a transgenic event and an adjacent genomic sequence, the junction sequence generally includes a sufficient number of contiguous nucleotides at one end of the insertion and a sufficient number of contiguous nucleotides of the adjacent genomic sequence.According to some embodiments, a "junction sequence" comprises (i) at least five (5) contiguous nucleotides, at least ten (10) contiguous nucleotides, at least fifteen (15) contiguous nucleotides, at least twenty (20) contiguous nucleotides, at least twenty-five (25) contiguous nucleotides, at least thirty (30) contiguous nucleotides, at least thirty-five (35) contiguous nucleotides, at least forty (40) contiguous nucleotides, at least forty-five (45) contiguous nucleotides, or at least fifty (50) contiguous nucleotides of the flanking genomic DNA sequence; A junction sequence may comprise at least 10 (10) contiguous nucleotides, at least 15 (15) contiguous nucleotides, at least 20 (25) contiguous nucleotides, at least 25 (25) contiguous nucleotides, at least 30 (30) contiguous nucleotides, at least 35 (35) contiguous nucleotides, at least 40 (40) contiguous nucleotides, at least 45 (45) contiguous nucleotides, or at least 50 (50) contiguous nucleotides, although it is understood that any length of contiguous nucleotides spanning the junction of the transgenic event in the plant genome can be a junction sequence. The junction sequence of corn event Zm_CSM63715 will be apparent to one of skill in the art, and various junction sequences for corn event Zm_CSM63715 can be identified by one of skill in the art using SEQ ID NO:10. In SEQ ID NO:10, the 5' junction is at nucleotides 1,000-1,001, and the 3' junction is at nucleotides 4,552-4,553. Exemplary junction sequences for corn event Zm_CSM63715 are provided as SEQ ID NOs: 1-8. Figure 1 shows the physical layout and location of exemplary junction sequences arranged 5' to 3' (left to right) relative to SEQ ID NO: 10. The DNA sequence of the transgenic insert for corn event Zm_CSM63715 is provided as SEQ ID NO: 9. The DNA sequences of the transgenic insert and corn genomic DNA flanking the transgenic insert are provided as SEQ ID NO: 10. The 5' junction sequences are provided as SEQ ID NO: 1, SEQ ID NO: 3, SEQ ID NO: 5, and SEQ ID NO: 7.The 3' junction sequences are provided as SEQ ID NO:2, SEQ ID NO:4, SEQ ID NO:6, and SEQ ID NO:8. The junction sequence of corn event Zm_CSM63715 can be present as part of the genome of a plant, seed, plant part, progeny, or plant cell that contains corn event Zm_CSM63715, a DNA molecule that contains all or a portion of event Zm_CSM63715. Identification of any one or more of the junction sequences in a DNA molecule or sample from a plant, plant part, seed, progeny, cell, or commercial product indicates that the DNA molecule or plant, plant part, seed, progeny, cell, or commercial product contains or comprises event Zm_CSM63715 or was obtained from a corn plant, plant part, seed, progeny, cell, or commercial product containing or comprising event Zm_CSM63715, and is used to diagnose the presence of corn event Zm_CSM63715.
[0143] The junction sequences described herein are used to diagnose the presence of all or a portion of the corn event Zm_CSM63715. Thus, direct or indirect identification or detection of one or more of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, and SEQ ID NO:10 in a sample or DNA molecule derived from a corn plant, plant part, seed, progeny, cell, or commercial product is used to diagnose that the corn plant, plant part, seed, progeny, cell, or commercial product has or contains all or a portion of the corn event Zm_CSM63715. Direct or indirect identification or detection of the 5' junction sequence and / or the 3' junction sequence (each provided or described herein) in a sample or DNA molecule derived from a corn plant, plant part, seed, progeny, cell, or commercial product is used to diagnose that the corn plant, plant part, seed, progeny, cell, or commercial product has or contains the corn event Zm_CSM63715. The present disclosure therefore provides DNA molecules comprising at least one of the nucleotide sequences provided as SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, and SEQ ID NO:10. Any segment of DNA from transgenic corn event Zm_CSM63715 sufficient to include at least one of the sequences provided as SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, and SEQ ID NO:10 is within the scope of the present disclosure. Additionally, any DNA or polynucleotide molecule or sequence comprising a sequence complementary to any of the sequences described herein is also within the scope of the present disclosure.
[0144] Polynucleotide molecules are provided that can be single-stranded or double-stranded and can be used as either primers or probes to detect the presence of DNA containing all or a portion of event Zm_CSM63715 in samples derived from corn plants, plant parts, seeds, progeny, cells, or commercial products. Such primers or probes are specific for a target polynucleotide sequence and are therefore useful for identifying corn event Zm_CSM63715 nucleic acids using the methods described herein. The primers or probes can hybridize to a target polynucleotide sequence, allowing for the specific detection or amplification of polynucleotide molecules containing or covalently associated with the target polynucleotide sequence. The primers and / or probes can be selected to identify and distinguish the presence of a transgene in the plant genome, as well as the detection of a specific transgenic event. The target polynucleotide sequence can include all or a portion of corn event Zm_CSM63715, junction sequences, and / or adjacent genomic DNA. Probes and primers according to the present disclosure may have (i) perfect or 100% sequence complementarity (i.e., 100% complementarity) to the target polynucleotide sequence, or (ii) incomplete sequence complementarity to the target polynucleotide, such as at least 60%, at least 65%, at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, or at least 99% complementarity to the target polynucleotide sequence, so long as the probe or primer has sufficient complementarity to the target polynucleotide sequence to be suitable for use of the probe or primer in the relevant amplification or detection assay, reaction, or method and to hybridize with the target polynucleotide sequence under the requisite stringent hybridization conditions. As understood in the art, the percentage complementarity of a primer or probe may be lower if the length of the primer or probe is longer, which depends on the stringency and use.Provided are exemplary polynucleotide molecules that can be used as either primers or probes to detect the presence of corn event Zm_CSM63715 in a sample. Detecting the presence of corn event Zm_CSM63715 can be done using methods known in the art, such as thermal or isothermal amplification of nucleic acids or nucleic acid hybridization techniques (e.g., Northern and Southern analysis).
[0145] A "probe" is a nucleic acid molecule that is complementary to a strand of a target nucleic acid and is useful in hybridization detection methods. Probes include not only deoxyribonucleic acid or ribonucleic acid, but also polyamides and other probe materials that specifically bind to a target DNA sequence, and detection of such binding can be useful for detecting the presence or absence of the target DNA sequence. Probes can be conjugated to conventional detectable labels or reporter molecules, such as radioisotopes, ligands, chemiluminescent agents, or enzymes. Such probes are complementary to a strand of a target nucleic acid, and in this disclosure, a strand of DNA from event Zm_CSM63715, whether from a plant containing event Zm_CSM63715 or from a sample containing the DNA of event Zm_CSM63715.
[0146] Provided herein are DNA molecules comprising a polynucleotide segment of sufficient length to function as a DNA probe that specifically hybridizes to DNA of corn event Zm_CSM63715 in a sample under stringent hybridization conditions, wherein detecting hybridization of the DNA molecule under the stringent hybridization conditions is used to diagnose the presence of corn event Zm_CSM63715 in the sample. Also provided are DNA molecules comprising a polynucleotide segment of sufficient length to function as a DNA probe specific for detecting, in a sample, at least one of: (i) the 5' junction sequence between the adjacent corn genomic DNA and the transgenic insert of corn event Zm_CSM63715, (ii) the 3' junction sequence between the transgenic insert of corn event Zm_CSM63715 and the adjacent corn genomic DNA, (iii) SEQ ID NO:9, and (iv) a fragment of SEQ ID NO:9 comprising contiguous nucleotides of SEQ ID NO:9 of sufficient length to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715. An exemplary DNA sequence useful as a probe for detecting corn event Zm_CSM63715 is provided as SEQ ID NO: 16. Other DNA sequences useful as probes for detecting corn event Zm_CSM63715 include SEQ ID NO: 1, SEQ ID NO: 2, SEQ ID NO: 3, SEQ ID NO: 4, SEQ ID NO: 5, SEQ ID NO: 6, SEQ ID NO: 7, SEQ ID NO: 8, SEQ ID NO: 9, SEQ ID NO: 10, and complements of any of the above.
[0147] A "primer" is a DNA molecule or oligonucleotide designed for use in a specific annealing or hybridization method involving an in vitro amplification reaction. A pair of primers may be used with template DNA (such as a sample of corn event Zm_CSM63715 genomic DNA) in a thermal amplification reaction (such as polymerase chain reaction (PCR)) or any other suitable amplification method known in the art to produce an amplification product or amplicon, and the amplicon produced from such a reaction may have a DNA sequence corresponding to the sequence of the template DNA located between the two sites where the primers hybridize to the template DNA.
[0148] DNA amplification reactions, methods, and techniques are known to those skilled in the art. DNA amplification can be achieved by any of a variety of nucleic acid amplification methods known in the art, including thermal and isothermal amplification methods such as polymerase chain reaction (PCR) and loop-mediated isothermal amplification (LAMP). Amplification methods are known in the art, see, inter alia, U.S. Pat. Nos. 4,683,195 and 4,683,202, and PCR Protocols: A Guide to Methods and Applications, ed. Innis et al., Academic Press, San Diego, 1990. PCR amplification methods have been developed to amplify up to 22 kb (kilobases) of genomic DNA and up to 42 kb of bacteriophage DNA (Cheng et al., 1994). These methods, as well as other methods known in the art of DNA amplification, can be used in the practice of the present disclosure. Examples of DNA amplification methods include PCR, recombinase polymerase amplification (RPA) (see, e.g., U.S. Patent No. 7,485,428), strand displacement amplification (SDA) (see, e.g., U.S. Patent Nos. 5,455,166 and 5,470,723), transcription-mediated amplification (TMA) (see, e.g., Guatelli et al., 1990), rolling circle amplification (RCA) (see, e.g., Fire and Xu, 1995; Liu et al., 1996; Lizardi et al., 1998; U.S. Patent Nos. 5,714,320 and 6,235,502), helicase dependent amplification (HDA) (see, e.g., Vincent et al., 2004; U.S. Patent No. 7,282,328), multiple displacement amplification (MDA) (see, e.g., Dean et al., 2004; U.S. Patent No. 7,282,328), and multiple displacement amplification (MDA) (see, e.g., Dean et al., 2004). al., 2002), and Loop-Mediated Isothermal Amplification (LAMP) (see, e.g., Notomi et al., 2000).The sequence of the heterologous DNA insert and / or flanking genomic DNA sequences from corn event Zm_CSM63715 can be verified or tested by using primers derived from the sequences provided herein to amplify such DNA molecules from corn seeds containing event Zm_CSM63715 DNA or corn plants grown from corn seeds containing event Zm_CSM63715 DNA, followed by standard DNA sequencing of the PCR amplicon or cloned DNA fragments thereof.
[0149] As used herein, "amplification product" or "amplified DNA" or "amplicon" refers to a nucleic acid or DNA molecule or segment produced by a nucleic acid amplification reaction or method further described herein directed to a target nucleic acid or DNA molecule that is part of a template nucleic acid molecule. Amplification or amplifying refers to the production of multiple copies of a target DNA molecule or segment from a template DNA. For example, to determine whether a corn plant, plant part, seed, progeny, or plant cell resulting from selfing or outcrossing a parent containing corn event Zm_CSM63715 contains corn event Zm_CSM63715, DNA can be extracted from the corn plant tissue sample and subjected to an amplification reaction or method using a pair of primers specific for a target sequence specifically associated with or part of corn event Zm_CSM63715, such as a first primer derived from a genomic DNA sequence in a region adjacent to the heterologous inserted DNA of corn event Zm_CSM63715 that is extended by a polymerase in the 5' to 3' direction of the inserted DNA, and a second primer derived from the heterologous inserted DNA molecule that is extended by a polymerase in the 5' to 3' direction of the adjacent genomic DNA from which the first primer is derived. The length of the amplicon can vary depending on the length of the intervening polynucleotide or DNA sequence in the template DNA molecule between the target sequences of the two primers. Alternatively, primer pairs can be derived from genomic sequences on either side of the inserted heterologous DNA, such that an amplicon containing the entire inserted polynucleotide sequence is produced (e.g., a forward primer targeted to the portion of the genome at the 5' end of SEQ ID NO:10 (i.e., upstream of SEQ ID NO:9) and a reverse primer targeted to the portion of the genome at the 3' end of SEQ ID NO:10 (i.e., downstream of SEQ ID NO:9), which will amplify a DNA molecule containing the inserted DNA sequence (SEQ ID NO:9) identified herein in the genome of the corn event Zm_CSM63715. The use of the term "amplicon" specifically excludes primer dimers that may be formed during DNA amplification reactions.
[0150] Provided herein are pairs of DNA molecules comprising a first DNA molecule and a second DNA molecule, wherein the first and second DNA molecules comprise a fragment of SEQ ID NO: 10 or its complement, and when used together in an amplification reaction with DNA comprising corn event Zm_CSM63715, function as DNA primers to produce an amplicon for use in diagnosing corn event Zm_CSM63715 in a sample. For example, the first and second DNA molecules can comprise SEQ ID NO: 14 and SEQ ID NO: 15. The amplicons described herein can comprise a DNA sequence comprising one or more of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, or fragments of any of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, or SEQ ID NO:10, the fragment being at least 10 nucleotides in length and comprising nucleotides 1,000-1,001 or 4,552-4,553 of SEQ ID NO:10. According to this embodiment, the sequence of the amplicon comprises at least one junction sequence or two junction sequences, e.g., the 5' junction sequence and / or the 3' junction sequence, for the corn event Zm_CSM63715. Amplification and detection of such amplicons is used to indicate or diagnose the corn event Zm_CSM63715.
[0151] In practice, primers should be designed to produce amplicons within a limited size range, e.g., 100-1000 bases. Generally, amplicons of smaller size (shorter polynucleotide length) are more reliably produced in thermal amplification reactions, allow for shorter cycle times, and can be easily separated and visualized on agarose gels or adapted for use in end-point TaqMan®-like assays. Smaller amplicons can be produced and detected by DNA amplicon detection methods known in the art. Furthermore, amplicons produced using such primer pairs can be cloned into vectors, propagated, isolated, and sequenced, or directly sequenced using methods well known in the art. Any primer pair of forward and reverse primers, e.g., SEQ ID NOs: 14 and 15, that may correspond to or be complementary to a portion of SEQ ID NO: 10 and are useful in DNA amplification methods to produce amplicons for use in diagnosing the corn event Zm_CSM63715 or its progeny, is an embodiment of the present disclosure. Any single isolated DNA polynucleotide primer molecule comprising at least 15 contiguous nucleotides of SEQ ID NO: 10, or its complement, useful in DNA amplification methods to produce an amplicon for use in diagnosing corn event Zm_CSM63715 or its progeny, is an embodiment of the disclosure. Any single isolated DNA polynucleotide primer molecule comprising at least 15 contiguous nucleotides of SEQ ID NO: 11 or SEQ ID NO: 12, or its complement, useful in DNA amplification methods to produce an amplicon for use in diagnosing plants containing corn event Zm_CSM63715 or its progeny, is an embodiment of the disclosure. Any single isolated DNA polynucleotide primer molecule comprising at least 15 contiguous nucleotides of SEQ ID NO: 9, or its complement, useful in DNA amplification methods to produce an amplicon for use in diagnosing corn event Zm_CSM63715 or its progeny, is an embodiment of the disclosure.
[0152] Primers are usually designed to specifically hybridize with complementary target DNA strands and form hybrids between the primer and the target DNA strand.The hybridization or binding of a primer to a complementary target DNA strand is the recognition point for polymerase to initiate the extension of the primer (i.e., polymerizing additional nucleotides into an extended nucleotide molecule) using the target DNA strand as a template.A primer pair refers to the use of two primers that bind to opposite strands of a double-stranded nucleotide segment, usually in a thermal amplification reaction or other conventional nucleic acid amplification method, to amplify the polynucleotide segment between the positions targeted for binding by each of the primer pair.Primer pairs are usually designed to hybridize to different adjacent target positions of a template DNA molecule on opposite strands of the template DNA molecule, so that the intervening region or sequence between the two primers can be specifically amplified for use or detection through multiple rounds of amplification.
[0153] To detect the presence or absence of corn event Zm_CSM63715, the target location and / or intermediate region or sequence of the template DNA molecule can include at least one junction sequence and / or at least a portion of the insert of corn event Zm_CSM63715. To detect the absence of corn event Zm_CSM63715, the target location and / or intermediate region or sequence of the template DNA molecule can include corn genomic DNA that does not include any portion of the junction sequence or insert of corn event Zm_CSM63715. Thus, the presence or absence of an amplicon with a primer pair can be diagnostic of the presence or absence of corn event Zm_CSM63715 in a DNA molecule or sample, or vice versa. This may also be possible with two or more primer pairs. For example, a first primer pair may produce a first amplicon when corn event Zm_CSM63715 is present, and a second primer pair may produce a second amplicon when corn event Zm_CSM63715 is absent or not present. Alternatively, the size of the amplicon produced in the amplification reaction can be diagnostic of the presence or absence of corn event Zm_CSM63715 in a DNA molecule or sample, for example, if corn event Zm_CSM63715 is present, a primer pair can produce a first amplicon of a first size, and if corn event Zm_CSM63715 is absent or not present, a second amplicon of a second size, or if corn event Zm_CSM63715 is present, a first primer pair can produce a first amplicon of a first size, and if corn event Zm_CSM63715 is absent or not present, a second primer pair can produce a second amplicon of a second size. According to some of these embodiments, at least one of the primer pairs is used as an internal control, and at least two primer pairs not associated with corn event Zm_CSM63715 can be used.
[0154] According to this embodiment, a primer pair for detecting the presence or absence of all or a portion of corn event Zm_CSM63715 in a DNA molecule or sample comprises a first primer and a second primer, wherein the first primer is complementary to a 5' flanking genomic DNA sequence and the second primer is complementary to a sequence within the transgenic insert, or the first primer is complementary to a 5' flanking genomic DNA sequence and the second primer is complementary to a 3' flanking genomic DNA sequence, or the first primer is complementary to a sequence within the transgenic insert and the second primer is complementary to a 3' flanking genomic DNA sequence. Each reference in this paragraph to a primer complementary to a 5' flanking genomic DNA sequence, a 3' flanking genomic DNA sequence, or a sequence within the transgenic insert of corn event Zm_CSM63715 is also intended to potentially include a primer that is the reverse complement of the 5' flanking genomic DNA sequence, the 3' flanking genomic DNA sequence, or a sequence within the transgenic insert of corn event Zm_CSM63715, respectively.
[0155] Exemplary DNA molecules useful as primers are provided as SEQ ID NO: 14 and SEQ ID NO: 15. The primer pair of SEQ ID NO: 14 and SEQ ID NO: 15 can be useful as a first primer (corresponding to a sequence within the transgenic insert) and a second primer (complementary to a 3' flanking genomic DNA sequence), each having contiguous nucleotides of SEQ ID NO: 10, or a sequence complementary to SEQ ID NO: 10, of sufficient length to function as DNA primers that, when used together in an amplification reaction with template DNA from corn event Zm_CSM63715, hybridize to opposite strands of the template DNA and produce an amplicon that is diagnostic of the DNA of corn event Zm_CSM63715 in a sample. The primer pair of SEQ ID NO:20 (corresponding to the 5' flanking genomic DNA sequence) and SEQ ID NO:21 (complementary to the 3' flanking genomic DNA sequence) is useful as a first primer and a second primer, each of which has a locus of contiguous nucleotides of sufficient length within the corn genome to function as a DNA primer when used together in a thermal amplification reaction with template DNA to produce an amplicon that is indicative of wild-type DNA or diagnostic of the DNA zygosity of the Zm_CSM63715 event in a sample. The amplicon used to diagnose event Zm_CSM63715 contains a sequence that is not naturally found within the corn genome.
[0156] The primers may further comprise an oligo tail sequence, such as that used in the Kompetitive Allele-Specific PCR (KASP™) method. Each of the allele-specific primers carries a unique tail sequence corresponding to a universal FRET (fluorescence resonance energy transfer) cassette, one labeled with FAM™ dye and the other labeled with HEX™ dye. During thermal cycling, the associated allele-specific primer binds to the template and extends, attaching the tail sequence to the newly synthesized strand. The complement of the allele-specific tail sequence is then generated during subsequent rounds of PCR, allowing the FRET cassette to bind to DNA. The FRET cassette is no longer quenched and fluoresces.
[0157] Methods for designing and using primers and probes are well known in the art. DNA molecules comprising fragments of SEQ ID NOS: 1-10 are useful as primers and probes for detecting the corn event Zm_CSM63715 and can be readily designed by those skilled in the art using the sequences provided herein. Such probes and primers are selected to have sufficient length and sequence complementarity with the target sequence to specifically hybridize to the target sequence under stringent hybridization conditions. Probes and primers can have complete sequence complementarity or identity with the target sequence, but probes and primers that differ from the target sequence in terms of identity or complementarity but retain the ability to form a stable double-stranded structure and hybridize to the target sequence under specific hybridization or reaction conditions can be designed using conventional methods.
[0158] Any conventional nucleic acid hybridization or amplification method can be used to identify or detect the presence of target DNA from a transgenic plant, e.g., corn event Zm_CSM63715, in a sample. A polynucleotide molecule or DNA molecule, also referred to as a "polynucleotide segment or fragment of sufficient length" or "contiguous or consecutive nucleotides of sufficient length," can therefore specifically hybridize to a target DNA sequence under certain hybridization or reaction conditions. As used herein, the term "sufficient length" refers to any length sufficient to facilitate optimal detection. Probes and primers are generally at least about 8 nucleotides, at least about 10 nucleotides, at least about 12 nucleotides, at least about 14 nucleotides, at least about 16 nucleotides, at least about 18 nucleotides, at least about 20 nucleotides, at least about 22 nucleotides, at least about 24 nucleotides, at least about 26 nucleotides, at least about 28 nucleotides, or at least about 30 nucleotides or more in length. Such probes and primers specifically hybridize to a target DNA sequence under stringent hybridization conditions.
[0159] As used herein, two nucleic acid molecules can specifically hybridize with each other when the two molecules can form an antiparallel double-stranded nucleic acid structure.A nucleic acid molecule is the "complement" of another nucleic acid molecule when they show complete complementarity.As used herein, two nucleic acid molecules show "complete complementarity" and are "completely complementary" when, when they are aligned, all nucleotides of the first nucleic acid molecule are complementary to all nucleotides of the second nucleic acid molecule.Two molecules are "minimally complementary" when they can hybridize with each other with sufficient stability to remain annealed to each other at least under conventional "low stringency" conditions.Similarly, the molecules are "complementary" when they can hybridize with each other with sufficient stability to remain annealed to each other under conventional "high stringency" conditions. Conventional stringency conditions are described in Haymes et al., In: Nucleic Acid Hybridization, A Practical Approach, IRL Press, Washington, DC (1985), and MR Green and J Sambrook, Molecular cloning: a laboratory manual, 4th Edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY (2012). Deviations from perfect complementarity are therefore permissible as long as such deviations do not completely eliminate the ability of the molecule to form a double-stranded structure. For a nucleic acid molecule to function as a primer or probe, it is only necessary that the sequences be sufficiently complementary to allow the formation of a stable double-stranded structure under the particular solvent and salt concentrations and other conditions used.
[0160] As used herein, a substantially homologous or complementary sequence relative to a reference nucleic acid sequence is a nucleic acid sequence that specifically hybridizes to the reference nucleic acid sequence or its complement under high stringency conditions. As used herein, "stringent hybridization conditions" refers to conditions under which a polynucleotide will hybridize to its target sequence, usually in a complex mixture of nucleic acids, but to essentially no other sequences. "Stringent conditions" or "stringent hybridization conditions" when referring to a polynucleotide probe refers to conditions under which the probe hybridizes to its target sequence to a detectably higher degree than to other sequences (e.g., at least twice background). Stringent conditions are sequence-dependent and vary depending on the environment. Longer sequences hybridize specifically at higher temperatures. Generally, stringent conditions are determined by the thermal melting point (T) for a particular sequence at a defined ionic strength and pH. m ) is selected to be about 5 to 10°C lower than the T m is the temperature (under defined ionic strength, pH, and nucleic acid concentration) at which 50% of the probes complementary to the target hybridize to the target sequence at equilibrium (because the target sequence is present in excess, T m (At equilibrium, 50% of the probes are occupied.) Stringent conditions are those in which the salt concentration is less than about 1.0 M sodium ion, typically about 0.01 to 1.0 M sodium ion (or other salt), pH 7.0 to 8.3, and the temperature is at least about 30°C for short probes (e.g., 10 to 50 nucleotides) and at least about 60°C for long probes (e.g., more than 50 nucleotides). Stringent conditions may also be achieved by adding destabilizing agents, such as formamide. By controlling the stringency of the hybridization and / or washing conditions, target sequences that are 100% complementary to the probe can be identified (homologous probing). Alternatively, stringency conditions can be adjusted to allow some mismatching in the sequence, resulting in detection of lower degrees of identity (heterologous probing).
[0161] Suitable stringency conditions that promote DNA hybridization, such as 6× sodium chloride / sodium citrate (SSC) at about 45° C., followed by a 2× SSC wash at 50° C., are known to those of skill in the art or can be found in *Current Protocols in Molecular Biology*, John Wiley & Sons, NY (1989), 6.3.1-6.3.6. For example, the salt concentration in the wash step can be selected from a low stringency of about 2.0× SSC at 50° C. to a high stringency of about 0.2× SSC at 50° C. Additionally, the temperature of the wash step can be increased from low stringency conditions at room temperature, about 22° C., to high stringency conditions at about 65° C. Both temperature and salt can be varied, or either temperature or salt concentration can be held constant while the other variable is varied. With respect to the amplification of a target polynucleotide using a particular amplification primer pair (e.g., by PCR), "stringent conditions" or "stringent hybridization conditions" are conditions under which a thermal DNA amplification reaction allows the primer pair to hybridize to the target polynucleotide to which it is bound, the primer having the corresponding wild-type sequence (or its complement), and to produce an identifiable amplification product (amplicon) having a region specific to the corn Zm_CSM63715 event. The term "specific for" a target sequence indicates that a probe or primer will hybridize under stringent hybridization conditions only to the target sequence in a sample containing the target sequence.
[0162] A polynucleotide molecule or DNA molecule, e.g., a primer or probe, of the present disclosure specifically hybridizes under stringent conditions, or under moderately stringent hybridization conditions if the sequence of the polynucleotide molecule is not identical to the sequence of at least one nucleic acid molecule selected from the group consisting of a polynucleotide having a nucleotide sequence at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:10, or a complete complement or fragment of any of the foregoing. Hybridization of a nucleic acid molecule, e.g., a primer or a probe, to the target DNA molecule can be detected by any method known to those skilled in the art, including, but not limited to, fluorescent tags, radioactive tags, antibody-based tags, and chemiluminescent tags.
[0163] An exemplary DNA molecule or polynucleotide useful as a probe for detecting corn event Zm_CSM63715 is provided as SEQ ID NO: 16. In some embodiments, a DNA molecule that functions as a probe comprises a nucleotide sequence selected from the group consisting of SEQ ID NO: 1, SEQ ID NO: 2, SEQ ID NO: 3, SEQ ID NO: 4, SEQ ID NO: 5, SEQ ID NO: 6, SEQ ID NO: 7, SEQ ID NO: 8, SEQ ID NO: 9, SEQ ID NO: 10, a complement of any of the above, or a fragment of any of the above. In other embodiments, the DNA molecule comprises a polynucleotide segment of sufficient length to function as a DNA probe specific for at least one of: a) the 5' junction sequence between the flanking corn genomic DNA and the transgenic insert of corn event Zm_CSM63715; b) the 3' junction sequence between the transgenic insert of corn event Zm_CSM63715 and the flanking corn genomic DNA; c) SEQ ID NO: 9; or d) a fragment of SEQ ID NO: 9 comprising a sufficient length of consecutive nucleotides of SEQ ID NO: 9 to identify the sequence in a sample of DNA as a fragment of the transgenic insert of Zm_CSM63715.
[0164] The diagnostic amplicons produced by the methods described herein can be detected by several techniques known in the art, such as sequencing, restriction enzyme mapping, Southern analysis, or any other suitable polynucleotide or DNA hybridization, blotting, polymerization, and / or amplification-based approaches or techniques. One method is genetic bit analysis (Nikiforov et al., 1994), in which DNA oligonucleotides, i.e., junction sequences, are designed to overlap both the adjacent flanking genomic DNA sequence and the inserted DNA sequence. The oligonucleotides are immobilized in the wells of a microtiter plate. Following PCR of the region of interest (e.g., using one primer in the inserted sequence and one in the adjacent flanking genomic sequence), the single-stranded PCR product can hybridize to the immobilized oligonucleotide and serve as a template for a single-base extension reaction using DNA polymerase and a labeled dideoxynucleotide triphosphate (ddNTP) specific for the expected next base. Readout can be fluorescent or ELISA-based. A signal indicates the presence of the transgene / genome junction sequence of interest by achieving amplification, hybridization, and single-base extension.
[0165] Another method is pyrosequencing, described in Winge (2000). In this method, oligonucleotides are designed that overlap the junction of the flanking genomic DNA and the inserted DNA. The oligonucleotides are hybridized to a single-stranded PCR product from the region of interest (one primer in the inserted sequence and one in the flanking genomic sequence) and incubated in the presence of DNA polymerase, ATP, sulfurylase, luciferase, apyrase, adenosine 5' phosphosulfate, and luciferin. DNTPs are added individually, and their incorporation generates a light signal that is measured. The light signal indicates the presence of the transgene / genomic sequence of interest by achieving amplification, hybridization, and single- or multi-base extension.
[0166] Fluorescence polarization, as described by Chen et al. (1999), is a method that can be used to detect the amplicons of the present invention. Using this method, oligonucleotides are designed that overlap the genomic flanking and inserted DNA junctions. The oligonucleotides are hybridized to single-stranded PCR products from the region of interest (one primer in the inserted DNA and one in the adjacent genomic DNA sequence) and incubated in the presence of DNA polymerase and fluorescently labeled ddNTPs. The ddNTPs are incorporated by single-base extension. Incorporation can be measured as a change in polarization using a fluorometer. The change in polarization indicates the presence of the transgene / genomic sequence of interest due to the completion of amplification, hybridization, and single-base extension.
[0167] Real-time polymerase chain reaction (PCR) allows the progress of PCR to be observed as it occurs (i.e., in real time). Data is collected throughout the PCR process, rather than at the end of the PCR. In real-time PCR, the reaction is characterized by the point in the cycle when target amplification is first detected, rather than the amount of target accumulated after a certain number of cycles. In real-time PCR assays, a positive reaction is detected by the accumulation of a fluorescent signal. The higher the starting copy number of the nucleic acid target, the sooner a significant increase in fluorescence is observed. The cycle threshold (Ct value) is defined as the number of cycles required for the fluorescent signal to cross a threshold (i.e., above background levels). The Ct level is inversely proportional to the amount of target nucleic acid in the sample (i.e., the lower the Ct value, the greater the amount of target nucleic acid in the sample).
[0168] Taqman® (PE Applied Biosystems, Foster City, CA) is a method for detecting and quantifying the presence of DNA sequences using real-time PCR and is fully described in the manufacturer's instructions. Briefly, FRET oligonucleotide probes are designed that overlap the genomic flanking and insert DNA junctions. The FRET probe and PCR primers (one primer in the insert DNA sequence and one in the flanking genomic sequence) are cycled in the presence of a thermostable polymerase and dNTPs. Hybridization of the FRET probe results in cleavage and release of a fluorescent moiety away from the quenching moiety of the FRET probe. The fluorescent signal indicates the presence of the transgene / genomic sequence of interest upon successful amplification and hybridization.
[0169] Molecular beacons have been described for use in sequence detection and are described in Tyangi et al. (1996). Briefly, a FRET oligonucleotide probe is designed that overlaps the junction of the flanking genomic and insert DNA. The unique structure of the FRET probe results in a secondary structure that maintains the fluorescent and quenching moieties in close proximity. The FRET probe and PCR primers (one primer in the insert DNA sequence and one in the flanking genomic sequence) are cycled in the presence of a thermostable polymerase and dNTPs. Following PCR amplification, hybridization of the FRET probe to the target sequence results in the removal of the probe's secondary structure and spatial separation of the fluorescent and quenching moieties. A fluorescent signal is generated, indicating the presence of the flanking / transgene insert sequence upon successful amplification and hybridization.
[0170] Other detection methods known in the art may also be used. For example, microfluidics (see, e.g., U.S. Patent Application Publication No. 2006 / 068398, U.S. Patent No. 6,544,734) provides methods and devices that can be used to separate and amplify DNA samples or molecules. Specific DNA molecules can be detected and measured using optical dyes (see, e.g., WO / 05017181). Nanotube devices containing electronic sensors for detecting DNA molecules or nanobeads that bind to specific DNA molecules (see, e.g., WO / 06024023) can then be used to detect events. Nanopore sequencing technologies, such as those described in Wang et al. (2021), Taylor et al. (2018), or Pearson et al. (2019), can also be used to detect events.
[0171] Thus, the DNA molecules and corresponding nucleotide sequences provided herein are useful, inter alia, for identifying corn event Zm_CSM63715, detecting the presence of DNA derived from transgenic corn event Zm_CSM63715 in a sample, and monitoring a sample for the presence and / or absence of corn event Zm_CSM63715 or plant parts derived from corn plants containing event Zm_CSM63715.
[0172] Provided are proteins that can be used to generate antibodies for detecting the presence of corn event Zm_CSM63715 in a sample. Such antibodies are specific to the PPO protein encoded by corn event Zm_CSM63715. Methods for preparing polyclonal or monoclonal antibodies are well known to those skilled in the art and can be used to generate antibodies specific to the PPO protein encoded by corn event Zm_CSM63715. For example, Lermontova et al. (1997) described antibodies against PPO proteins. The DNA sequence encoding the PPO protein is provided in SEQ ID NO: 10, and the start and end positions of the coding sequence are shown in Table 1A. The DNA sequence encoding the protein and the protein encoded by the sequence are useful for generating antibodies for detecting the presence of corn event Zm_CSM63715 by the methods described herein. The presence of corn event Zm_CSM63715 can be detected using any protein detection technique known in the art, such as Western blot analysis, immunoprecipitation, enzyme-linked immunosorbent assay (ELISA), antibody binding to a detectable label or reporter molecule (e.g., a radioisotope, a ligand, a chemiluminescent agent, or an enzyme), or enzymatic action on a reporter molecule. One method provides for contacting a sample with an antibody that binds to the PPO protein encoded by corn event Zm_CSM63715 and then detecting the presence or absence of antibody binding. Such antibody binding is used to diagnose the presence of one or more proteins encoded by corn event Zm_CSM63715.
[0173] Nucleic acid or protein detection kits for detecting the presence of corn event Zm_CSM63715 are provided. Variations of such kits can also be developed using the compositions and methods disclosed herein and methods known in the art for detecting proteins and nucleic acids to identify corn event Zm_CSM63715. Protein and nucleic acid detection kits can be applied to methods for breeding with plants containing corn event Zm_CSM63715. Such kits include primers and / or probes or antibodies specific to corn event Zm_CSM63715. Such DNA primers and / or probes can include one or more fragments of SEQ ID NOS: 1-10, or antibodies specific to proteins encoded by corn event Zm_CSM63715. The kits can also include instructions for using the primers, probes, or antibodies to detect the presence of corn event Zm_CSM63715. The kits can also optionally include reagents for performing the detection or diagnostic reactions described herein.
[0174] An example of a detection kit includes at least one DNA molecule of contiguous nucleotides of SEQ ID NO: 10 of sufficient length to function as a DNA probe useful for detecting the presence or absence of corn event Zm_CSM63715 in a sample. DNA derived from a transgenic corn plant containing event Zm_CSM63715 includes a DNA molecule having at least one sequence selected from the group consisting of SEQ ID NO: 1, SEQ ID NO: 2, SEQ ID NO: 3, SEQ ID NO: 4, SEQ ID NO: 5, SEQ ID NO: 6, SEQ ID NO: 7, SEQ ID NO: 8, SEQ ID NO: 9, and SEQ ID NO: 10, a complement of any of the foregoing, or a fragment of any of the foregoing. An exemplary DNA molecule sufficient for use as a probe is one that includes the sequence provided as SEQ ID NO: 16. Other probes can be readily designed by one of skill in the art. The probe can include a junction sequence spanning the 5' or 3' junction between the corn genomic DNA and the transgenic insert of corn event Zm_CSM63715.
[0175] Another example of a detection kit includes at least one primer pair that specifically hybridizes to target DNA and amplifies a diagnostic amplicon under appropriate reaction conditions useful for detecting the presence or absence of the corn event Zm_CSM63715 in a sample. Kits containing DNA primers homologous to or complementary to any portion of the corn genomic region set forth in SEQ ID NO: 11 or 12 and any portion of the inserted transgenic DNA set forth in SEQ ID NO: 9 are within the scope of the present disclosure. The kit may provide an agarose gel-based detection method or various methods for detecting the amplicon known in the art. Such methods may also include sequencing the amplicon or a fragment thereof. Exemplary DNA molecules sufficient for use as primer pairs include those comprising the sequences provided as SEQ ID NOs: 14 and 15, and SEQ ID NOs: 20 and 21, respectively, where the primer pair of SEQ ID NOs: 14 and 15 produces an amplicon that is diagnostic of the presence of the event Zm_CSM63715 in a sample, and the primer pair of SEQ ID NOs: 20 and 21 produces an amplicon that is indicative of wild-type DNA in a sample and is therefore diagnostic of the absence of the event Zm_CSM63715. Other primer pairs can be readily designed by one of ordinary skill in the art.
[0176] Another example of a detection kit includes an antibody specific to the PPO protein encoded by corn event Zm_CSM63715. For example, such a kit may utilize a lateral flow strip containing a reagent that is activated when the tip of the strip comes into contact with an aqueous solution. An exemplary protein sufficient for use in antibody production is the PPO protein encoded by the sequence provided as SEQ ID NO: 10, or any fragment thereof. Detection of antibody binding to the PPO protein encoded by corn event Zm_CSM63715 in a sample is used to diagnose the presence of corn event Zm_CSM63715 in the sample.
[0177] The detection kits provided herein are useful, inter alia, for identifying corn event Zm_CSM63715, selecting plant species or hybrids containing corn event Zm_CSM63715, detecting the presence of DNA derived from transgenic corn plants containing event Zm_CSM63715 in a sample, and observing samples or plant parts derived from corn plants containing event Zm_CSM63715 for the presence and / or absence of corn plants containing event Zm_CSM63715.
[0178] Corn plants, progeny, seeds, cells, and plant parts containing corn event Zm_CSM63715, as well as commercial products produced therefrom, are provided. As used herein, the term "corn" or "maize" refers to plant species within Zea mays and all plant varieties belonging to the genus Zea that can be bred with Zea mays plants, including wild corn species such as Zea diploperennis. The term "corn" is intended to include corn plants, plant parts, plant cells, plant tissues, seeds, progeny plants, and / or soybean commercial products. These corn plants, plant parts, plant cells, plant tissues, seeds, progeny plants, and commercial products contain or comprise corn event Zm_CSM63715 or are derived from transgenic corn plants, plant parts, plant cells, plant tissues, seeds, progeny plants, or commercial products containing or comprising event Zm_CSM63715.These corn plants, plant parts, plant cells, plant tissues, seeds, progeny plants and commercial products contain a detectable amount of a polynucleotide or DNA molecule comprising at least one junction sequence and / or heterologous transgenic insertion sequence of corn event Zm_CSM63715, e.g., a polynucleotide or nucleic acid or DNA molecule having or comprising at least one of the sequences provided as SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, at least 16 contiguous nucleotides of SEQ ID NO:1, at least 16 contiguous nucleotides of SEQ ID NO:2, at least 31 contiguous nucleotides of SEQ ID NO:3, at least 3 contiguous nucleotides of SEQ ID NO:4, at least 3 contiguous nucleotides of SEQ ID NO:5, at least 3 contiguous nucleotides of SEQ ID NO:6, at least 3 contiguous nucleotides of SEQ ID NO:7, at least 3 contiguous nucleotides of SEQ ID NO:8, at least 3 contiguous nucleotides of SEQ ID NO:9, at least 3 contiguous nucleotides of SEQ ID NO:10, at least 3 contiguous nucleotides of SEQ ID NO:11, at least 3 contiguous nucleotides of SEQ ID NO:12, at least 3 contiguous nucleotides of SEQ ID NO:13, at least 3 contiguous nucleotides of SEQ ID NO:14, at least 3 contiguous nucleotides of SEQ ID NO:15, at least 3 contiguous nucleotides of SEQ ID NO:16, at least 3 contiguous nucleotides of SEQ ID NO:17, at least 3 contiguous nucleotides of polynucleotides comprising 5 contiguous nucleotides, at least 51 contiguous nucleotides of SEQ ID NO:5, or at least 51 contiguous nucleotides of SEQ ID NO:6, a polynucleotide comprising a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9, and full complements of any of the above. In some embodiments, the corn plant, plant part, plant cell, plant tissue, or seed is further defined as a progeny plant of any generation of a corn plant comprising the corn event Zm_CSM63715, or a corn plant part, plant seed, or plant cell derived therefrom.
[0179] Corn plants, plant parts, plant cells, plant tissues, seeds, progeny plants, and commercial products express or contain PPO herbicide tolerance genes, such as flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenanthracene], benzophenone-1, benzophenone-2, benzophenone-3, benzophenone-4, benzophenone-5, benzophenone-6, benzophenone-7, benzophenone-8, benzophenone-9, benzophenone-10, benzophenone-11, benzophenone-12, benzophenone-13, benzophenone-14, benzophenone-15, benzophenone-16, benzophenone-16, benzophenone-17, benzophenone-18, benzophenone-19, benzophenone-20, benzophenone-21, benzophenone-22, benzophenone-23, benzophenone-24, benzophenone-25, benzophenone-16, benzophenone-16, benzophenone-17, benzophenone-18, benzophenone-19, benzophenone-25, benzophenone-19, benzophenone-26, benzophenone-27, benzophenone-19, benzophenone-28, benzophenone-29, benzophenone-30, benzophenone-31, benzophenone-32, benzophenone-33, benzophenone-34, benzophenone-35, benzophenone-36, benzophenone-3 2-Methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate methyl(2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amine o]oxy}propanoate (flufenoximacil), cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, trifludimoxadine, and any combination thereof.
[0180] The present disclosure provides corn plants, progeny, seeds, plant cells, and plant parts, such as microspores, pollen, anthers, silks, spikes, ovules, ovaries, flowers, pods, cobs, embryos, stems, leaves, roots, and calluses, derived from transgenic corn plants containing corn event Zm_CSM63715. A representative sample of seeds containing corn event Zm_CSM63715 has been deposited in accordance with the Budapest Treaty for the purposes of enabling this disclosure. The ATCC repository has assigned accession number PTA-127361 to seeds containing corn event Zm_CSM63715.
[0181] Any of the corn plants, plant seeds, plant parts, or plant cells may further comprise at least one additional transgene for tolerance to at least one additional herbicide. For example, the additional transgene may be selected from the group consisting of FT_T, dicamba monooxygenase (DMO), phosphinothricin N-acetyltransferase (PAT), 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), and any combination thereof. An exemplary PAT coding sequence and its corresponding amino acid sequence from Streptomyces viridochromogenes are provided as SEQ ID NOs: 166 and 167, respectively. An exemplary DMO coding sequence and its corresponding amino acid sequence from Pseudomonas maltophilia are provided as SEQ ID NOs: 168 and 169, respectively. An exemplary FT_T coding sequence and its corresponding amino acid sequence from Sphingobium herbicidovorans are provided as SEQ ID NOs: 170 and 171, respectively. An exemplary EPSPS coding sequence from the CP4 strain of Agrobacterium and its corresponding amino acid sequence are provided as SEQ ID NO: 172 and SEQ ID NO: 173, respectively. For example, the corn plant, plant seed, plant part, or plant cell can further include corn event MON87429.
[0182] Additional transgenes may be inhibitors of glutamine synthetase (e.g., glufosinate), inhibitors of acetyl-CoA carboxylase (ACCase) in the aryloxyphenoxypropionate (FOP) group (e.g., cloradifop, clodinafop, clodinafop-ethyl, clodinafop-propargyl, clofop, cyhalofop, cyhalofop-butyl, diclofop, diclofop-methyl, diclofop-P, diclofop-P-methyl, fenoxaprop, fenoxaprop-P, fenoxaprop-P-ethyl, fentiaprop, fluazifop, fluazifop-butyl, fluazifop-P, fluazifop-P-butyl, haloxyfop, haloxyfop). -ethotyl group, haloxyfop-methyl, haloxyfop-P, haloxyfop-P-methyl, isoxapyrifop, metamifop, propaquizafop, quizalofop, quizarafop-ethyl, quizalofop-P, quizarafop-P-ethyl, quizarafop-P-tefuryl, trifop, and any combination thereof), inhibitors of EPSPS (e.g., glyphosate), synthetic auxins (e.g., dicamba, 2,4-D, dichlorprop, mecoprop, 2,4,5-T (2,4,5-trichlorophenoxyacetic acid), and any combination thereof), and any combination thereof.
[0183] A microorganism is provided, which comprises a polynucleotide molecule having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the nucleotide sequence of SEQ ID NO:9, or the entire length of SEQ ID NO:9. An example of such a microorganism is an Agrobacterium cell. Another example of such a microorganism is an E. coli cell.
[0184] Provided are plant cells comprising the polynucleotide molecules described herein. For example, provided are plant cells having a nucleotide sequence present in its genome, the nucleotide sequence being selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, and SEQ ID NO:10, wherein the nucleic acid molecule comprises a polynucleotide having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9.
[0185] The plant cells and microorganisms disclosed herein are useful in many industrial applications, including, but not limited to: (i) use as research tools for scientific or industrial research; (ii) use in culture to produce endogenous or recombinant carbohydrate, lipid, nucleic acid, enzyme, or protein products, or small molecules that can then be used for scientific research or as industrial products; and (iii) in the case of the plant cells disclosed herein, use with modern plant tissue culture techniques to produce transgenic plants or plant tissue cultures that can then be used in agricultural research or production. The production and use of such transgenic plant cells utilizes modern microbiological techniques and human intervention to produce artificial, unique plant cells. In this process, recombinant DNA is inserted into the genome of a plant cell, creating a unique transgenic plant cell that is distinct from naturally occurring plant cells. This transgenic plant cell can then be cultured using modern microbiological techniques, much like bacteria and yeast cells, and can exist in an undifferentiated, unicellular state. The genetic makeup and phenotype of this novel plant cell are the technical effect created by incorporating heterologous DNA into the genome of that cell.
[0186] Provided are methods for using plant cells, e.g., transgenic plant cells, including (i) methods for generating transgenic cells by integrating recombinant DNA into the genome of the cells and then using the cells to derive additional cells carrying the same heterologous DNA, (ii) methods for culturing cells containing recombinant DNA using modern microbiological techniques, (iii) methods for producing and purifying endogenous or recombinant carbohydrate, lipid, nucleic acid, enzyme, or protein products from cultured cells, and (iv) methods for using modern plant tissue culture techniques with transgenic plant cells to produce transgenic plants or transgenic plant tissue cultures.
[0187] The plants, progeny, seeds, cells, and plant parts can contain one or more additional desirable trait(s). Such desirable traits can be transgenic traits, natural traits, or traits produced by other methods, such as genome editing, base editing, prime editing, or other conventional mutagenesis methods. Desirable traits can be combined with the corn event Zm_CSM63715, for example, by crossing a corn plant containing the corn event Zm_CSM63715 with another corn plant containing the additional trait(s) or transgenic event. Such traits or transgenic events include, but are not limited to, improved insect resistance, improved water use efficiency, improved yield, improved drought tolerance, improved disease resistance, improved seed quality, improved nutritional value, hybrid seed production, and / or improved herbicide tolerance, where the trait is measured relative to a corn plant lacking the transgenic trait. For example, the Zm_CSM63715 event can be stacked by breeding or by site-specific introgression with other events or combinations of events known in the art, including, but not limited to: MON00603 (also known as NK603 or MON603, Roundup Ready™ 2 Maize for herbicide tolerance; deposited as ATCC PTA-2478 and described in U.S. Patent Application Publication No. 2007 / 292854 and U.S. Patent No. 6,825,400, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties), MON89034 (deposited as YieldGard™ VT Pro™ ATCC PTA-7455 for insect resistance and described in PCT Publication No. WO2007 / 140256 and U.S. Patent Application Publication No. US2008 / 260932, the contents and disclosures of each of which are incorporated herein by reference in their entireties); MON88017 (YieldGard™ VT™ Rootworm™ RR2 for herbicide tolerance and insect resistance; deposited as PTA-5582 and described in U.S. Patent Application Publication No. 2008 / 028482 and PCT Publication No. WO2005 / 059103, the contents and disclosures of each of which are incorporated herein by reference in their entireties); MON87427 (Roundup Ready™ Maize for herbicide tolerance, deposited as ATCC PTA-7899 and described in U.S. Pat. No. 8,618,358 and PCT Publication No. WO2011 / 062904, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties); MON87411 (deposited under ATCC No. PTA-12669 for insect resistance and described in U.S. Pat. No. 10,316,330 and PCT Publication No. WO2013 / 169923, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties); MON87429 (deposited as ATCC PTA-124635 for herbicide resistance and described in U.S. Pat. No. 10,920,239 and PCT Publication No. WO2019 / 152316, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties); MON87460 (Genuity® DroughtGard™ for abiotic stress tolerance, deposited under ATCC No. PTA-8910 and described in PCT Publication No. WO2009 / 111263 and U.S. Patent Application Publication No. 2011 / 0138504, the contents and disclosures of each of which are incorporated herein by reference in their entireties); MON87419 (deposited as ATCC PTA-120860 for herbicide resistance and described in U.S. Pat. No. 11,098,321 and PCT Publication No. WO2015 / 142571, the contents and disclosures of each of which are incorporated herein by reference in their entireties); MON95275 (deposited as ATCC PTA-126049 for insect resistance and described in U.S. Patent Application Publication No. US2021 / 332380 and PCT Publication No. WO2021 / 216571, the contents and disclosures of each of which are incorporated herein by reference in their entireties); MON95379 (for insect resistance, deposited as ATCC PTA-125027 and described in PCT Publication No. WO2020 / 028172 and U.S. Patent Application Publication No. US2020 / 032289, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties; MON00810 (also known as MON810 for its insect resistance and described in U.S. Patent Application Publication No. 2002 / 102582, the entire contents and disclosure of which are incorporated herein by reference in their entirety); MON00021 (also known as GA21; Roundup Ready™ Maize for herbicide tolerance, Agrisure™ GT, deposited as ATCC 209033 and described in U.S. Patent Application Publication No. 2005 / 086719 and PCT Publication No. WO 1998 / 044140, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties); MON832 (Roundup Ready™ Maize for herbicide tolerance), MON863 (YieldGard™ Rootworm RW for insect resistance, MaxGard™, deposited as ATCC PTA-2605 and described in PCT Publication No. WO2004 / 011601 and U.S. Patent Application Publication No. 2006 / 095986, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties); AGV-PY203-4 (GraINzyme Phytase for modified product quality), ACS-ZM004-3 (Starlink™ Maize for herbicide tolerance and insect resistance), ACS-ZM001-9 (InVigor™ Maize for Pollination Control System), ACS-ZM005-4 (InVigor™ Maize for Pollination Control System), ACS-ZM002-1 (Liberty Link™ Maize for herbicide tolerance), ACS-ZM003-2 (Liberty Link™ Maize for herbicide tolerance), DAS-40278-9 (Enlist™ Maize for herbicide tolerance, deposited under ATCC No. PTA-10244 and described in U.S. Pat. No. 11,098,322 and PCT Publication No. WO 2011 / 022469); DAS-01507-1 (also known as TC1507, Herculex™ I, Herculex™ CB for herbicide resistance and insect resistance; described in U.S. Patent Application Publication No. 2005039226 and PCT Publication No. WO2004 / 099447), DAS-59122-7 (Herculex™ RW for herbicide resistance and insect resistance; described in U.S. Patent Application Publication No. 2006 / 070139), DKB-89614-9 (Bt Xtra™ Maize for herbicide tolerance and insect resistance), DP-32138-1 (32138 SPT maintainer for pollination control systems; deposited under ATCC No. PTA-9158 and described in U.S. Patent Application Publication No. 2009 / 0210970 and PCT Publication No. WO2009 / 103049); DP-098140-6 (Optimum™ GAT™ for herbicide tolerance; deposited under ATCC No. PTA-8296 and described in U.S. Patent Application Publication No. 2009 / 137395 and PCT Publication No. WO2008 / 112019); MIR162 (Agrisure™ Viptera for insect resistance; deposited under ATCC number PTA-6188 and described in U.S. Patent Application Publication No. 2009 / 300784 and PCT Publication No. WO2007 / 142840); MIR604 (Agrisure™ RW for insect resistance, described in U.S. Patent Application Publication No. 2008 / 167456 and PCT Publication No. WO2005 / 103301); REN-00038-3 (also known as LY038; Mavera™ Maize for modified product quality; deposited under ATCC No. PTA-5623 and described in PCT Publication No. WO 2005 / 061720 and U.S. Pat. No. 7,615,621, the entire contents and disclosures of each of which are incorporated herein by reference in their entireties), SYN-E3272-5 (Enogen™, described in U.S. Pat. No. 7,635,799 and PCT Publication No. WO 2006 / 098952), SYN-05307-1 (Agrisure® Duracade™ for insect resistance; deposited under ATCC No. PTA-9561 and described in PCT Publication No. WO2010 / 077816 and U.S. Pat. No. 10,100,371); Bt10 (for herbicide and insect resistance), SYN-BT011-1 (Agrisure™ CB / LL for herbicide tolerance and insect resistance), SYN-EV176-9 (NaturGard KnockOut™, Maximizer™ for herbicide and insect resistance), MON89034 x DAS-01507-1 x MON603 x MIR162 x DAS-40278-9 (Power Core™ x MIR162 x Enlist™ for herbicide resistance and insect resistance), DAS-01507-1 x DAS-59122-7 (Herculex XTRA™ for herbicide tolerance and insect resistance), DAS-01507-1 x DAS-59122-7 x MON603 (Herculex XTRA™ RR for herbicide tolerance and insect resistance), DAS-01507-1×MON603 (Herculex™ I RR for herbicide and insect resistance), DAS-59122-7×MON603 (Herculex™ RW Roundup Ready™ 2 for herbicide tolerance and insect resistance), DAS-01507-1 x DAS-59122-7 x MON00810 x MIR604 x MON603 (Optimum™ Intrasect Xtreme for herbicide and insect resistance), DAS-01507-1 x DAS-59122-7 x MON810 x MON603 (Optimum™ Intrasect XTRA for herbicide tolerance and insect resistance), DAS-01507-1 x MIR604 x MON603 (Optimum™ TRIsect for herbicide and insect resistance), DAS-01507-1 x MON810 x MON603 (Optimum™ Intrasect for herbicide and insect resistance), MON00021×MON810 (Roundup Ready™ YieldGard™ Maize for herbicide tolerance and insect resistance), MON810 x MON88017 (YieldGard™ VT Triple for herbicide tolerance and insect resistance), MON863 x MON810 (YieldGard™ Plus for insect resistance), MON603 x MON810 x MON863 (YieldGard™ Plus with RR for herbicide tolerance and insect resistance), MON863 x MON603 (YieldGard™ RW+RR for herbicide tolerance and insect resistance), MON87427 x MON89034 x DAS-01507-1 x MON87411 x DAS-59122-7 x DAS-40278-9 (SmartStax™ Pro x Enlist™ for herbicide tolerance and insect resistance), MON89034 x MON88017 (Genuity® VT Triple Pro™ for herbicide tolerance and insect resistance), MON89034 x MON603 (Genuity® VT Double Pro™ for herbicide and insect resistance), MON89034 x DAS-01507-1 x MON88017 x DAS-59122-7 (Genuity® SmartStax™ for herbicide tolerance and insect resistance), MON89034 x DAS-01507-1 x MON603 (Power Core™ for herbicide and insect resistance), MON603 x MON810 (YieldGard™ CB+RR for herbicide tolerance and insect resistance), MON603 x ACS-ZM003-2 (Roundup Ready™ Liberty Link™ Maize for herbicide tolerance), ACS-ZM003-2×MON810 (Liberty Link™ Yieldgard™ Maize for herbicide tolerance and insect resistance), REN-00038-3×MON810 (Mavera™ YieldGard™ Maize for insect resistance and improved product quality), SYN-05307-1 x MIR604 x SYN-BT011-1 x DAS-01507-1 x MON00021 (Agrisure® Duracade™ 5122 for herbicide and insect resistance), SYN-05307-1 x MIR604 x SYN-BT011-1 x DAS-01507-1 x MON00021 x MIR162 (Agrisure® Duracade™ 5222 for herbicide and insect resistance), SYN-BT011-1 x DAS-59122-7 x MIR604 x DAS-01507-1 x MON00021 (Agrisure® 3122 for herbicide resistance and insect resistance), SYN-BT011-1×MON00021 (Agrisure™ GT / CB / LL for herbicide tolerance and insect resistance), SYN-BT011-1 x MIR162 (Agrisure® Viptera™ 2100 for herbicide and insect resistance), SYN-BT011-1 x MIR162 x MON00021 (Agrisure® Viptera™ 3110 for herbicide and insect resistance), SYN-BT011-1 x MIR162 x MIR604 (Agrisure® Viptera™ 3100 for herbicide and insect resistance), SYN-BT011-1 x MIR162 x DAS-01507-1 x MON00021 (Agrisure® Viptera™ 3220 for herbicide and insect resistance), SYN-BT011-1 x MIR604 (Agrisure™ CB / LL / RW for herbicide and insect resistance), SYN-BT011-1×MIR604×MON00021 (Agrisure™ 3000GT for herbicide and insect resistance), · MIR604×MON00021 (Agrisure™ GT / RW for herbicide tolerance and insect resistance).
[0188] "MON87429" refers to corn event MON87429. Corn seeds containing event MON87429 have been deposited under ATCC Accession No. PTA-124635 and are fully described and characterized in U.S. Pat. No. 10,920,239 and PCT Publication No. WO2019 / 152316, the contents and disclosures of each of which are incorporated herein by reference in their entireties. Transgenic corn plants containing corn event MON87429 contain SEQ ID NO:212 (5' corn genomic flanking sequence + transgenic insert + 3' corn genomic flanking sequence), SEQ ID NO:213 (transgenic insert), SEQ ID NOs:214-217 (5' junction sequence), and SEQ ID NOs:218-221 (3' junction sequence). The transgenic insert in corn plants containing event MON87429 contains the four expression cassettes set forth in Table 1B.The first expression cassette comprises, in operable linkage, (I) a ubiquitin promoter, leader, and intron from Erianthus ravennae, (II) a phosphinothricin N-acetyltransferase coding sequence, and (III) a fructose-bisphosphate aldolase 3'UTR from Setaria italica. The second expression cassette comprises, in operable linkage, (I) a ubiquitin promoter, leader, and intron from Coix lacryma-jobi, (II) an albino and pale green 6 chloroplast transit peptide coding sequence from Arabidopsis thaliana, (III) a dicamba monooxygenase coding sequence, and (IV) a metallothionein-like protein 3'UTR from Oryza sativa. The third expression cassette comprises, in operable linkage, (I) a ubiquitin promoter, leader, and intron from Arundo donax, (II) a phosphinothricin N-acetyltransferase coding sequence from Arabidopsis thaliana, (III) a dicamba monooxygenase coding sequence, and (IV) a metallothionein-like protein 3'UTR from Oryza sativa. The first expression cassette contained, in operable linkage, (I) a malate dehydrogenase chloroplast transit peptide coding sequence from Triticum aestivum, (III) a FT_T protein coding sequence, and (IV) a non-apical division protein 3'UTR from Oryza sativa. The fourth expression cassette contained (I) a CaMV 35S promoter and leader, (II) a chlorophyll a / b binding protein leader from Triticum aestivum, (III) an actin 1 intron from Oryza sativa, (IV) an ShkG chloroplast transit peptide coding sequence from Arabidopsis thaliana, (V) a glyphosate-resistant 5-enolpyruvylshikimate-3-phosphate synthase coding sequence from Agrobacterium sp. strain CP4, (VI) a male tissue-specific siRNA target from Zea mays, and (VII) a glycine-rich RNA-binding protein 3'UTR from Oryza sativa.
[0189] Corn plants containing event MON87429 are tolerant to inhibitors of acetyl-CoA carboxylase (ACCase) in the aryloxyphenoxypropionate (FOP) group (such as quizalofop and haloxyfop), synthetic auxins (such as dicamba and 2,4-D), inhibitors of glutamine synthetase (such as glufosinate), and inhibitors of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) (such as glyphosate). [Table 2]
[0190] Any of the corn plants, plant parts, seeds, cells, progeny, or commercial products described herein that include corn event Zm_CSM63715 can further include corn event MON87429.
[0191] Any of the corn plants, plant parts, seeds, cells, progeny or commercial products described herein can further comprise a recombinant DNA molecule comprising a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to a sequence selected from the group consisting of SEQ ID NO:212, SEQ ID NO:213, SEQ ID NO:214, SEQ ID NO:215, SEQ ID NO:216, SEQ ID NO:217, SEQ ID NO:218, SEQ ID NO:219, SEQ ID NO:220, SEQ ID NO:221, the full length of SEQ ID NO:212 or the full length of SEQ ID NO:213, and the complete complement of any of the above.
[0192] Plants containing both corn event Zm_CSM63715 and corn event MON87429 can be produced by any method known in the art. For example, such plants can be produced by crossing a corn plant containing corn event Zm_CSM63715 with a corn plant containing corn event MON87429 and selecting progeny plants containing both events. Alternatively, one or both events can be inserted into the genome of the corn plant by site-specific insertion using a site-specific nuclease.
[0193] The term "site-specific nuclease" refers to any enzyme that can cleave a nucleotide sequence in a site-specific manner. Site-specific nucleases allow for precise and / or targeted editing of specific locations within a plant genome. Site-specific nucleases include, for example, RNA-guided nucleases, zinc finger nucleases (ZFNs), and transcription activator-like effector nucleases (TALENs).
[0194] Some site-specific nucleases, such as zinc finger nucleases (ZFNs) and TALENs, are not RNA-guided, but instead rely on their protein structure to determine their target site for causing DSBs (double-strand breaks) or nicks, or they are fused, tethered, or linked to a DNA-binding protein domain or motif. The protein structure of the site-specific nuclease (or the fused / linked / tethered DNA-binding domain) targets the site-specific nuclease to the target site. ZFNs and TALENs can be designed, engineered, and constructed according to known methods to target and bind to the target site.
[0195] RNA-guided nuclease is a nuclease that forms a complex (e.g., a ribonucleoprotein) with guide RNA, which then guides the complex to the target site within the target sequence.A non-limiting example of guided nuclease is CRISPR nuclease.CRISPR (clustered regularly interspaced short palindromic repeats) nuclease is a protein found in bacteria that is guided to a target nucleic acid molecule by guide RNA ("gRNA"), and the endonuclease can then cut one or two strands of the target nucleic acid molecule.Although CRISPR nuclease originates from bacteria, many CRISPR nucleases have been shown to function in eukaryotic cells.A CRISPR editing system comprising a CRISPR-associated protein (nuclease) and a cognate guide RNA (which can be transcribed from a guide DNA polynucleotide) can be used to cut or modify target DNA. The CRISPR-associated protein can be a type I CRISPR-associated protein, a type II CRISPR-associated protein, a type III CRISPR-associated protein, a type IV CRISPR-associated protein, a type V CRISPR-associated protein, or a type VI CRISPR-associated protein, such as, but not limited to, Cas1, Cas1B, Cas2, Cas3, Cas4, Cas5, Cas6, Cas7, Cas8, Cas9 (also known as Csn1 and Csx12), It may be selected from Cas10, Cas12a (also known as Cpf1), Csy1, Csy2, Csy3, Cse1, Cse2, Csc1, Csc2, Csa5, Csn2, Csm2, Csm3, Csm4, Csm5, Csm6, Cmr1, Cmr3, Cmr4, Cmr5, Cmr6, Csb1, Csb2, Csb3, Csx17, Csx14, Csx10, Csx16, CsaX, Csx3, Csx1, Csx15, Csf1, Csf2, Csf3, Csf4, CasX, CasY, and Mad7.
[0196] As further described below in Example 2, the maize event Zm_CSM63715 integrated into the genome at a site close to the location of MON87429. To accomplish this, bioinformatic analysis was first used to identify genomic target sites for site-specific integration (SDI) of the transgene.
[0197] As used herein, the terms "target site," "genomic target site," "target genomic nucleic acid," or "target maize genomic nucleic acid" refer to a polynucleotide sequence that is sufficiently unique within the maize genome to allow for targeted genome modification by a site-specific nuclease. In one aspect, the sequence of the target site is altered from the wild-type sequence, i.e., the target site is edited. In another aspect, the target site is an insertion site for a DNA sequence of interest.
[0198] The target site may include one or more criteria selected from the group consisting of: (i) the selected target site is more than 1 kb from a gene, (ii) the selected target site is more than 1 kb from a repressive chromatin mark (e.g., an H3K27me3 peak), (iii) the selected target site is more than 200 nucleotides (nt) from a small RNA hotspot, (iv) the selected target site is more than 1 kb from a long repeat region, (v) the selected target site has low DNA methylation (10% or less of the genome-wide population average), and (vi) the selected target site has a low redundancy score (30% or less). Target site selection criteria are further described in U.S. Patent Application Publication No. 2020 / 0024610, the entire contents and disclosure of which are incorporated herein by reference in their entirety.
[0199] The target site comprises a sequence recognized by a site-specific nuclease. In some embodiments, the target site comprises a sequence recognized by the site-specific nuclease, resulting in precise or targeted cleavage within the target site. For example, the site-specific nuclease can be selected from the group consisting of an RNA-guided nuclease, a zinc finger nuclease, and a TALEN. In some embodiments, the target site comprises a PAM (protospacer adjacent motif) sequence recognized by an RNA-guided nuclease (e.g., a CRISPR nuclease system). For example, the target site can comprise a PAM motif recognized by a Cas12a / Cpf1 CRISPR nuclease system. The target site can further comprise a sequence recognized by and hybridizing to a CRISPR guide RNA. In some embodiments, the target site comprises a sequence recognized by and hybridizing to a Cas12a / Cpf1 CRISPR guide RNA.
[0200] A DNA sequence of interest can be inserted into a target site using a site-specific nuclease. As used herein, the terms "DNA sequence of interest" or "donor sequence" or "donor DNA" refer to a nucleic acid / DNA sequence selected for targeted insertion into a maize genomic sequence. In one aspect, the maize genomic sequence is the genomic target site described above. The DNA sequence of interest can be any length, for example, 2 to 50,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 1,000 to 5,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 5,000 to 10,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 10,000 to 15,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 15,000 to 20,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 20,000-25,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 25,000-30,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 30,000-35,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 35,000-40,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 40,000-45,000 nucleotides in length (or any integer value therebetween). In some embodiments, the DNA sequence is about 45,000-50,000 nucleotides in length (or any integer value therebetween). The DNA sequence may comprise one or more gene expression cassettes further comprising actively transcribed and / or translated gene sequences. For example, the DNA sequence of interest can include a gene expression cassette containing a sequence selected from a herbicide resistance gene, an insecticide resistance gene, a nitrogen use efficiency gene, a water use efficiency gene, a nutritional quality gene, a DNA binding gene, a selectable marker gene, a target site for a site-specific nuclease, and any combination thereof.Alternatively, the DNA sequence of interest may comprise a polynucleotide sequence that does not include a functional gene expression cassette or an entire gene (e.g., it may include regulatory sequences such as a promoter, enhancer, etc.), or it may not include any identifiable gene expression element or any actively transcribed gene sequence. In some embodiments, the DNA of interest has at least one homology arm DNA sequence. The term "homology arm DNA sequence" refers to a polynucleotide sequence that has at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% sequence identity to a target sequence in a plant or plant cell. Furthermore, the DNA sequence may be linear or circular, and single-stranded or double-stranded. It can be as naked nucleic acid, complexed with one or more delivery agents (e.g., liposomes, poloxamers, protein-encapsulated T-strands, etc.), or contained in a bacterial or viral delivery vehicle such as, for example, Agrobacterium tumefaciens or Gemini Virus, or nanovirus, respectively.
[0201] Once a specific target site is identified, a site-specific nuclease that targets the selected target site can be designed and introduced into plants, seeds, or plant cells. For example, a CRISPR-associated nuclease (e.g., Cas12a / Cpf1) and at least one RNA guide molecule that can hybridize to the target site can be designed, cloned into a plant expression vector, and delivered to plants, seeds, or plant cells. If the genome modification is designed to induce double-strand breaks (DSBs) accompanied by non-homologous end joining (NHEJ) repair for the introduction of insertions and deletions (indels), only the engineered CRISPR nuclease and at least one RNA guide molecule are delivered to plants, seeds, or cells. If the desired DNA sequence is to be integrated into the target site, the engineered CRISPR nuclease, at least one RNA guide molecule, and the desired DNA are co-delivered to plants, seeds, or cells. The target DNA can be integrated into the target site by non-homologous end joining (NHEJ) or homology-dependent repair (HR). In the latter case, the target DNA has at least one homologous arm DNA sequence. An alternative to delivering engineered CRISPR nuclease as a DNA expression construct is to deliver a ribonucleoprotein (RNP) complex of the CRISPR-associated nuclease protein in complex with a guide RNA.
[0202] After delivering the site-specific nuclease into the plant cell, the cell or plant regenerated from the cell is sampled to confirm the presence of the intended site-specific genome modification, and the DNA sequence of interest is inserted at or near the target site. Methods for detecting genome modifications are known to those skilled in the art and include PCR, TaqMan® PCR, droplet digital PCR (ddPCR™, Bio-Rad Laboratories, Hercules, Calif.), sequencing, Sanger sequencing, ABI 3730 DNA fragment analysis (Applied Biosystems, Grand Island, NY), Southern analysis, Northern analysis, phenotypic analysis, or any other technique known to those skilled in the art for detecting genome modifications.
[0203] As further described in Example 2 below, 17 target sites were identified within 5 centimorgans upstream and downstream of event MON87429. The sequences of these target sites are provided herein as SEQ ID NOS: 174-190. The guide RNA spacer sequences corresponding to each target site sequence are provided as SEQ ID NOS: 195-211.
[0204] Corn plants, plant seeds, plant parts, plant cells, and progeny plants are provided. The plants, seeds, plant parts, plant cells, or progeny plants comprise a recombinant nucleic acid molecule. The recombinant nucleic acid molecule comprises a target corn genomic nucleic acid sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 174-190. The recombinant nucleic acid molecule further comprises a DNA sequence of interest. The DNA sequence of interest is inserted into the target corn genomic nucleic acid sequence. In some embodiments, the plant, seed, plant part, or progeny plant comprises a recombinant nucleic acid molecule comprising a target corn genomic nucleic acid sequence having a sequence selected from the group consisting of SEQ ID NOs: 174-190.
[0205] The DNA sequence of interest may comprise a gene of agronomic interest, for example, a gene of agronomic interest may confer herbicide resistance in plants.
[0206] In some embodiments, the target maize genomic nucleic acid sequence is at least 1 kb from the MON87429 insertion site. In some embodiments, the target maize genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site. In some embodiments, the target maize genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation of 10% or less of the genome-wide population average, and / or has a redundancy score of 30% or less.
[0207] A method for generating a recombinant corn plant cell is provided. The method includes: (a) obtaining a corn plant, seed, or cell containing a target corn genomic nucleic acid molecule having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 174-190; (b) introducing a site-specific nuclease capable of specifically binding to and cleaving the target corn genomic nucleic acid molecule into the corn plant, seed, or cell; (c) introducing a DNA sequence of interest into the corn plant, seed, or cell; and (d) selecting a recombinant corn plant, seed, or cell containing the DNA sequence of interest inserted into the target corn genomic nucleic acid molecule. The site-specific nuclease can be selected from the group consisting of an RNA-guided nuclease, a zinc finger nuclease, and a TALEN. For example, the RNA-guided nuclease can be Cas12a. The method may further include introducing into the corn plant, seed, or cell a guide polynucleotide comprising a nucleic acid sequence substantially complementary to a target corn genomic nucleic acid, wherein the guide polynucleotide and the RNA-guided nuclease form a complex capable of binding to and cleaving the corn genomic nucleic acid molecule. The guide polynucleotide may comprise a nucleotide sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. The guide polynucleotide may further comprise SEQ ID NO: 23. In some embodiments, the target corn genomic nucleic acid sequence is at least 1 kb from the MON87429 insertion site. In some embodiments, the target corn genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site.In some embodiments, the target maize genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation less than or equal to 10% of the genome-wide population average, and / or has a redundancy score less than or equal to 30%.
[0208] Recombinant DNA constructs are provided. The recombinant DNA molecule comprises a DNA sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. For example, the nucleic acid molecule can be selected from the group consisting of SEQ ID NOs: 195-211. The DNA sequence can be operably linked to a heterologous promoter sequence. The recombinant DNA molecule can further comprise SEQ ID NO: 23.
[0209] Recombinant RNA molecules are provided, which comprise an RNA sequence that is at least 85% complementary, at least 90% complementary, or at least 95% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211. In some embodiments, the RNA sequence is 100% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
[0210] The plants described herein can be used to produce progeny or descendants comprising corn event Zm_CSM63715. Such progeny can include any plant, seed, and cell and / or regenerable plant part comprising corn event Zm_CSM63715 inherited from or derived from an ancestral or parent corn plant(s), at least one of which contains at least one polynucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, at least 16 contiguous nucleotides of SEQ ID NO:1, at least 16 contiguous nucleotides of SEQ ID NO:2, at least 31 contiguous nucleotides of SEQ ID NO:3, at least 35 contiguous nucleotides of SEQ ID NO:4, at least 35 contiguous nucleotides of SEQ ID NO:5, at least 35 contiguous nucleotides of SEQ ID NO:6, at least 35 contiguous nucleotides of SEQ ID NO:7, at least 35 contiguous nucleotides of SEQ ID NO:8, at least 35 contiguous nucleotides of SEQ ID NO:9, at least 35 contiguous nucleotides of SEQ ID NO:10, at least 35 contiguous nucleotides of SEQ ID NO:11, at least 35 contiguous nucleotides of SEQ ID NO:12, at least 35 contiguous nucleotides of SEQ ID NO:13, at least 35 contiguous nucleotides of SEQ ID NO:14, at least 35 contiguous nucleotides of SEQ ID NO:15, at least 35 contiguous nucleotides of SEQ ID NO:16, at least 35 contiguous These include DNA molecules having or comprising a polynucleotide comprising 51 consecutive nucleotides, or at least 51 consecutive nucleotides, of SEQ ID NO:6, or a polynucleotide having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9.
[0211] The corn plants, progeny, and seeds can be homozygous or heterozygous for event Zm_CSM63715 and the transgene of event Zm_CSM63715. Progeny can be grown from seeds produced by corn plants that comprise or contain event Zm_CSM63715 and / or from seeds produced by plants that have been fertilized with pollen from corn plants that comprise or contain event Zm_CSM63715 (i.e., fertilized with pollen that comprises or contains event Zm_CSM63715). Plants or progeny can also be obtained by tissue culture and regeneration methods from protoplasts, cells, embryos, or reproductive or somatic tissue derived from corn plants that comprise or contain corn event Zm_CSM63715.
[0212] The progeny plants may be self-pollinated (also known as "selfing") to produce pure-breeding plants, i.e., plants homozygous for the DNA of the corn event Zm_CSM63715. Alternatively, the progeny plants may be outcrossed, i.e., crossed with another plant, to produce a variety or hybrid seed or plant. The other plant may be transgenic or non-transgenic. A variety or hybrid seed or plant of the present disclosure may thus be obtained by crossing a first parent lacking the specific and unique DNA of event Zm_CSM63715 with a second parent containing event Zm_CSM63715, resulting in a hybrid containing the specific and unique DNA of event Zm_CSM63715. Each parent is selected from the group consisting of at least one allele containing the specific and unique DNA of event Zm_CSM63715, and / or at least 16 contiguous nucleotides of SEQ ID NO: 1, at least 16 contiguous nucleotides of SEQ ID NO: 2, at least 31 contiguous nucleotides of SEQ ID NO: 3, at least 35 contiguous nucleotides of SEQ ID NO: 4, at least 51 contiguous nucleotides of SEQ ID NO: 5, or at least 51 contiguous nucleotides of SEQ ID NO: 6, or the full length of SEQ ID NO: 10 or SEQ ID NO: The plant may be a hybrid or an inbred / variety plant, so long as it produces seeds having a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:9.
[0213] The mating of one plant with another, i.e., cross-pollination, may be achieved or facilitated by human intervention, such as by collecting pollen from one plant by human hand and contacting the pollen with the style or stigma of a second plant; by human hand and / or human action removing, destroying, or covering the stamens or anthers of a plant (e.g., by manual intervention or by application of chemical sterilizers) to prevent natural self-pollination and require cross-pollination to occur; or by the "destruction" of insect pollinators by humans. This can be achieved or enhanced by placement in a location for "inducing pollination" (e.g., by placing beehives in an orchard or field or caging plants with pollinating insects), by humans releasing or removing flower parts so that foreign pollen is placed on or comes into contact with the style or stigma, by selective placement of plants (e.g., deliberately planting plants in pollinating proximity), and / or by applying chemicals to promote flowering or to promote receptivity (of the stigma to pollen).
[0214] Thus, two different transgenic plants of the same or different genetic backgrounds may be crossed to produce inbred or hybrid progeny plants, plant parts, and / or seeds containing two independently segregating transgenes or events, at least one of which contains or is contained within the corn event Zm_CSM63715. For example, a transgenic plant containing the corn event Zm_CSM63715 can be crossed with another transgenic corn plant to produce a plant having characteristics of both transgenic parents.
[0215] Backcrossing to parental plants and outcrossing with non-transgenic plants are also contemplated, as is vegetative propagation. Descriptions of other breeding methods commonly used for different traits and crops are known in the art and can be found in one of several references, for example, Fehr, in Breeding Methods for Cultivar Development, Wilcox J. ed., American Society of Agronomy, Madison WI (1987).
[0216] Plant parts are provided. As used herein, "plant part" refers to any part of a plant that is composed of material directly from or derived from a plant containing the corn event Zm_CSM63715. Plant parts include, but are not limited to, all or part of a microspore, pollen, anther, silk, spike, ovule, ovary, flower, cob, pod, embryo, stem, leaf, root, or callus. Plant parts can be viable or non-viable. Plant parts can be regenerable or non-regenerable.
[0217] Non-living or non-regenerable corn plant material is provided herein. The non-living or non-regenerable corn plant material can include any of the recombinant DNA molecules characteristic of the corn event Zm_CSM63715 described herein or any of the DNA constructs described herein. The non-living or non-regenerable corn plant material can include the corn event Zm_CSM63715, and a representative sample of seeds containing the corn event Zm_CSM63715 has been deposited under ATCC accession number PTA-127361.
[0218] Commercially available products are provided that contain any of the DNA molecules characteristic of corn event Zm_CSM63715 or any of the DNA constructs described herein. Such commodity products can be produced from plants containing corn event Zm_CSM63715. The commodity products contain a detectable amount of DNA, including a polynucleotide having a DNA sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, or a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9. As used herein, "commercial product" refers to any composition or product comprised of material derived from a plant, seed, cell, or plant part that includes corn event Zm_CSM63715. A commodity product can be viable or non-viable plant material that is not living and is derived from a plant, seed, cell, or plant part that includes corn event Zm_CSM63715. Non-viable commodity products include, but are not limited to, non-viable seeds, whole seeds or processed seeds, processed plant tissues or plant parts, dehydrated plant tissues or parts, frozen plant tissues or parts, corn oil, corn meal, grains, corn flour, corn grit, corn flakes, corn bran, corn starch, fiber, sweeteners such as high fructose corn syrup (HFCS), glucose and dextrose, beverage alcohol, foods for human consumption such as brewers grits for making beer, animal feed such as corn, corn biomass, industrial alcohol, fuel ethanol, corn pollen, corn plastic, dried distillers grains (DDG), and biodegradable packaging materials.Viable commercial products include, but are not limited to, viable seeds, viable plant parts (such as roots and leaves), and viable plant cells. Thus, plants containing event Zm_CSM63715 can be used to produce any commercial product typically obtained from corn plants. Any such commercial product derived from a plant containing event Zm_CSM63715 will likely contain at least a detectable amount of specific and unique DNA corresponding to event Zm_CSM63715, and in particular, a polynucleotide having a nucleotide sequence of at least 16 contiguous nucleotides of SEQ ID NO:1, at least 16 contiguous nucleotides of SEQ ID NO:2, at least 31 contiguous nucleotides of SEQ ID NO:3, at least 35 contiguous nucleotides of SEQ ID NO:4, at least 51 contiguous nucleotides of SEQ ID NO:5, or at least 51 contiguous nucleotides of SEQ ID NO:6. The polynucleotide molecule may comprise a detectable amount of a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full-length sequence of SEQ ID NO: 10 or the full-length sequence of SEQ ID NO: 9. Any standard detection method for polynucleotide molecules may be used, including the detection methods disclosed herein.
[0219] Methods for producing such commodity products are also provided, comprising (a) obtaining a transgenic corn plant, plant part, or plant seed that includes corn event Zm_CSM63715, and b) producing the commodity product from the transgenic corn plant, plant part, or plant seed.
[0220] Plants that are tolerant to herbicides can be produced by crossing a plant containing the Zm_CSM63715 event with another plant to produce seeds, which are then grown into progeny plants. For example, provided herein is a method for producing progeny corn plants containing the Zm_CSM63715 event, the method comprising: (a) crossing a first corn plant containing the Zm_CSM63715 event with itself or with a second corn plant; (b) collecting one or more seeds produced from the cross; (c) growing one or more seeds to produce one or more progeny plants; and (d) selecting at least a first progeny plant or seed containing the Zm_CSM63715 corn event. Inbred and hybrid corn plants containing the Zm_CSM63715 corn event produced by such a method are also provided.
[0221] Progeny plants are analyzed using diagnostic methods to identify progeny plants containing DNA of event Zm_CSM63715 or flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl]phenoxy] ... 2-Methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate oxy]acetate, cyanomethyl[(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy} Progeny plants can be selected that are tolerant to PPO herbicides such as propanoate (flufenoximacil), cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy) acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, and any combination thereof. Other plants used may be transgenic or non-transgenic. The progeny plants and / or seeds produced may be variety or hybrid seeds.
[0222] Plants that are tolerant to PPO herbicides include those that contain a polynucleotide having the nucleotide sequence of SEQ ID NOs: 1-10, at least 16 contiguous nucleotides of SEQ ID NO: 1, at least 16 contiguous nucleotides of SEQ ID NO: 2, at least 31 contiguous nucleotides of SEQ ID NO: 3, at least 35 contiguous nucleotides of SEQ ID NO: 4, at least 51 contiguous nucleotides of SEQ ID NO: 5, or at least 51 contiguous nucleotides of SEQ ID NO: 6, and a polynucleotide that is at least 90%, at least 91%, at least 92%, or at least the full length of SEQ ID NO: 10 or the full length of SEQ ID NO: 9. The polynucleotides may be produced by selfing a plant containing event Zm_CSM63715, thereby producing seeds which are then grown into progeny plants, wherein the polynucleotides have a sequence which is 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the event Zm_CSM63715.These progeny plants are then analyzed using diagnostic methods to identify progeny plants containing event Zm_CSM63715 DNA or flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{ 2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [( 3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate ( Progeny plants can be selected that are tolerant to PPO herbicides such as flufenoximacil), cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, and any combination thereof.
[0223] Corn Event Zm_CSM63715 contains flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanome methyl[(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate The herbicides include a PPO expression cassette that confers tolerance to PPO herbicides such as flufenoximacil, cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, and any combination thereof.Corn plants, progeny, and seeds of event Zm_CSM63715 may contain one or more additional desirable trait(s), such as tolerance to inhibitors of acetyl-CoA carboxylase (ACCase) in the aryloxyphenoxypropionate (FOP) group (e.g., quizalofop and haloxyfop), synthetic auxins (e.g., dicamba and 2,4-D), inhibitors of glutamine synthetase (e.g., glufosinate), inhibitors of EPSPS (e.g., glyphosate), or any combination thereof.
[0224] PPO herbicides include diphenyl ethers, N-phenylphthalimides, oxadiazoles, oxazolidinediones, phenylpyrazoles, pyrimidinediones, thiadiazoles, triazolinones, benzoxazinone derivatives, other PPO herbicides, and any combination thereof. Examples of diphenyl ethers include, but are not limited to, acifluorfen, bifenox, ethoxyfen, fluorodifen, fluoronitrofen, furyloxyfen, halosafen, chloromethoxyfen, chlornitrofen, ethoxyfen-ethyl, fluoroglycofen, lactofen, nitrofen, oxyfluorfen, fomesafen, any salts thereof, and any esters thereof. Examples of N-phenylphthalimides include, but are not limited to, cinidon-ethyl, flumiclorac, flumiclorac-pentyl, and flumioxazin. Examples of oxadiazoles include, but are not limited to, oxadiargyl and oxadiazone. Examples of oxazolidinediones include, but are not limited to, pentoxazone. Examples of phenylpyrazoles include, but are not limited to, fluazolate, pyraflufen, and pyraflufen-ethyl. Examples of pyrimidinediones or phenyluracils include, but are not limited to, benzfendizone, butafenacil, epirifenacyl, flupropacil, flufenoximacil, saflufenacil, and thiafenacil. Examples of thiadiazoles include, but are not limited to, fluthiaceto-methyl and thidiazimine. Examples of triazolinones include, but are not limited to, azafenidin, bencarbazone, carfentrazone, its salts and esters, and sulfentrazone. Examples of benzoxazinone derivatives include, but are not limited to, 1,5-dimethyl-6-thioxo-3-(2,2,7-trifluoro-3,4-dihydro-3-oxo-4-prop-2-ynyl-2H-1,4-benzoxazin-6-yl)-1,3,5-triazinane-2,4-dione trifludimoxadine).Examples of other PPO herbicides include, but are not limited to, chlorphthalim, flufenpyr, flufenpyr-ethyl, flumipropyne, pyraclonil, and profluazole. Further examples of other PPO herbicides include:
[0225] 1) A herbicidally active compound of general formula (I) or an agriculturally acceptable salt thereof, [ka] During the ceremony, R 1 is hydrogen, R 2 is hydrogen, fluorine, chlorine, bromine, trifluoromethyl, methoxy, ethoxy, prop-1-yloxy, or but-1-yloxy; R 3 is hydrogen, fluorine, chlorine, bromine, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, or 1,1-dimethylethyl-1-yloxy; R 4 is fluorine, chlorine, bromine, cyano, NO2, C(O)NH2, C(S)NH2, trifluoromethyl, difluoromethyl, pentafluoroethyl, ethynyl, propyn-1-yl, 1-butyn-1-yl, pentyn-1-yl, or hexyn-1-yl; R 5 , R 6 and R 7are independently hydrogen, fluorine, chlorine, bromine, iodine, cyano, methyl, ethyl, prop-1-yl, 1-methylethyl, but-1-yl, 1-methylpropyl, 2-methylpropyl, 1,1-dimethylethyl, n-pentyl, 1-methylbutyl, 2-methylbutyl, 3-methylbutyl, 1,1-dimethylpropyl, 1,2-dimethylpropyl, 2,2-dimethylpropyl, 1-ethylpropyl, n-hexyl, 1-methylpentyl, 2-methylpentyl, 3-methylpentyl, 4-methylpentyl, 1,1-dimethylbutyl, 1,2-dimethylbutyl, 1,3-dimethylbutyl, 2,2-dimethylbutyl, 2,3-dimethylbutyl, 3,3-dimethylbutyl, 1-ethylpropyl, ethylbutyl, 2-ethylbutyl, 1,1,2-trimethylpropyl, 1,2,2-trimethylpropyl, 1-ethyl-1-methylpropyl, 1-ethyl-2-methylpropyl, trifluoromethyl, difluoromethyl, pentafluoroethyl, 2,2-difluoroethyl, 2,2,2-trifluoroethyl, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, 1,1-dimethyleth-1-yloxy, difluoromethoxy, trifluoromethoxy, pentafluoroethoxy, 2,2-difluoroethoxy, or 2,2,2-trifluoroethoxy; G is methylene, (methyl)methylene, (ethyl)methylene, (prop-1-yl)methylene, (prop-2-yl)methylene, (but-1-yl)methylene, (but-2-yl)methylene, (pent-1-yl)methylene, (pent-2-yl)methylene, (pent-3-yl)methylene, (dimethyl)methylene, (diethyl)methylene, ethylene, n-propylene, (1-methyl)ethyl-1-ene, (2-methyl)ethyl-1-ene, n-butylene, 1-methylpropyl-1-ene, 2-methylpropyl -1-ene, 3-methylpropyl-1-ene, 1,1-dimethylethyl-1-ene, 2,2-dimethylethyl-1-ene, 1-ethylethyl-1-ene, 2-ethylethyl-1-ene, 1-(prop-1-yl)ethyl-1-ene, 2-(prop-1-yl)ethyl-1-ene, 1-(prop-2-yl)ethyl-1-ene, 2-(prop-2-yl)ethyl-1-ene, 1,1,2-trimethylethyl-1-ene, 1,2,2-trimethylethyl-1-ene, 1,1,2,2-tetramethylethyl-1-ene , n-pentylene, 1-methylbutyl-1-ene, 2-methylbutyl-1-ene, 3-methylbutyl-1-ene, 4-methylbutyl-1-ene, 1,1-dimethylpropyl-1-ene, 2,2-dimethylpropyl-1-ene, 3,3-dimethylpropyl-1-ene, 1,2-dimethylpropyl-1-ene, 1,3-dimethylpropyl-1-ene, 1-ethylpropyl-1-ene, n-hexylene, 1-methylpentyl-1-ene, 2-methylpentyl-1-ene, 3-methylpentyl-1-ene, 4-methylpentyl butyl-1-ene, 1,1-dimethylbutyl-1-ene, 1,2-dimethylbutyl-1-ene, 1,3-dimethylbutyl-1-ene, 2,2-dimethylbutyl-1-ene, 2,3-dimethylbutyl-1-ene, 3,3-dimethylbutyl-1-ene, 1-ethylbutyl-1-ene, 2-ethylbutyl-1-ene, 1,1,2-trimethylpropyl-1-ene, 1,2,2-trimethylpropyl-1-ene, 1-ethyl-1-methylpropyl-1-ene, or 1-ethyl-2-methylpropyl-1-ene; X and Y are independently O (oxygen) or S (sulfur); and Q is one of the following parts: Q-1 through Q-54, Q-56 through Q-57, Q-60 through Q-89, Q-91 through Q-129, Q-131 through Q-139, Q-141 through Q-144, Q-146 through Q-180, Q-182 through Q-185, Q-193 through Q-195, Q-200 through Q-208, Q-210 through Q-370, and Q-395 through Q-440. [Table 3-1] [Table 3-2] [Table 3-3] [Table 3-4] [Table 3-5] [Table 3-6] [Table 3-7] [Table 3-8] [Table 3-9] [Table 3-10] [Table 3-11] [Table 3-12]
[0226] Examples of such herbicidally active compounds within the scope of formula (I) include: (a) [ka] pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, (b) [ka] 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, (c) [ka] 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, and (d) [ka] Cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate.
[0227] 2) a herbicidally active compound of general formula (II) or an agriculturally acceptable salt thereof, [ka] During the ceremony, W represents groups W-1 to W-3; [ka] R 1represents hydrogen, fluorine, chlorine, bromine, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, or 1,1-dimethylethyl-1-yloxy; R 2 represents fluorine, chlorine, bromine, cyano, nitro, C(O)NH2, C(S)NH2, trifluoromethyl, difluoromethyl, pentafluoroethyl, ethynyl, propyn-1-yl, 1-butyn-1-yl, pentyn-1-yl, or hexyn-1-yl; R 3 and R 4 are independently hydrogen, (C-C)-alkyl, R 13 O-(C1-C8)-alkyl, (C3-C8)-cycloalkyl, (C2-C8)-alkenyl, aryl-(C1-C8)-alkyl, heteroaryl-(C1-C8)-alkyl or heterocyclyl-(C1-C8)-alkyl, or R 3 and R 4 together with the carbon atoms to which they are attached form a fully saturated or partially saturated 3- to 10-membered carbocyclic ring, optionally with further substitution; R 5 is hydrogen, (C1-C8)-alkyl, (C1-C8)-haloalkyl, R 13 O—(C1-C8)-alkyl, (C2-C8)-alkenyl, aryl-(C1-C8)-alkyl, heteroaryl-(C1-C8)-alkyl, heterocyclyl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl, aryl, heteroaryl or heterocyclyl, R 6 represents hydrogen, fluorine, chlorine, bromine, trifluoromethyl, difluoromethyl, methoxy, ethoxy, prop-1-yloxy, or but-1-yloxy; R 7 represents hydrogen or methyl, Q represents hydroxy or a group Q-1, Q-2; [ka] R 8 is hydrogen, (C1-C8)-alkyl, (C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, (C2-C8)-alkynyl, (C2-C8)-alkenyl, C(O)R 13 , C(O)OR 13 or (C1-C8)-alkoxy-(C1-C8)-alkyl, R 9 represents hydrogen or (C1-C8)-alkyl, R 10 is hydrogen, halogen, cyano, nitro, (C1C8)-alkyl, (C1C8)-haloalkyl, (C3C8)-cycloalkyl, (C3C8)-cycloalkyl-(C1C8)-alkyl, (C3C8)-halocycloalkyl, (C3C8)-halocycloalkyl-(C1C8)-alkyl, (C2C8)-alkenyl, (C2C8)-alkynyl, aryl, aryl-(C1C8)-alkyl, heteroaryl, heteroaryl-(C1C8)-alkyl, heterocyclyl, heterocyclyl-(C1C8)-alkyl, R 11 R 12 N-(C1C8)-alkyl, R 13 O-(C1C8)-alkyl, cyano-(C1C8)-alkyl, (C1C8)-alkylcarbonyloxy-(C1C8)-alkyl, (C3C8)-cycloalkylcarbonyloxy-(C1C8)-alkyl, arylcarbonyloxy-(C1C8)-alkyl, heteroarylcarbonyloxy-(C1C8)-alkyl, heterocyclylcarbonyloxy-(C1C8)-alkyl, OR 13 , N.R. 11 R 12 , S.R. 14 , S(O)R 14 , SO2R 14 , R 14 S-(C1C8)-alkyl, R 14 (O)S-(C1C8)-alkyl, R 14OS-(C1C8)-alkyl, tris-[(C1C8)-alkyl]silyl-(C1C8)-alkyl, bis-[(C1C8)-alkyl](aryl)silyl(C1C8)-alkyl, [(C1C8)-alkyl]-bis-(aryl)silyl-(C1C8)-alkyl, tris-[(C1C8)-alkyl]silyl, bis-hydroxyboryl-(C1C8)-alkyl, bis-[(C1C8)-alkoxy]boryl-(C1C8)-alkyl, tetramethyl-1,3,2-dioxaborolan-2-yl, tetramethyl-1,3,2-dioxaborolan-2-yl-(C1C8)-alkyl, nitro-(C1C8)-alkyl, C(O)OR 13 , C(O)R 13 , C(O)NR 11 R 12 ,R 13 O(O)C-(C1C8)-alkyl, R 11 R 12 represents N(O)C—(C1C8)-alkyl, or bis-(C1C8)-alkoxy-(C1C8)-alkyl, or R 8 and R 10 together with the carbon atoms to which they are attached form a fully saturated or partially saturated 3- to 10-membered monocyclic or bicyclic ring optionally interrupted by heteroatoms and optionally having further substitution; R 11 and R 12 are, independently of one another, hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10)-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-haloalkoxy-(C1-C8)-alkyl, (C1-C8)-alkylthio-(C1-C8)-alkyl, (C1-C8)-haloalkylthio-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, (C4-C 10 )-cycloalkenyl-(C1-C8)-alkyl, C(O)R 13 , SO2R 14 , heterocyclyl, (C1-C8)-alkoxycarbonyl, bis-[(C1-C8)-alkyl]aminocarbonyl-(C1-C8)-alkyl, (C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkoxycarbonyl, heteroaryl-(C1-C8)-alkoxycarbonyl, (C2-C8)-alkenyloxycarbonyl, (C2-C8)-alkynyloxycarbonyl or heterocyclyl-(C1-C8)-alkyl, or R 11 and R 12 together with the nitrogen atom to which they are attached form a fully saturated or partially saturated 3- to 10-membered monocyclic or bicyclic ring optionally interrupted by heteroatoms and optionally having further substitution; R 13 is hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10)-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-haloalkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkenyl alkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkyl, aryl, aryl-(C1-C8)-alkyl, aryl-(C1-C8)-alkoxy-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, -(C4-C 10 )-cycloalkenyl-(C1-C8)-alkyl, bis-[-(C1-C8)-alkyl]aminocarbonyl-(C1-C8)-alkyl, -(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, bis-[-(C1-C8)-alkyl]amino-(C2-C6)-alkyl, (C1-C8)-alkyl-amino-(C2-C6)-alkyl, aryl-(C1-C8)-alkyl-amino-(C2-C6)-alkyl, R 14 S-(C1-C8)-alkyl, R 14 (O)S-(C1-C8)-alkyl, R 14OS-(C1-C8)-alkyl, hydroxycarbonyl-(C1-C8)-alkyl, heterocyclyl, heterocyclyl-(C1-C8)-alkyl, tris-[-(C1-C8)-alkyl]silyl-(C1-C8)-alkyl, bis-[(C1-C8)-alkyl](aryl)silyl(C1-C8)-alkyl, [(C1-C8)-alkyl]-bis-(aryl)silyl-(C1-C8)-alkyl, (C1-C8)-alkylcarbonyloxy represents cyclo-(C1-C8)-alkyl, (C3-C8)-cycloalkylcarbonyloxy-(C1-C8)-alkyl, arylcarbonyloxy-(C1-C8)-alkyl, heteroarylcarbonyloxy-(C1-C8)-alkyl, heterocyclylcarbonyloxy-(C1-C8)-alkyl, aryloxy-(C1-C8)-alkyl, heteroaryloxy-(C1-C8)-alkyl or (C1-C8)-alkoxycarbonyl, R 14 is hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10 )-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, heterocyclyl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, (C4-C 10)-cycloalkenyl-(C1-C8)-alkyl, bis-[(C1-C8)-alkyl]amino, (C1-C8)-alkylamino, aryl-(C1-C8)-amino, aryl-(C1-C6)-alkylamino, aryl-[(C1-C8)-alkyl]amino, (C3-C8)-cycloalkylamino, (C3-C8)-cycloalkyl-[(C1-C8)-alkyl]amino, N-azetidinyl, N-pyrrolidinyl, N-piperidinyl or N-morpholinyl, R 15 and R 16 represent, independently of one another, (C1-C8)-alkyl, (C3-C8)-cycloalkyl, aryl, heteroaryl or heterocyclyl.
[0228] Examples of such herbicidally active compounds within the scope of formula (II) include methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate, panoate (also known as methyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate or flufenoximacil), methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, Methyl 2-{[(Z)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, 2-{[(Z)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6 -dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, ethyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, ethyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-Dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino ]oxy}propanoic acid, (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate, ethyl 2-{[(E)-{ 2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate, methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3- Methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-Dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, ethyl ester 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanilidene]amino}oxy)propanoate methyl (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, ( 2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, ethyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl) -4-fluorobenzylidene]amino}oxy)propanoate, methyl 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, methyl (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, methyl (2S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate}propanoic acid, (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, and (2S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid.
[0229] 3) A herbicidally active compound of the general formula (III) or a pesticide-acceptable salt thereof [ka] During the ceremony, W represents groups W-1 to W-3; [ka] R 1 represents hydrogen, fluorine, chlorine, bromine, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, or 1,1-dimethylethyl-1-yloxy; R 2 represents fluorine, chlorine, bromine, cyano, nitro, C(O)NH2, C(S)NH2, trifluoromethyl, difluoromethyl, pentafluoroethyl, ethynyl, propyn-1-yl, 1-butyn-1-yl, pentyn-1-yl, or hexyn-1-yl; R 3 and R 4 are, independently of one another, hydrogen or (C1-C8)-alkyl, R 5 is hydrogen, (C1-C8)-alkyl, (C1-C8)-haloalkyl, R 13 O—(C1-C8)-alkyl, (C2-C8)-alkenyl, aryl-(C1-C8)-alkyl, heteroaryl-(C1-C8)-alkyl, or heterocyclyl-(C1-C8)-alkyl, or R 3 and R 5 together with the carbon atoms to which they are attached form a fully saturated or partially saturated 3- to 10-membered monocyclic or bicyclic ring optionally interrupted by heteroatoms and optionally having further substitution; R 6 represents hydrogen, fluorine, chlorine, bromine, trifluoromethyl, difluoromethyl, methoxy, ethoxy, prop-1-yloxy, or but-1-yloxy; R 7 represents hydrogen or methyl; Q represents hydroxy or a group Q-1, Q-2; [ka] R 8 is hydrogen, (C1-C8)-alkyl, (C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, (C2-C8)-alkynyl, (C2-C8)-alkenyl, C(O)R 13 , C(O)OR 13 or (C1-C8)-alkoxy-(C1-C8)-alkyl, R 9 represents hydrogen, (C1-C8)-alkyl, R 10 is hydrogen, halogen, cyano, nitro, (C1-C8)-alkyl, (C1-C8)-haloalkyl, (C3-C8)-cycloalkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, (C3-C8)-halocycloalkyl, (C3-C8)-halocycloalkyl-(C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, heterocyclyl, heterocyclyl-(C1-C8)-alkyl, R 11 R 12 N-(C1-C8)-alkyl, R 13 O-(C1-C8)-alkyl, cyano-(C1-C8)-alkyl, (C1-C8)-alkylcarbonyloxy-(C1-C8)-alkyl, (C3-C8)-cycloalkylcarbonyloxy-(C1-C8)-alkyl, arylcarbonyloxy-(C1-C8)-alkyl, heteroarylcarbonyloxy-(C1-C8)-alkyl, heterocyclylcarbonyloxy-(C1-C8)-alkyl, OR 13 , N.R. 11 R 12 , S.R. 14 , S(O)R 14 , SO2R 14 , R 14 S-(C1-C8)-alkyl, R 14 (O)S-(C1-C8)-alkyl, R 14OS-(C1-C8)-alkyl, tris-[(C1-C8)-alkyl]silyl-(C1-C8)-alkyl, bis-[(C1-C8)-alkyl](aryl)silyl(C1-C8)-alkyl, [(C1-C8)-alkyl]-bis-(aryl)silyl-(C1-C8)-alkyl, tris-[(C1-C8)-alkyl]silyl, bis-hydroxyboryl-(C1-C8)-alkyl, bis-[(C1-C8)-alkoxy]boryl-(C1-C8)-alkyl, tetramethyl-1,3,2-dioxaborolan-2-yl, tetramethyl-1,3,2-dioxaborolan-2-yl-(C1-C8)-alkyl, nitro-(C1-C8)-alkyl, C(O)OR 13 , C(O)R 13 , C(O)NR 11 R 12 ,R 13 O(O)C-(C1-C8)-alkyl, R 11 R 12 represents N(O)C—(C1-C8)-alkyl, or bis-(C1-C8)-alkoxy-(C1-C8)-alkyl, or R 8 and R 10 together with the carbon atoms to which they are attached form a fully saturated or partially saturated 3- to 10-membered monocyclic or bicyclic ring optionally interrupted by heteroatoms and optionally having further substitution; R 11 and R 12 are, independently of one another, hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10)-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-haloalkoxy-(C1-C8)-alkyl, (C1-C8)-alkylthio-(C1-C8)-alkyl, (C1-C8)-haloalkylthio-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, (C4-C 10 )-cycloalkenyl-(C1-C8)-alkyl, C(O)R 13 , SO2R 14 , heterocyclyl, (C1-C8)-alkoxycarbonyl, bis-[(C1-C8)-alkyl]aminocarbonyl-(C1-C8)-alkyl, (C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkoxycarbonyl, heteroaryl-(C1-C8)-alkoxycarbonyl, (C2-C8)-alkenyloxycarbonyl, (C2-C8)-alkynyloxycarbonyl or heterocyclyl-(C1-C8)-alkyl, or R 11 and R 12 together with the nitrogen atom to which they are attached form a fully saturated or partially saturated 3- to 10-membered monocyclic or bicyclic ring optionally interrupted by heteroatoms and optionally having further substitution; R 13 is hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10)-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-haloalkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkenyl alkyl, (C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkoxy-(C1-C8)-alkyl, aryl, aryl-(C1-C8)-alkyl, aryl-(C1-C8)-alkoxy-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, -(C4-C 10 )-cycloalkenyl-(C1-C8)-alkyl, bis-[-(C1-C8)-alkyl]aminocarbonyl-(C1-C8)-alkyl, -(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, aryl-(C1-C8)-alkyl-aminocarbonyl-(C1-C8)-alkyl, bis-[-(C1-C8)-alkyl]amino-(C2-C6)-alkyl, (C1-C8)-alkyl-amino-(C2-C6)-alkyl, aryl-(C1-C8)-alkyl-amino-(C2-C6)-alkyl, R 14 S-(C1-C8)-alkyl, R 14 (O)S-(C1-C8)-alkyl, R 14OS-(C1-C8)-alkyl, hydroxycarbonyl-(C1-C8)-alkyl, heterocyclyl, heterocyclyl-(C1-C8)-alkyl, tris-[-(C1-C8)-alkyl]silyl-(C1-C8)-alkyl, bis-[(C1-C8)-alkyl](aryl)silyl(C1-C8)-alkyl, [(C1-C8)-alkyl]-bis-(aryl)silyl-(C1-C8)-alkyl, (C1-C8)-alkylcarbonyloxy represents cyclo-(C1-C8)-alkyl, (C3-C8)-cycloalkylcarbonyloxy-(C1-C8)-alkyl, arylcarbonyloxy-(C1-C8)-alkyl, heteroarylcarbonyloxy-(C1-C8)-alkyl, heterocyclylcarbonyloxy-(C1-C8)-alkyl, aryloxy-(C1-C8)-alkyl, heteroaryloxy-(C1-C8)-alkyl or (C1-C8)-alkoxycarbonyl, R 14 is hydrogen, (C1-C8)-alkyl, (C2-C8)-alkenyl, (C2-C8)-alkynyl, (C1-C8)-cyanoalkyl, (C1-C 10 )-haloalkyl, (C2-C8)-haloalkenyl, (C3-C8)-haloalkynyl, (C3-C 10 )-cycloalkyl, (C3-C 10 )-halocycloalkyl, (C4-C 10 )-cycloalkenyl, (C4-C 10 )-halocycloalkenyl, (C1-C8)-alkoxy-(C1-C8)-alkyl, (C1-C8)-alkoxy-(C1-C8)-haloalkyl, aryl, aryl-(C1-C8)-alkyl, heteroaryl, heteroaryl-(C1-C8)-alkyl, heterocyclyl-(C1-C8)-alkyl, (C3-C8)-cycloalkyl-(C1-C8)-alkyl, (C4-C 10)-cycloalkenyl-(C1-C8)-alkyl, bis-[(C1-C8)-alkyl]amino, (C1-C8)-alkylamino, aryl-(C1-C8)-amino, aryl-(C1-C6)-alkylamino, aryl-[(C1-C8)-alkyl]amino, (C3-C8)-cycloalkylamino, (C3-C8)-cycloalkyl-[(C1-C8)-alkyl]amino, N-azetidinyl, N-pyrrolidinyl, N-piperidinyl or N-morpholinyl, R 15 and R 16 represent, independently of one another, (C1-C8)-alkyl, (C3-C8)-cycloalkyl, aryl, heteroaryl or heterocyclyl.
[0230] Examples of herbicidally active compounds within the scope of formula (III) include ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, methyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 5-carboxylate, 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, ethyl (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-propyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-Dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-ethyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazol-3-yl)phenyl]-1-methyl-6-(trifluoromethyl)pyrimidine-2,4(1H,3H)-dione, ethyl 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4- sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, methyl 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate (5R)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, -dihydro-1,2-oxazole-5-carboxylic acid, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazol-3-yl)phenyl]-1,5-dimethyl-6-sulfanylidene-1,3,5-triazinane-2,4-dione, ethyl 3-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}-5-methyl-4,5-dihydro-1,2-Oxazole-5-carboxylate, 3-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, methyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, ethyl 3- {2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate and methyl 3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate.
[0231] 4) a herbicidally active compound corresponding to a compound selected from the group consisting of A1, A2, and A3, or an agriculturally acceptable salt thereof; A1 corresponds to: [ka] 2-ethoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate, A2 corresponds to: [ka] {[(1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropyl)carbonyl]oxy}acetic acid, and A3 corresponds to: [ka] 2-Methoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate
[0232] 5) A herbicidally active compound of general formula (IV) or an agriculturally acceptable salt thereof, [ka] During the ceremony, R 1is hydrogen, fluorine, chlorine, bromine, iodine, cyano, methyl, ethyl, prop-1-yl, 1-methylethyl, but-1-yl, 1-methylpropyl, 2-methylpropyl, 1,1-dimethylethyl, n-pentyl, 1-methylbutyl, 2-methylbutyl, 3-methylbutyl, 1,1-dimethylpropyl, 1,2-dimethylpropyl, 2,2-dimethylpropyl, 1-ethylpropyl, n-hexyl, 1-methylpentyl, 2-methylpentyl, 3-methylpentyl, 4-methylpentyl, 1,1-dimethylbutyl, 1,2-dimethylbutyl, 1,3-dimethylbutyl, 2,2-dimethylbutyl, 2,3-dimethylbutyl, 3,3-dimethylbutyl, 1-ethylbutyl butyl, 2-ethylbutyl, 1,1,2-trimethylpropyl, 1,2,2-trimethylpropyl, 1-ethyl-1-methylpropyl, 1-ethyl-2-methylpropyl, trifluoromethyl, difluoromethyl, pentafluoroethyl, 2,2-difluoroethyl, 2,2,2-trifluoroethyl, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, 1,1-dimethyleth-1-yloxy, difluoromethoxy, trifluoromethoxy, pentafluoroethoxy, 2,2-difluoroethoxy, or 2,2,2-trifluoroethoxy; R 2 is hydrogen, fluorine, chlorine, bromine, methyl, trifluoromethyl, methoxy, ethoxy, prop-1-yloxy, or but-1-yloxy, R 3 is hydrogen, fluorine, chlorine, bromine, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, or 1,1-dimethylethyl-1-yloxy; R 4 is fluorine, chlorine, bromine, cyano, NO2, C(O)NH2, C(S)NH2, trifluoromethyl, difluoromethyl, pentafluoroethyl, ethynyl, propyn-1-yl, 1-butyn-1-yl, pentyn-1-yl, or is a hexyn-1-yl group, R 5 , R 6 and R 7 are, independently of one another, hydrogen, fluorine, chlorine, bromine, iodine, cyano, methyl, ethyl, prop-1-yl, 1-methylethyl, but-1-yl, 1-methylpropyl, 2-methylpropyl, 1,1-dimethylethyl, n-pentyl, 1-methylbutyl, 2-methylbutyl, 3-methylbutyl, 1,1-dimethylpropyl, 1,2-dimethylpropyl, 2,2-dimethylpropyl, 1-ethylpropyl, n-hexyl, 1-methylpentyl, 2-methylpentyl, 3-methylpentyl, 4-methylpentyl, 1,1-dimethylbutyl, 1,2-dimethylbutyl, 1,3-dimethylbutyl, 2,2-dimethylbutyl, 2,3-dimethylbutyl, 3,3-dimethylbutyl, 1- ethylbutyl, 2-ethylbutyl, 1,1,2-trimethylpropyl, 1,2,2-trimethylpropyl, 1-ethyl-1-methylpropyl, 1-ethyl-2-methylpropyl, trifluoromethyl, difluoromethyl, pentafluoroethyl, 2,2-difluoroethyl, 2,2,2-trifluoroethyl, methoxy, ethoxy, prop-1-yloxy, prop-2-yloxy, but-1-yloxy, but-2-yloxy, 2-methylprop-1-yloxy, 1,1-dimethyleth-1-yloxy, difluoromethoxy, trifluoromethoxy, pentafluoroethoxy, 2,2-difluoroethoxy, or 2,2,2-trifluoroethoxy; G is methylene, (methyl)methylene, (ethyl)methylene, (prop-1-yl)methylene, (prop-2-yl)methylene, (but-1-yl)methylene, (but-2-yl)methylene, (pent-1-yl)methylene, (pent-2-yl)methylene, (pent-3-yl)methylene, (dimethyl)methylene, (diethyl)methylene, ethylene, n-propylene, (1-methyl)ethyl-1-ene, (2-methyl)ethyl-1-ene, n-butylene, 1-methylpropyl-1-ene, 2-methylpropyl -1-ene, 3-methylpropyl-1-ene, 1,1-dimethylethyl-1-ene, 2,2-dimethylethyl-1-ene, 1-ethylethyl-1-ene, 2-ethylethyl-1-ene, 1-(prop-1-yl)ethyl-1-ene, 2-(prop-1-yl)ethyl-1-ene, 1-(prop-2-yl)ethyl-1-ene, 2-(prop-2-yl)ethyl-1-ene, 1,1,2-trimethylethyl-1-ene, 1,2,2-trimethylethyl-1-ene, 1,1,2,2-tetramethylethyl-1-ene , n-pentylene, 1-methylbutyl-1-ene, 2-methylbutyl-1-ene, 3-methylbutyl-1-ene, 4-methylbutyl-1-ene, 1,1-dimethylpropyl-1-ene, 2,2-dimethylpropyl-1-ene, 3,3-dimethylpropyl-1-ene, 1,2-dimethylpropyl-1-ene, 1,3-dimethylpropyl-1-ene, 1-ethylpropyl-1-ene, n-hexylene, 1-methylpentyl-1-ene, 2-methylpentyl-1-ene, 3-methylpentyl-1-ene, 4-methylpentyl butyl-1-ene, 1,1-dimethylbutyl-1-ene, 1,2-dimethylbutyl-1-ene, 1,3-dimethylbutyl-1-ene, 2,2-dimethylbutyl-1-ene, 2,3-dimethylbutyl-1-ene, 3,3-dimethylbutyl-1-ene, 1-ethylbutyl-1-ene, 2-ethylbutyl-1-ene, 1,1,2-trimethylpropyl-1-ene, 1,2,2-trimethylpropyl-1-ene, 1-ethyl-1-methylpropyl-1-ene, or 1-ethyl-2-methylpropyl-1-ene; X and Y are independently O (oxygen) or S (sulfur); and Q is one of the groups Q-1 to Q-25, and in the formulae in the table below, the arrows represent the bond of each group Q to the carbonyl group in general formula (I). [Table 4]
[0233] An example of a herbicidally active compound within the scope of formula (IV) is cyclopropylmethyl-(2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, which has the following structure: [ka]
[0234] As used herein, acetyl-CoA carboxylase (ACCase) inhibitors of the aryloxyphenoxypropionate (FOP) group (referred to as "FOP herbicide(s)") include cloradifop, clodinafop, clodinafop-ethyl, clodinafop-propargyl, clofop, cyhalofop, cyhalofop-butyl, diclofop, diclofop-methyl, diclofop-P, diclofop-P-methyl, fenoxaprop-P, fenoxaprop- Examples of quizalofop include, but are not limited to, quizalofop-P-ethyl, fentiaprop, fluazifop-butyl, fluazifop-P, fluazifop-butyl, haloxyfop, haloxyfop-ethotyl, haloxyfop-methyl, haloxyfop-methyl, isoxapyrifop, metamifop, propaquizafop, quizalofop, quizalofop-ethyl, quizalofop-P, quizarafop-P-ethyl, quizarafop-P-tefuryl, triphosphatidyl, and any combination thereof.
[0235] As used herein, synthetic auxins include, but are not limited to, benzoic acid-type herbicides, phenoxy acid-type herbicides, arylpicolinic acid-type herbicides, and pyridinyloxy acid-type herbicides. Examples of benzoic acid-type herbicides include, but are not limited to, dicamba (3,6-dichloro-2-methoxybenzoic acid), dicamba salts, dicamba butotyl, dicamba diglycolamine salts, dicamba dimethylammonium, dicamba diethanolammonium, dicambaisopropylammonium, dicamba potassium, dicamba sodium, and dicamba trolamine. Examples of phenoxy acid herbicides include 2,4-D (2,4-dichlorophenoxyacetic acid), 2,4-D-butotyl, 2,4-D-butyl, 2,4-D-choline, 2,4-D-dimethylammonium, 2,4-D-diolamine, 2,4-D-ethyl, 2,4-D-2-ethylhexyl, 2,4-D-isobutyl, 2,4-D-isooctyl, 2,4-D-isopropyl, 2,4-D-isopropylammonium, 2,4-D-potassium, 2,4-D-sodium, 2,4-D-triisopropanolammonium, 2,4-D-trolamine, and 2,4,5-T Examples of herbicides include, but are not limited to, 2,4,5-trichlorophenoxyacetic acid, clomeprop, dichlorprop, fenoprop, MCPA (2-methyl-4-chlorophenoxyacetic acid), MCPA-butotyl, MCPA-dimethylammonium, MCPA-2-ethylhexyl, MCPA-isopropylammonium, MCPA-potassium, MCPA-sodium, MCPA-thioethyl, 2,4-DB, MCPB (4-(4-chloro-2-methylphenoxy)butanoic acid), MCPB-methyl, MCPB-ethyl-sodium, and mecoprop. Examples of arylpicolinic acid type herbicides include, but are not limited to, haloxifen, haloxifen-methyl, and florpyrauxifen-benzyl. Examples of pyridinyloxy acid type herbicides include, but are not limited to, triclopyr, fluroxypyr, aminopyralid, and picloram.
[0236] As used herein, inhibitors of glutamine synthetase include, but are not limited to, phosphinothricin, glufosinate, glufosinate salt, glufosinate ammonium, glufosinate sodium, glufosinate-P,L-glufosinate ammonium, and L-glufosinate sodium.
[0237] As used herein, inhibitors of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) include, but are not limited to, glyphosate, glyphosate salts, glyphosate-isopropylammonium, glyphosate-ammonium, glyphosate-dimethylammonium, glyphosate-trimesium (=sulfosate), glyphosate-diamonium, glyphosate-potassium, and glyphosate-sodium.
[0238] As used herein, "herbicide-tolerant" or "herbicide tolerance" or "tolerance" refers to the ability to be completely or partially unaffected by the presence or application of one or more herbicides, e.g., to resist the toxic effects of herbicides when applied. A cell, seed, or plant is "herbicide-tolerant" or has "improved tolerance" if it can maintain at least some normal growth or phenotype in the presence of one or more herbicides. A trait is a herbicide-tolerant trait if its presence can confer improved tolerance to herbicides in cells, plants, or seeds compared to wild-type or control cells, plants, or seeds. Crops comprising a herbicide-tolerant trait can continue to grow in the presence of the herbicide and can be minimally affected by the presence of the herbicide. A protein confers "herbicide tolerance" if the expression of the protein can confer improved tolerance to herbicides in cells, plants, or seeds compared to wild-type or control cells, plants, or seeds. Examples of herbicide tolerance proteins are protoporphyrinogen oxidase, dicamba monooxygenase, phosphinothricin N-acetyltransferase, alpha-ketoglutarate-dependent non-heme iron dioxygenase, and 5-enolpyruvylshikimate-3-phosphatase synthase. Herbicide tolerance can be complete or partial insensitivity to a particular herbicide and can be expressed as percent tolerance or insensitivity to a particular herbicide.
[0239] As used herein, "herbicide phytotoxicity" or "phytotoxicity" refers to phytotoxicity to a plant due to the application of one or more herbicides. "Phytotoxicity rate" or "percent phytotoxicity" refers to the percentage of plant leaf area, based on a visual assessment, that exhibits damage caused by the application of a herbicide, such as necrosis (brown or dead tissue), chlorosis (yellow tissue or yellow spots), and malformations (abnormal leaf or plant structure, stem epineurosis or twisting, leaf cupping). This is measured on a scale of 0 to 100, with "0" representing no phytotoxicity and "100" representing complete phytotoxicity (death).
[0240] In the case of corn plants containing or including corn event Zm_CSM63715, the plants experience reduced phytotoxicity after application of one or more PPO inhibitors.For example, corn plants containing or comprising corn event Zm_CSM63715 have a significantly higher potency than otherwise identical corn plants not containing corn event Zm_CSM63715 in the treatment of flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3, 6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoic acid and cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, or any combination thereof, has less than about 5% phytotoxicity, less than about 10% phytotoxicity, less than about 15% phytotoxicity, or less than about 20% phytotoxicity after application of a PPO herbicide such as cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, or any combination thereof.
[0241] As used herein, a "weed" is any undesirable plant. Some plants may be generally considered undesirable for agricultural or horticultural purposes (e.g., Amaranthus species), or may be considered undesirable in specific situations (e.g., certain crops in different fields, also known as volunteer plants). Weeds are generally known in the art and vary depending on the terrain, season, growing environment, and time of year. Lists of herbicide species are available from agricultural and scientific societies and organizations (e.g., Weed Society of America, Weed Society of Canada, Brazilian Weed Society, International Weed Society, and International Survey of Herbicide-Resistant Weeds), government agencies (e.g., the United States Department of Agriculture and the Australian Department of Environment and Energy), and industry and farmer organizations. Major troublesome weeds in corn production include waterhemp (Amaranthus tuberculatus), giant ragweed (Ambrosia trifida), common ragweed (Ambrosia artemissifolia), pigweed (Chenopodium album), artemisia canadensis, horsetail (Erigeron canadensis), palm amaranth (Amaranthus palmeri), redroot pigweed (Amaranthus retrofle), ryegrass (Lolium perenne ssp. multiflorum), velvet grass (Abutilon theophrasti Medik.), kochia (Kochia scoparia), cocklebur (Xanthium strumarium), foxtail (Setaria spp.), barnyardgrass (Echinochloa crus-galli), and corn sorghum (Sorghum spp.). halepense) (Heap 2021; Shoup et al., 2016).
[0242] Methods for controlling or preventing the growth of weeds in an area are provided. One example of such a method includes applying an effective amount of a PPO herbicide to control weeds in the area without causing phytotoxicity to the corn or without causing less than about 10% phytotoxicity to the corn. The method includes applying one or more PPO herbicides, wherein seeds or plants containing the corn event Zm_CSM63715 are planted in the area before, during, or after application of the herbicide, and the herbicide application prevents or inhibits weed growth and causes no injury to the corn plants containing the event Zm_CSM63715 or less than about 5-20% phytotoxicity. The plant growth area may or may not contain weed seeds or plants at the time of herbicide application. The herbicide(s) used in the methods described herein can be applied alone, sequentially with one or more herbicides, or in combination with one or more herbicides during the growing season.The herbicide(s) used in the methods described herein can be applied temporally (for example, as a tank mix or applied sequentially), spatially (for example, at different times during the growing season, including before and after planting corn seeds), or both, in combination with one or more herbicides.For example, provided is a method for controlling weeds, comprising planting seeds containing corn event Zm_CSM63715 in an area, and applying a herbicidally effective amount of one or more PPO herbicides alone or in any combination with another herbicide throughout the growing season, to control weeds in the area without or with about 5-20% or less of damage to plants containing corn event Zm_CSM63715. Such application of herbicide(s) may be pre-plant (any time before planting seeds containing corn event Zm_CSM63715, including for control purposes, i.e., application to weeds that have germinated or are present before the plants are sown), pre-emergence (any time after seeds containing corn event Zm_CSM63715 are planted and before the plants containing corn event Zm_CSM63715 germinate), or post-emergence (any time after the plants containing corn event Zm_CSM63715 germinate).Multiple applications of one or more herbicides, or combinations of herbicides applied together or individually, can be used throughout the growing season, for example, two applications (e.g., a pre-plant application and a post-emergence application, or a pre-emergence application and a post-emergence application), or three or more applications (e.g., a pre-plant application and two post-emergence applications).
[0243] The application of herbicides in the practice of the methods described herein may be the recommended commercial application rate or any fraction or multiple thereof, for example, twice the recommended commercial application rate. Herbicide application rates may be expressed as pounds acid equivalent per acre (lb ae / acre), pounds active ingredient per acre (lb ai / acre), or pounds active ingredient per hectare (lb ai / ha), depending on the herbicide and formulation. One gram per hectare is equivalent to 0.000892179 pounds per acre. The use of acres or hectares in the herbicide application rates provided herein is for indication only, and herbicide application rates equivalent to any application rate provided herein may be used for areas larger or smaller than an acre.Herbicide applications included flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4 -fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo -4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate (flufenoxime The plant growth area may include at least one PPO herbicide, including, but not limited to, cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine (another PPO herbicide), or any combination thereof. The plant growth area may or may not contain weed plants at the time of application of the herbicide.
[0244] An effective amount of PPO herbicide can be from about 0.0009 lb / acre to about 1.5 lb / acre throughout the growing season. Table 2 provides examples of various PPO herbicides and application rates that can be used to control weeds in corn crop areas where Zm_CSM63715 has been planted. [Table 5-1] [Table 5-2]
[0245] A method for controlling volunteer corn containing corn event Zm_CSM63715 in an area is provided. The method includes applying a herbicidally effective amount of at least one herbicide other than a PPO herbicide, where the herbicide application prevents the growth of corn containing event Zm_CSM63715. Illustrative examples of such herbicides are pyrithiobac, trifluralin, fluometuron, trifloxysulfuron, FOP herbicides (e.g., quizalofop or fluazifop), DIM herbicides (e.g., clethodim or sethoxydim), fenoxaprop, glyphosate, glufosinate, and any combination thereof, where the herbicide application prevents the growth of volunteer corn containing event Zm_CSM63715. For example, to control volunteer corn containing event Zm_CSM63715 in a cotton field, fluometuron can be applied preemergence, and an FOP herbicide (e.g., quizalofop or fluazifop), trifloxysulfuron, pyrithiobac, a DIM herbicide (e.g., clethodim or sethoxydim), glyphosate, or glufosinate can be applied postemergence. To control volunteer corn containing both event Zm_CSM63715 and event MON87429, a DIM herbicide such as clethodim or sethoxydim can be used.
[0246] Methods are provided for producing plants and seeds comprising corn event Zm_CSM63715. Plants can be bred using any method known in the art. Progeny corn plants comprising event Zm_CSM63715 can be produced, for example, by selfing a parent plant or line comprising event Zm_CSM63715, where such parent plant or line is homozygous or hemizygous for event Zm_CSM63715, or by crossing a first parent plant or line comprising event Zm_CSM63715, where such parent plant or line is homozygous or hemizygous for event Zm_CSM63715, with a second parent plant or line having a different genotype or germplasm from the first parent line, which may or may not contain or comprise event Zm_CSM63715. As further described herein, corn event Zm_CSM63715 contains a PPO expression cassette or transgene encoding protoporphyrinogen oxidase. According to some embodiments, transgenic corn plant(s) containing event Zm_CSM63715 are tolerant to PPO inhibitors relative to non-transgenic control plants. The transgenic corn plants used in these methods can be homozygous or heterozygous for the transgene. Progeny plants produced by these methods can be varietal or hybrid plants, can be grown from seeds produced by plants containing corn event Zm_CSM63715 and / or plants fertilized with pollen from plants containing corn event Zm_CSM63715, and can be homozygous or heterozygous for the transgene and / or event Zm_CSM63715. The progeny plants may then be self-pollinated to produce a true breeding line of plants, i.e., plants homozygous for the transgene, or alternatively, may be crossed with, for example, another unrelated plant to produce a variety or hybrid seed or plant.
[0247] A method for obtaining corn seeds or corn plants that are resistant to PPO herbicides is provided. The method includes: (a) obtaining a population of progeny seeds or plants grown therefrom, at least one of which contains the corn event Zm_CSM63715; and (b) identifying at least a first progeny seed or plant grown therefrom that contains the corn event Zm_CSM63715. Identifying progeny seeds or plants grown therefrom that contain the corn event Zm_CSM63715 can include: (a) growing the progeny seeds or plants to produce progeny plants; (b) treating the progeny plants with an effective amount of a PPO herbicide; and (c) selecting progeny plants that are resistant to the PPO herbicide. Alternatively or additionally, identifying progeny seeds or plants grown therefrom that contain the corn event Zm_CSM63715 can include detecting the presence of the corn event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom. Alternatively or additionally, identifying progeny seeds or plants grown therefrom that contain the maize event Zm_CSM63715 comprises detecting the presence of a PPO protein encoded by the maize event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom.
[0248] As used herein, the terms "line," "breeding line," "genotype," or "germplasm" are used interchangeably and refer to a group of plants that exhibit little or no genetic variation among individuals for at least one trait. Such "lines," "breeding lines," "genotypes," or "germplasm" may be created from a single parent by several generations, selection, or self-pollination for vegetative propagation using tissue or cell culture techniques. As used herein, the terms "cultivar" and "species" are interchangeable and refer to a line used in a commercial product.
[0249] Doubled haploid production can be used in breeding programs to produce corn plants and seeds homozygous for the DNA of event Zm_CSM63715. Doubled haploids are produced by doubling a set of chromosomes (1N) from a heterozygous plant to produce fully homozygous individuals. See, for example, Wan, et al., (1989) and U.S. Patent No. 7,135,615. This process can be advantageous because it eliminates the selfing generations required to obtain homozygous plants from a heterozygous source. One method for producing haploid and doubled haploid corn plants containing event Zm_CSM63715 is by anther culture of flowers containing event Zm_CSM63715 (Khan et al., 2010). Other methods, such as natural polyembryony, induction by irradiated pollen, crosses with polyploid plants or wild species, unpollinated ovule and microspore culture, can also be applied to produce haploid and doubled haploid maize plants containing event Zm_CSM63715.
[0250] Seeds and progeny plants produced by the methods described herein contain corn event Zm_CSM63715. Application of one or more herbicides to which corn event Zm_CSM63715 confers resistance may be used to select progeny containing corn event Zm_CSM63715. Alternatively, the progeny may be analyzed using diagnostic methods to select plants or seeds containing corn event Zm_CSM63715.
[0251] Transgenic events in corn are known to those skilled in the art; for example, a list of such traits is provided by the United States Department of Agriculture (USDA) Animal and Plant Health Inspection Service (APHIS) and can be found on the website www.aphis.usda.gov. Thus, two or more transgenic events may be combined in progeny seeds or plants by crossing two parent plants, each containing one or more transgenic event(s), collecting progeny seeds, and selecting progeny seeds or plants containing two or more transgenic events. Backcrossing to parent plants and outcrossing with non-transgenic plants are also contemplated, as is vegetative propagation.
[0252] Methods for detecting the presence of corn event Zm_CSM63715 in a sample or DNA derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product are provided. One method includes (i) contacting the sample with at least one primer capable of producing a DNA sequence specific to the DNA of event Zm_CSM63715 under conditions suitable for DNA sequencing, (ii) performing a DNA sequencing reaction, and (iii) confirming that the nucleotide sequence comprises a nucleotide sequence specific to event Zm_CSM63715 of the transgenic insert contained therein, e.g., one selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, and SEQ ID NO:10.
[0253] Another method for detecting the presence of corn event Zm_CSM63715 in a sample of DNA derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product is provided, comprising (a) contacting the sample with a DNA probe specific for event Zm_CSM63715 DNA and (b) conducting a sequencing reaction to produce a target sequence comprising a nucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, a complete complement of any of them, and a fragment of any of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, and SEQ ID NO:10, the fragment being at least 10 nucleotides in length and comprising nucleotides 1,000-1,001 or 4,552-4,553 of SEQ ID NO:10.
[0254] Another method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part or plant cell, progeny plant, or commercial product includes (a) contacting the sample with a primer pair capable of producing an amplicon from event Zm_CSM63715 DNA under conditions suitable for DNA amplification, (b) performing a DNA amplification reaction to produce a DNA amplicon, and (c) detecting the presence of the DNA amplicon. The DNA amplicon contains at least one of the following nucleotide sequences specific to event Zm_CSM63715: (i) the 5' junction sequence between the adjacent corn genomic DNA and the transgenic insert of corn event Zm_CSM63715; (b) the 3' junction sequence between the adjacent corn genomic DNA and the transgenic insert of corn event Zm_CSM63715; (c) SEQ ID NO:9; and (d) a fragment of SEQ ID NO:9 containing a sufficient length of consecutive nucleotides of SEQ ID NO:9 to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715. The presence of the DNA amplicon indicates the presence of corn event Zm_CSM63715 in the sample. The amplicon should be specific for event Zm_CSM63715 and include a junction at nucleotide positions 1000-1001 and / or nucleotide positions 4,552-4,553 of SEQ ID NO:10. Thus, for example, the amplicon may comprise a nucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, and fragments of any of SEQ ID NO:10, SEQ ID NO:8, SEQ ID NO:7, SEQ ID NO:6, SEQ ID NO:5, SEQ ID NO:4, SEQ ID NO:3, SEQ ID NO:2, and SEQ ID NO:1, which fragments are at least 10 nucleotides in length and include nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:10.The amplicon can be at least 10 nucleotides in length, at least 11 nucleotides in length, at least 12 nucleotides in length, at least 13 nucleotides in length, at least 14 nucleotides in length, at least 15 nucleotides in length, at least 16 nucleotides in length, at least 17 nucleotides in length, at least 18 nucleotides in length, at least 19 nucleotides in length, at least 20 nucleotides in length, at least 25 nucleotides in length, at least 30 nucleotides in length, at least 35 nucleotides in length, at least 40 nucleotides in length, at least 45 nucleotides in length, at least 50 nucleotides in length, at least 60 nucleotides in length, at least 70 nucleotides in length, at least 80 nucleotides in length, at least 90 nucleotides in length, or at least 100 nucleotides in length.
[0255] Detection of a nucleotide sequence specific to event Zm_CSM63715 in the amplicon is definitive and / or diagnostic for the presence of corn event Zm_CSM63715-specific DNA in a sample. Exemplary primer pairs capable of producing an amplicon from event Zm_CSM63715 DNA under conditions suitable for DNA amplification are provided as SEQ ID NO: 14 and SEQ ID NO: 15. Other primer pairs for producing amplicons used in diagnosing corn event Zm_CSM63715 can be readily designed by those skilled in the art. Such primer pairs include at least one primer in a genomic region flanking the insert and a second primer within the insert, although any primer pair that produces an amplicon containing all or part of the junction sequence and / or the insert or transgene sequence can be designed and used. Detection of the amplicon can be based on any suitable method, such as sequencing, measuring the fragment size or migration of the amplicon in a matrix or gel, or hybridization-based methods.
[0256] Another method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn plant, plant part, plant cell, seed, progeny plant, or commercial product includes (i) contacting the sample with a DNA probe specific to event Zm_CSM63715 DNA, (ii) subjecting the sample and the DNA probe to stringent hybridization conditions, and (iii) detecting hybridization between the probe and target DNA in the sample. An example of the sequence of a DNA probe specific to event Zm_CSM63715 is provided as SEQ ID NO: 16. Other probes can be readily designed by those skilled in the art. Detection of hybridization of the probe to DNA in the sample is used to diagnose the presence of corn event Zm_CSM63715-specific DNA in the sample. Alternatively, the absence of hybridization is diagnostic of the absence of corn event Zm_CSM63715-specific DNA in the sample.
[0257] Another method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn plant, plant part, plant cell, seed, progeny plant, or commercial product includes (a) contacting the sample with an antibody specific for the PPO (porotoporphyrinogen oxidase) protein encoded by corn event Zm_CSM63715, and (b) detecting binding of the antibody to the protein in the sample, wherein binding of the antibody indicates the presence of corn event Zm_CSM63715 in the sample.
[0258] An alternative to antibodies for protein detection is an aptamer-based detection method for detecting proteins or molecules of interest in a sample. As used herein, the term "aptamer(s)" or "aptamer sequence(s)" refers to short, synthetic, single-stranded oligonucleotide molecules that bind with high affinity and specificity to target molecules such as proteins, polypeptides, lipids, glycoproteins, glycolipids, glycopeptides, sugars, or polysaccharides by forming distinct tertiary structures (Ellington and Szostak, 1990; Robertson and Joyce, 1990; Tuerk and Gold, 1990; Wang et al., 2019). The single-stranded nucleic acid can be ssDNA, RNA, or a derivative of either. Aptamers contain a three-dimensional structure that is held in a certain conformation(s) that provides intermolecular contact and specifically binds to its given target. Although aptamers are nucleic acid-based molecules, their binding to target molecules does not depend entirely on the linear base sequence, but rather on specific secondary / tertiary / quaternary structures. The term aptamer also encompasses next-generation aptamers, such as X-aptamers, which typically cannot be amplified by PCR but can be adapted by adding binding primers. Such aptamers can specifically bind to a protein of interest, but can also be easily amplified, sequenced, and so on in downstream processes. The term aptamer also encompasses aptamers containing modified bases. It is contemplated that aptamers may include conventional aptamers of 15 to 120 bases in length, as well as longer aptamers of approximately 200 bases in length (e.g., Ultramers® by Integrated DNA Technologies, Inc., Coralville, Iowa, USA). To detect PPO protein in a sample, an aptamer specific to the PPO protein is obtained and then incubated with the sample. If PPO is present in the sample, a protein-aptamer conjugate is formed.Methods for detecting aptamer / protein complexes are known in the art, such as apta blotting or South-Western blot (Li et al., 2017; Sekhon et al., 2017), aptamer-based Western blot (Wang et al., 2020), and aptamer sandwich assays (Svobodova et al., 2021). Chemical modifications, additional functional groups, and / or linkers can be added to nucleic acid aptamers to increase binding affinity to target proteins and provide convenient means for detecting target molecules. Such tags and / or labels can include fluorescent, luminescent, absorbance, or radioactive-based chemical groups, or can include enzymes or substrates that, alone or in the presence of other factors, provide a detectable response, such as precipitation.
[0259] Methods are provided for determining the zygosity of the corn event Zm_CSM63715 and the transgene in a sample using genomic DNA derived from at least one corn plant, plant part, plant cell, or seed containing the event. In one such method for determining the zygosity of a corn plant, plant part, plant seed, or plant cell containing corn event Zm_CSM63715, the method includes: (a) contacting a sample containing DNA derived from the corn plant, plant part, plant seed, or plant cell with a first primer set capable of producing a first amplicon used to diagnose the presence of corn event Zm_CSM63715, and a second primer set capable of producing a second amplicon used to diagnose wild-type corn genomic DNA that does not contain corn event Zm_CSM63715; (b) performing a nucleic acid amplification reaction; and (c) detecting the first amplicon and the second amplicon, wherein the presence of both amplicons indicates that the plant, plant part, seed, or cell is heterozygous for corn event Zm_CSM63715, and the presence of only the first amplicon indicates that the plant, plant part, seed, or cell is homozygous for corn event Zm_CSM63715. The presence of only the second amplicon is diagnostic of the absence of event Zm_CSM63715 DNA in the sample. Exemplary primer pair sets are SEQ ID NO: 14 and SEQ ID NO: 15, which produce an amplicon used to diagnose event Zm_CSM63715, and SEQ ID NO: 20 and SEQ ID NO: 21, or SEQ ID NO: 15 and SEQ ID NO: 21, which produce an amplicon used to diagnose wild-type corn genomic DNA that does not contain event Zm_CSM63715. Probe sets can also be incorporated into such amplification methods used in real-time PCR formats using the primer pair sets described above. Exemplary probe sets are shown as SEQ ID NO: 16 (used to diagnose the amplicon of event Zm_CSM63715) and SEQ ID NO: 22 (used to diagnose the amplicon of wild-type corn genomic DNA that does not contain event Zm_CSM63715).
[0260] Another method for determining the zygosity of a corn plant, plant part, plant seed, or plant cell containing corn event Zm_CSM63715 includes (a) contacting a sample containing DNA derived from the corn plant, plant part, plant seed, or plant cell with a probe set comprising at least a first probe that specifically hybridizes to corn event Zm_CSM63715 and at least a second probe that specifically hybridizes to corn genomic DNA disrupted by the insertion of heterologous DNA in corn event Zm_CSM63715 but does not hybridize to corn event Zm_CSM63715, and (b) hybridizing the probe set to the sample under stringent hybridization conditions. Detecting hybridization of only the first probe under the hybridization conditions is diagnostic of a soybean plant, plant part, seed, or plant cell homozygous for the corn event Zm_CSM63715, and detecting hybridization of both the first probe and the second probe under the hybridization conditions is diagnostic of a corn plant, plant part, seed, or plant cell heterozygous for the corn event Zm_CSM63715. Detecting hybridization of only the second probe under the hybridization conditions is diagnostic of the absence of event Zm_CSM63715 DNA in the sample. An exemplary probe set that can be used in the method is SEQ ID NO: 16 and SEQ ID NO: 20.
[0261] Yet another method for determining zygosity includes (i) extracting a sample comprising DNA from at least one corn plant, plant part, plant cell, or seed; (ii) contacting the sample with a first primer pair capable of producing a first amplicon used in diagnosing event Zm_CSM63715; (iii) contacting the sample with a second primer pair capable of producing a second amplicon of an internal control known to be single copy and homozygous in the corn plant; and (iv) contacting the sample with at least one primer pair that specifically hybridizes to the first amplicon. (v) performing a DNA amplification reaction using real-time PCR to determine the cycle threshold values (Ct values) of the first and second amplicons; (vi) calculating the difference (ΔCt) between the Ct values of the first amplicon and the second amplicon; and (vii) determining zygosity, where a ΔCt of approximately zero (0) indicates homozygosity for the event or inserted T-DNA, and a ΔCt of approximately one (1) indicates heterozygosity for the event or inserted T-DNA. Heterozygous and homozygous events are distinguished by a ΔCt value of approximately one (1) unit. Considering the normal variation observed in real-time PCR due to multiple factors, such as amplification efficiency and ideal annealing temperature, the "about one (1)" range is defined as a ΔCt of 0.75 to 1.25, and the "about zero (0)" range is defined as a ΔCt of -0.25 to 0.25 (or 0.0 to 0.25 if the ΔCt is measured as an absolute value). The primer pairs and probes for the above methods for determining zygosity are capable of amplifying and detecting amplicons from the transgene or event DNA and the internal DNA standard.
[0262] A DNA construct is provided, comprising an expression cassette, the expression cassette comprising, in operable linkage, i) a ubiquitin (UBQ) promoter, leader sequence, and intron sequence from Andropogon gerardi, ii) a chloroplast transit peptide coding sequence of APG6 (Albino and Pale Green 6) from Arabidopsis thaliana, iii) a codon-optimized protoporphyrinogen oxidase (PPO) coding sequence from Enterobacter cloacae to confer a PPO herbicide, and iv) a 3'UTR sequence of the alpha-tubulin gene from Arundo donax. For example, the DNA construct may comprise SEQ ID NO:9.
[0263] Expression of PPO in transgenic plants confers tolerance to PPO herbicides. For example, plants, plant parts, plant cells, or seeds containing or comprising corn event Zm_CSM63715 can tolerate the PPO herbicides flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydrazine]methyl]. 2-Methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-Methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1( 2H)-yl]phenyl}methylidene)amino]oxy}propanoate (flufenoximacil), cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, and any combination thereof.
[0264] Any of the DNA constructs or transgenic inserts described herein may further comprise at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164, or at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 at its 5' or 3' end. Alternatively, any of the DNA constructs or transgenic inserts described herein may further comprise at its 5' or 3' end at least 100 contiguous nucleotides, at least 150 contiguous nucleotides, at least 200 contiguous nucleotides, at least 250 contiguous nucleotides, at least 300 contiguous nucleotides, at least 350 contiguous nucleotides, at least 400 contiguous nucleotides, at least 450 contiguous nucleotides, or at least 500 nucleotides of SEQ ID NO:11 or SEQ ID NO:164, or at least 100 contiguous nucleotides, at least 150 contiguous nucleotides, at least 200 contiguous nucleotides, at least 250 contiguous nucleotides, at least 300 contiguous nucleotides, at least 350 contiguous nucleotides, at least 400 contiguous nucleotides, at least 450 contiguous nucleotides, or at least 500 nucleotides of SEQ ID NO:12 or SEQ ID NO:165.
[0265] SEQ ID NOs:11 and 12 are 1,000-nucleotide sequences representing the maize genomic DNA flanking the transgenic insert at the 5' and 3' ends, respectively, of the insert in maize event Zm_CSM63715. SEQ ID NOs:11 and 12 have been confirmed by sequencing, as further described in Example 5 below. SEQ ID NOs:164 and 165 are 5,000-nucleotide sequences representing the maize genomic DNA flanking the transgenic insert at the 5' and 3' ends, respectively. Nucleotides 4,001-5,000 of SEQ ID NO:164 are identical to nucleotides 1-1,000 of SEQ ID NO:11. The remaining nucleotides of SEQ ID NO:164 (nucleotides 1-4,000) are based on the genomic sequence of the B73 maize variety (Zm-B73-REFERENCE-GRAMENE-4.0, NCBI). Similarly, nucleotides 1-1000 of SEQ ID NO: 165 are identical to nucleotides 1-1,000 of SEQ ID NO: 12. The remaining nucleotides of SEQ ID NO: 165 (nucleotides 1,001-5,000) are based on the genomic sequence of the B73 corn variety.
[0266] The at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164 at the 5' end of the DNA construct or transgenic insert may be immediately adjacent to and upstream (5' end) of the transgenic insert, or may be within about 5,000, 3,000, or 1,000 nucleotides further upstream (5' end) of, but not immediately adjacent to, the transgenic insert. Similarly, the at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 at the 3' end of the DNA construct or transgenic insert may be immediately adjacent to and downstream (3' end) of, the transgenic insert, or may be within about 5,000, 3,000, or 1,000 nucleotides further downstream (3' end) of, but not immediately adjacent to, the transgenic insert. Specific examples of sequences comprising 50 contiguous nucleotides of SEQ ID NO:11 are provided in SEQ ID NOs:44-63. Specific examples of 50 contiguous nucleotides of SEQ ID NO: 12 are provided in SEQ ID NOs: 104 to 123. Specific examples of 50 contiguous nucleotides of SEQ ID NO: 164 are provided in SEQ ID NOs: 64 to 103. Specific examples of 50 contiguous nucleotides of SEQ ID NO: 165 are provided in SEQ ID NOs: 124 to 163. However, any sequence comprising at least 50 contiguous nucleotides of SEQ ID NO: 11 or SEQ ID NO: 165, or at least 50 contiguous nucleotides of SEQ ID NO: 12 or SEQ ID NO: 165 is within the scope of the present disclosure.
[0267] Further provided is a DNA construct comprising a PPO expression cassette, the DNA construct further comprising (i) at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164, and / or (ii) at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 at the 5' and / or 3' end of the construct.
[0268] Further provided are DNA constructs comprising a polynucleotide having a sequence at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the entire length of SEQ ID NO: 9. The DNA construct further comprises (i) at least 50 contiguous nucleotides of SEQ ID NO: 11 or 164, and / or (ii) at least 50 contiguous nucleotides of SEQ ID NO: 12 or 165 at the 5' and / or 3' ends of the construct.
[0269] For example, any of the DNA constructs may comprise, at the 5' end of the construct, one or more nucleotide sequences selected from SEQ ID NOs: 44 to 103. Alternatively, or in addition, any of the DNA constructs may comprise, at the 3' end of the construct, one or more nucleotide sequences selected from SEQ ID NOs: 104 to 163.
[0270] Corn plants, plant cells, plant parts, and plant seeds containing any of the DNA constructs described herein are also provided.
[0271] Also provided are corn plants, plant cells, plant parts, and plant seeds comprising a recombinant DNA construct integrated into chromosome 8, wherein the recombinant DNA construct confers tolerance to at least one PPO herbicide. The recombinant DNA construct is integrated into the chromosome at a location flanked by at least 50 contiguous nucleotides of SEQ ID NO: 11 or 164 and at least 50 contiguous nucleotides of SEQ ID NO: 12 or 165. The at least 50 contiguous nucleotides of SEQ ID NO: 11 or 164 can comprise one or more nucleotide sequences selected from SEQ ID NOs: 44-103, and the at least 50 contiguous nucleotides of SEQ ID NO: 12 or 165 can comprise one or more nucleotide sequences selected from SEQ ID NOs: 104-163.
[0272] A method for improving herbicide tolerance is provided, comprising: i) inserting a DNA construct containing a PPO expression cassette described herein into the genome of a corn cell; ii) cultivating a corn plant from the corn cell; and iii) selecting a corn plant containing the DNA construct. The selection can include treating the corn cell or plant with an effective amount of a PPO herbicide.
[0273] The transgenic plants produced by this method contain a unique combination of expression elements for optimal expression of the transgene. Furthermore, the transgenic plants produced by the methods described herein acquire tolerance to PPO herbicides. The regenerated plants containing the DNA construct can be selected using the DNA detection method or protein detection method described herein.Alternatively or additionally, selection may be achieved by treating the transgenic plants or plant cells with an effective amount of flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate. ester, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, Cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate (fluoromethyl) The method may include treating the plant with an effective amount of at least one PPO herbicide selected from the group consisting of cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate, fomesafen, saflufenacil, sulfentrazone, thiafenacil, and trifludimoxadine, and any combination thereof.
[0274] Methods for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds are provided, comprising: a) cultivating in a crop environment a corn plant containing a DNA construct or transgene or event Zm_CSM63715 of the present disclosure that confers tolerance to a PPO herbicide; and b) cultivating in the crop environment a plant selected from the group consisting of flumioxazin, epirifenacil, lactofen, acifluorfen, pyraflufen, pyraflufen-ethyl, oxadiazon, butafenacil, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidine- 1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl) oxy]acetate, cyanomethyl[(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, methyl (2R)-2-{[(E)-({2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}methylidene)amino]oxy}propanoate (flufenoximacil), ...
Claims
1. A recombinant DNA molecule comprising a nucleotide sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, a polynucleotide having a nucleotide sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9, and the complete complement of any of the above.
2. 2. The recombinant DNA molecule of claim 1, wherein the recombinant DNA molecule is derived from a corn plant, seed, plant part, plant cell, progeny plant, or commercial product comprising corn event Zm_CSM63715, and a representative sample of seeds comprising the event has been deposited under ATCC Accession No. PTA-127361.
3. 2. The recombinant DNA molecule of claim 1, wherein the recombinant DNA molecule is contained in a corn plant, seed, plant part, plant cell, or progeny plant comprising corn event Zm_CSM63715, or a commercial product produced therefrom, and a representative sample of seeds comprising the event has been deposited under ATCC Accession No. PTA-127361.
4. 2. The recombinant DNA molecule of claim 1, wherein the recombinant DNA molecule is formed by inserting a heterologous nucleic acid molecule into the genomic DNA of the corn plant or the corn cell.
5. 2. The recombinant DNA molecule of claim 1, wherein the recombinant DNA molecule comprises an amplicon used to diagnose the presence of corn event Zm_CSM63715.
6. A DNA molecule comprising a polynucleotide segment of sufficient length to function as a DNA probe that specifically hybridizes to the DNA of corn event Zm_CSM63715 in a sample under stringent hybridization conditions, wherein detecting hybridization of the DNA molecule under the stringent hybridization conditions is used to diagnose the presence of the corn event Zm_CSM63715 in the sample.
7. In the sample, 5' junction sequence between the flanking maize genomic DNA and the transgenic insert of maize event Zm_CSM63715; the 3' junction sequence between the transgenic insert and adjacent maize genomic DNA of the maize event Zm_CSM63715; SEQ ID NO: 9, and A DNA molecule comprising a polynucleotide segment of sufficient length to function as a DNA probe specific for detecting at least one of a fragment of SEQ ID NO: 9, the fragment comprising consecutive nucleotides of SEQ ID NO: 9 of sufficient length to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715.
8. The DNA molecule of claim 6 or 7, wherein the DNA probe comprises SEQ ID NO:
16.
9. The DNA molecule of claim 6 or 7, wherein the DNA molecule comprises a nucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, and complements of any of the above.
10. The DNA molecule of any one of claims 6 to 9, wherein the sample is derived from a corn plant, a seed, a plant part, a plant cell, a progeny plant, or a commercial product.
11. A pair of DNA molecules comprising a first DNA molecule and a second DNA molecule, wherein the first and second DNA molecules comprise a fragment of SEQ ID NO: 10 or its complement, and when used together in an amplification reaction with DNA comprising corn event Zm_CSM63715, function as DNA primers to produce an amplicon used in diagnosing the corn event Zm_CSM63715 in a sample.
12. 12. The pair of DNA molecules of claim 11, wherein the first and second DNA molecules comprise SEQ ID NO:14 and SEQ ID NO:
15.
13. the amplicon SEQ ID NO: 1, SEQ ID NO: 2, SEQ ID NO: 3, SEQ ID NO: 4, SEQ ID NO:5, SEQ ID NO: 6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO: 9, SEQ ID NO: 10, and 12. The pair of DNA molecules of claim 11, comprising a nucleotide sequence selected from the group consisting of a fragment of any of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, which is at least 10 nucleotides in length and comprises nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:
10.
14. 1. A method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product, comprising: a) contacting the sample with a DNA molecule that functions as a DNA probe according to any one of claims 6 to 10; b) subjecting the sample and the DNA molecules serving as probes to stringent hybridization conditions; c) detecting hybridization of said DNA molecules that act as probes for DNA molecules in said sample; The method, wherein hybridization of the DNA molecule, which acts as a probe for the DNA molecule in the sample, is used to diagnose the presence of the corn event Zm_CSM63715 in the sample.
15. 1. A method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part or plant cell, progeny plant, or commercial product, comprising: a) contacting the sample with a pair of DNA molecules according to any one of claims 11 to 13; b) performing an amplification reaction sufficient to produce a DNA amplicon; c) detecting the presence of said DNA amplicon; the DNA amplicon the 5' junction sequence between the flanking maize genomic DNA and the transgenic insert of the maize event Zm_CSM63715; the 3' junction sequence between the flanking maize genomic DNA and the transgenic insert of the maize event Zm_CSM63715; SEQ ID NO: 9, and at least one fragment of SEQ ID NO: 9 comprising a sufficient length of consecutive nucleotides of SEQ ID NO: 9 to identify the sequence as a fragment of the transgenic insert of Zm_CSM63715; The method, wherein the presence of the DNA amplicon indicates the presence of the corn event Zm_CSM63715 in the sample.
16. 16. The method of claim 15, wherein the DNA amplicon is at least 10 nucleotides, at least 11 nucleotides, at least 12 nucleotides, at least 13 nucleotides, at least 14 nucleotides, at least 15 nucleotides, at least 16 nucleotides, at least 17 nucleotides, at least 18 nucleotides, at least 19 nucleotides, at least 20 nucleotides, at least 25 nucleotides, at least 30 nucleotides, at least 35 nucleotides, at least 40 nucleotides, at least 45 nucleotides, at least 50 nucleotides, at least 60 nucleotides, at least 70 nucleotides, at least 80 nucleotides, at least 90 nucleotides, or at least 100 nucleotides in length.
17. 17. The method of claim 15 or 16, wherein the DNA amplicon comprises a nucleotide sequence selected from the group consisting of SEQ ID NO:10, SEQ ID NO:9, SEQ ID NO:8, SEQ ID NO:7, SEQ ID NO:6, SEQ ID NO:5, SEQ ID NO:4, SEQ ID NO:3, SEQ ID NO:2, SEQ ID NO:1, and fragments of any of SEQ ID NO:10, SEQ ID NO:8, SEQ ID NO:7, SEQ ID NO:6, SEQ ID NO:5, SEQ ID NO:4, SEQ ID NO:3, SEQ ID NO:2, and SEQ ID NO:1, which fragments are at least 10 nucleotides in length and comprise nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:
10.
18. 1. A method for detecting the presence of corn event Zm_CSM63715 in a sample of DNA derived from a corn seed, plant, plant part, plant cell, progeny plant, or commercial product, comprising: a) contacting the sample with a DNA molecule according to any one of claims 6 to 10; b) performing a sequencing reaction to produce a target sequence; the target sequence comprises a nucleotide sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, a complete complement of any of them, and a fragment of any of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, and SEQ ID NO:10, which fragment is at least 10 nucleotides in length and comprises nucleotides 1,000 to 1,001 or 4,552 to 4,553 of SEQ ID NO:
10.
19. 1. A method for detecting the presence of corn event Zm_CSM63715 in a sample derived from a corn seed, plant, plant part, cell, progeny plant, or commercial product, comprising: a) contacting the sample with an antibody specific for the PPO (protoporphyrinogen oxidase) protein encoded by the corn event Zm_CSM63715; b) detecting binding of said antibody to said protein in said sample; The method, wherein binding of the antibody indicates the presence of the corn event Zm_CSM63715 in the sample.
20. 1. A DNA detection kit for detecting the presence of corn event Zm_CSM63715 in a sample, comprising: a) a pair of DNA primers according to any one of claims 11 to 13, and / or b) A DNA detection kit comprising the DNA molecule functioning as a probe according to any one of claims 6 to 10.
21. A protein detection kit for detecting the presence of corn event Zm_CSM63715 in a sample, the kit comprising an antibody specific to the PPO protein encoded by the corn event Zm_CSM63715, and detecting binding of the antibody to the protein encoded by the corn event Zm_CSM63715 in the sample is used to diagnose the presence of the corn event Zm_CSM63715 in the sample.
22. 1. A method for determining the zygosity of a corn plant, plant part, plant seed, or plant cell comprising corn event Zm_CSM63715, comprising: a) contacting a sample comprising DNA from the corn plant, plant part, plant seed, or plant cell with a first primer set capable of producing a first amplicon used to diagnose the presence of the corn event Zm_CSM63715, and a second primer set capable of producing a second amplicon used to diagnose wild-type corn genomic DNA that does not contain the corn event Zm_CSM63715; b) performing a nucleic acid amplification reaction; c) detecting the first amplicon and the second amplicon, wherein the presence of both amplicons indicates that the plant, plant part, seed, or cell is heterozygous for the corn event Zm_CSM63715, and the presence of only the first amplicon indicates that the plant, plant part, seed, or cell is homozygous for the corn event Zm_CSM63715.
23. 23. The method of claim 22, wherein the first primer set comprises SEQ ID NO: 14 and SEQ ID NO: 15, and the second primer set comprises SEQ ID NO: 20 and SEQ ID NO: 21 or SEQ ID NO: 15 and SEQ ID NO:
21.
24. 1. A method for determining the zygosity of a corn plant, plant part, plant seed, or plant cell comprising corn event Zm_CSM63715, comprising: a) contacting a sample containing DNA derived from the corn plant, plant part, plant seed, or plant cell with a probe set comprising at least a first probe that specifically hybridizes to the corn event Zm_CSM63715 and at least a second probe that specifically hybridizes to corn genomic DNA disrupted by the insertion of heterologous DNA of the corn event Zm_CSM63715 but does not hybridize to the corn event Zm_CSM63715; b) hybridizing the probe set to the sample under stringent hybridization conditions, wherein detecting hybridization of only the first probe under the hybridization conditions is used to diagnose a corn plant, plant part, seed, or plant cell that is homozygous for the corn event Zm_CSM63715, and detecting hybridization of both the first probe and the second probe under the hybridization conditions is used to diagnose a corn plant, plant part, seed, or plant cell that is heterozygous for the corn event Zm_CSM63715.
25. 25. The method of claim 24, wherein the probe set comprises SEQ ID NO: 16 and SEQ ID NO:
22.
26. 1. A DNA construct comprising an expression cassette, the expression cassette comprising, in operable linkage, i) a ubiquitin (UBQ) promoter, leader sequence, and intron sequence from Andropogon gerardii, ii) an APG6 (Albino and Pale Green 6) chloroplast transit peptide coding sequence from Arabidopsis thaliana, iii) a codon-optimized protoporphyrinogen oxidase coding sequence from Enterobacter cloacae, and iv) a 3'UTR sequence of the alpha tubulin gene from Arundo donax.
27. 27. The DNA construct of claim 26, wherein the DNA construct comprises SEQ ID NO:
9.
28. Furthermore, at the 5' or 3' end of the construct, a) at least 50 contiguous nucleotides of SEQ ID NO: 11 or SEQ ID NO: 164, or b) A DNA construct according to claim 26 or 27, comprising at least 50 consecutive nucleotides of SEQ ID NO: 12 or SEQ ID NO:
165.
29. 1. A DNA construct comprising a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the entire length of SEQ ID NO:9, wherein the DNA construct comprises at the 5' or 3' end of the construct: (i) at least 50 consecutive nucleotides of SEQ ID NO:11 or SEQ ID NO:164, or (ii) at least 50 consecutive nucleotides of SEQ ID NO:12 or SEQ ID NO:
165.
30. 30. The DNA construct of any one of claims 26 to 29, wherein the construct comprises one or more nucleotide sequences selected from SEQ ID NOs: 44 to 103 at the 5' end of the construct.
31. 31. The DNA construct of any one of claims 26 to 30, wherein the construct comprises one or more nucleotide sequences selected from SEQ ID NOs: 104 to 163 at the 3' end of the construct.
32. 1. A method for controlling or preventing the growth of weeds in an area, comprising planting corn containing event Zm_CSM63715 in the area and applying an effective amount of a PPO herbicide to control weeds in the area, wherein there is no phytotoxicity to the corn or phytotoxicity to the corn is less than about 10%.
33. 1. A method for controlling volunteer corn comprising corn event Zm_CSM63715 in an area, comprising applying a herbicidally effective amount of at least one herbicide other than a PPO herbicide, wherein application of the herbicide prevents growth of corn comprising the corn event Zm_CSM63715.
34. 34. The method of claim 33, wherein the herbicide other than a PPO herbicide is selected from the group consisting of a FOP herbicide such as pyrithiobac, trifluralin, fluometuron, trifloxysulfuron, quizalofop or fluazifop, a DIM herbicide such as clethodim or sethoxydim, fenoxaprop, glyphosate, glufosinate, and any combination thereof.
35. 1. A method for obtaining a corn plant seed or a corn plant that is tolerant to a PPO herbicide, comprising: a) obtaining a population of progeny seeds or plants grown therefrom, at least one of which comprises corn event Zm_CSM63715; b) identifying at least a first progeny seed or a plant grown therefrom that comprises said corn event Zm_CSM63715.
36. identifying progeny seeds or plants grown therefrom that contain the corn event Zm_CSM63715; a) growing the progeny seed or plant to produce a progeny plant; b) treating said progeny plants with an effective amount of a PPO herbicide; c) selecting progeny plants that are tolerant to the PPO herbicide.
37. 37. The method of claim 35 or 36, wherein identifying progeny seeds or plants grown therefrom that contain the corn event Zm_CSM63715 comprises detecting the presence of the corn event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom.
38. 38. The method of any one of claims 35 to 37, wherein identifying progeny seeds or plants grown therefrom that comprise the corn event Zm_CSM63715 comprises detecting the presence of a PPO protein encoded by the corn event Zm_CSM63715 in a sample derived from the progeny seeds or plants grown therefrom.
39. 1. A method for improving tolerance to a PPO herbicide in a corn plant, comprising: a) inserting the DNA construct of any one of claims 26 to 31 into the genome of a maize cell; b) generating a corn plant from the corn cell; and c) selecting a corn plant containing the DNA construct.
40. 40. The method of claim 39, wherein said selecting comprises treating said corn cells or plants with an effective amount of a PPO herbicide.
41. A recombinant DNA molecule comprising a sequence selected from the group consisting of SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7, SEQ ID NO:8, SEQ ID NO:9, SEQ ID NO:10, a polynucleotide having a sequence that is at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the full length of SEQ ID NO:10 or the full length of SEQ ID NO:9, and a corn plant, plant seed, plant part, or plant cell comprising a complete complement of any of the above.
42. 42. The corn plant, plant seed, plant part, or plant cell of claim 41, wherein the plant, plant seed, plant part, or plant cell expresses a PPO herbicide tolerance gene.
43. 43. The corn plant, plant seed, plant part, or plant cell of claim 41 or 42, wherein the plant, plant seed, plant part, or plant cell is tolerant to one or more PPO herbicides.
44. 44. The corn plant, plant seed, plant part, or plant cell of any one of claims 41-43, further comprising at least one additional transgene for tolerance to at least one additional herbicide.
45. 45. The corn plant, plant seed, plant part, or plant cell of any one of claims 41-44, wherein the plant, plant seed, plant part, or plant cell comprises the corn event Zm_CSM63715, and a representative sample of seeds comprising the event has been deposited under ATCC Accession No. PTA-127361.
46. 46. The corn plant, plant seed, plant part, or plant cell of any one of claims 41 to 45, further defined as a progeny plant of any generation of a corn plant comprising the corn event Zm_CSM63715, or a corn plant part, plant seed, or plant cell derived therefrom.
47. A corn plant, plant part, plant seed, or plant cell comprising corn event Zm_CSM63715, wherein a representative sample of seeds comprising said corn event Zm_CSM63715 has been deposited under ATCC Accession No. PTA-127361.
48. 48. The corn plant part of any one of claims 41 to 47, wherein the plant part comprises a microspore, pollen, anther, silk, spike, ovule, ovary, pod, flower, cob, embryo, stem, leaf, root, or callus.
49. 32. A corn plant, plant seed, plant part, or plant cell that is tolerant to one or more PPO herbicides, wherein the corn plant, plant seed, plant part, or plant cell comprises the DNA construct of any one of claims 26 to 31.
50. 50. The corn plant, plant seed, plant part, or plant cell of any one of claims 41 to 49, wherein the corn seed, plant, plant part, or cell is obtainable by the method of any one of claims 35 to 40.
51. 1. A corn plant, plant cell, plant part, or plant seed comprising a recombinant DNA construct integrated into chromosome 8, wherein said recombinant DNA construct confers tolerance to at least one PPO herbicide, and wherein said recombinant DNA construct is integrated at a location on said chromosome flanked by at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164 and at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:
165.
52. 52. The corn plant, plant cell, plant part, or plant seed of claim 51, wherein at least 50 contiguous nucleotides of SEQ ID NO:11 or SEQ ID NO:164 comprise one or more nucleotide sequences selected from SEQ ID NOs:44-103.
53. 53. The corn plant, plant cell, plant part, or plant seed of claim 51 or 52, wherein at least 50 contiguous nucleotides of SEQ ID NO:12 or SEQ ID NO:165 comprise one or more nucleotide sequences selected from SEQ ID NOs:104-163.
54. 54. The corn plant, plant cell, plant part, or plant seed of any one of claims 43-53; or the method of any one of claims 32 and 35-40, wherein the PPO herbicide is selected from the group consisting of diphenyl ether, N-phenylphthalimide, oxadiazole, oxazolidinedione, phenylpyrazole, pyrimidinedione, thiadiazole, triazolinone, benzoxazinone derivative, other PPO herbicide, and any combination thereof.
55. The diphenyl ether is selected from the group consisting of acifluorfen, bifenox, ethoxyfen, fluorodifen, fluoronitrofen, furyloxyfen, halosafen, clomethoxyfen, chlornitrofen, ethoxyfen-ethyl, fluoroglycofen, lactofen, nitrofen, oxyfluorfen, fomesafen, any salt thereof, and any ester thereof, and the N-phenylphthalimide is selected from the group consisting of cinidon-ethyl, flumiclorac, flumiclorac-pentyl, and furohexyl. the oxadiazole is selected from the group consisting of oxadiargyl and oxadiazone; the oxazolidinedione is pentoxazone; the phenylpyrazole is selected from the group consisting of fluazolate, pyraflufen, and pyraflufen-ethyl; the pyrimidinedione is selected from the group consisting of benzphendizone, butafenacil, epirifencasil (S-3100), flupropacil, flufenoximacil, saflufenacil, and thiafenacil; The diazole is selected from the group consisting of fluthiacet-methyl and thidiazimine, the triazolinone is selected from the group consisting of azafenidin, bencarbazone, carfentrazone, its salts and esters, and sulfentrazone, and the benzoxazinone derivative is 1,5-dimethyl-6-thioxo-3-(2,2,7-trifluoro-3,4-dihydro-3-oxo-4-prop-2-ynyl-2H-1,4-benzoxazin-6-yl)-1,3,5-triazinane-2,4-dione (trifludimoxazine ), and other PPO herbicides include chlorphthalim, flufenpyr, flufenpyr-ethyl, flumipropyne, pyraclonil, profluazole, pyridin-2-ylmethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, 2-methoxyethyl [(3-{2-cyano-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate, cyanomethyl [(3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}pyridin-2-yl)oxy]acetate methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, methyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate (flufenox simacil), methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, methyl 2-{[(Z)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, methyl 2-{[(Z)-{2-chloro-4-fluoro-5- [3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid ethyl ester, ethyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate ...6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, ethyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoate, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene} amino]oxy}propanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}propanoic acid, methyl 2-{[(E)-{2-chloro -4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate, ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}-2-methylpropanoate, methyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2, 6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl (2S)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2R)-2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, (2S)-2- {[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoic acid, ethyl 2-{[(E)-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]benzylidene}amino]oxy}butanoate, methyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1, 3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate ester, 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, (2S)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoic acid, ethyl 2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2R)-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, ethyl (2S )-2-({(E)-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorobenzylidene]amino}oxy)propanoate, methyl 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, methyl (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3 ,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, methyl (2S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoate, 2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene} amino]oxy}propanoic acid, (2R)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, (2S)-2-{[(E)-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorobenzylidene}amino]oxy}propanoic acid, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, methyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidine-1(, 2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, ethyl (5S)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl (5R)-3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5 -methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-propyl-4,5-dihydro-1,2-oxazole-5-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-5-ethyl-4,5 -dihydro-1,2-oxazole-5-carboxylate, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazol-3-yl)phenyl]-1-methyl-6-(trifluoromethyl)pyrimidine-2,4(1H,3H)-dione, ethyl 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate,2-oxazole-5-carboxylate, methyl 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5R)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, (5S)-3-[2-chloro-5-(3,5-dimethyl-2,6-dioxo-4-sulfanylidene-1,3,5-triazinan-1-yl)-4-fluorophenyl]-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylic acid, 3-[4-chloro-2-fluoro-5-(5-{[(isopropylideneamino)oxy ]carbonyl}-5-methyl-4,5-dihydro-1,2-oxazol-3-yl)phenyl]-1,5-dimethyl-6-sulfanylidene-1,3,5-triazinane-2,4-dione, ethyl 3-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}-5-methyl-4,5-dihydro-1,2-oxazole-5-carboxylate, 3-{5-[3-amino-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]-2-chloro-4-fluorophenyl}- methyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, ethyl 3-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, methyl 3-{2-bromo-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenyl}-3a,4,5,6-tetrahydro-6aH-cyclopenta[d][1,2]oxazole-6a-carboxylate, 2-ethoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate, {[(1-{2-chloro-4-fluoro-5-[ 55. The corn plant, plant cell, plant part, or plant seed of claim 54, or the method, wherein the hydroxyl group is selected from the group consisting of 2-(2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropyl)carbonyl]oxy}acetic acid, 2-methoxy-2-oxoethyl 1-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}cyclopropanecarboxylate, and cyclopropylmethyl (2-{2-chloro-4-fluoro-5-[3-methyl-2,6-dioxo-4-(trifluoromethyl)-3,6-dihydropyrimidin-1(2H)-yl]phenoxy}phenoxy)acetate.
56. 56. The method of any one of claims 32, 36-38, 40, 54, and 55, wherein the effective amount of PPO herbicide is from about 0.0009 lb / acre to about 1.5 lb / acre throughout the growing season.
57. 1. A method for producing a progeny corn plant comprising corn event Zm_CSM63715, comprising: a) sexing a first corn plant comprising the corn event Zm_CSM63715 with itself or with a second corn plant; b) collecting one or more seeds produced from said hybrid; and c) growing one or more seeds to produce one or more progeny plants; d) selecting at least a first progeny plant or seed comprising said corn event Zm_CSM63715.
58. 58. An inbred or hybrid corn plant or seed comprising corn event Zm_CSM63715 produced by the method of claim 57.
59. 32. Non-living or non-regenerable maize plant material comprising a recombinant DNA molecule according to any one of claims 1 to 4 or a DNA construct according to any one of claims 26 to 31.
60. Non-living or non-regenerable corn plant material comprising corn event Zm_CSM63715, wherein a representative sample of seeds comprising said corn event corn event Zm_CSM63715 has been deposited under ATCC Accession No. PTA-127361.
61. A commercial product comprising a recombinant DNA molecule according to any one of claims 1 to 4 or a DNA construct according to any one of claims 26 to 31.
62. 62. The commodity product of claim 61, wherein the commodity product is produced from a transgenic corn plant, plant part, plant seed, or plant cell comprising the corn event Zm_CSM63715.
63. 63. The commodity product of claim 61 or 62, wherein the commodity product comprises whole seeds or processed seeds; viable or non-viable seeds; viable plant parts (such as roots and leaves); viable plant cells; processed plant parts; processed plant tissue; dehydrated plant tissue; dehydrated plant parts; frozen plant tissue; frozen plant parts; foods for human consumption such as corn oil, corn meal, corn flour, corn grit, corn flakes, corn bran, corn starch, sweeteners such as high fructose corn syrup (HFCS), glucose and dextrose, beverage alcohol, brewers grit for beer production, fiber; animal feed such as corn, corn biomass; industrial alcohol; fuel ethanol; corn pollen; corn plastic; dried distillers grains (DDG); or biodegradable packaging materials.
64. 1. A method of producing a commodity product, comprising: a) obtaining a transgenic maize plant, plant part, or plant seed comprising maize event Zm_CSM63715; b) producing a commercial product from the transgenic corn plant, plant part, or plant seed.
65. 1. A method for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds, comprising culturing in a crop environment a corn plant containing a transgene that confers tolerance to (i) a PPO herbicide and (ii) at least three additional herbicides having a herbicide mode of action, wherein the three additional herbicide modes of action are each different from one another.
66. 1. A method for controlling, preventing, or reducing the occurrence of herbicide-resistant weeds, comprising: a) cultivating in a crop growing environment a maize plant comprising the DNA construct of any one of claims 26 to 31 and at least three additional transgenes for providing tolerance to herbicides having three additional herbicidal modes of action, each different from one another; and b) applying to the crop environment at least one herbicide selected from the group consisting of dicamba, glufosinate, 2,4-D, a PPO inhibitor, glyphosate, and any combination thereof, wherein the corn plants are tolerant to the at least one herbicide.
67. 67. The method of claim 65 or 66, wherein the transgenes conferring tolerance to the herbicides having the at least three additional herbicide modes of action are present at a single genomic location within the corn plant.
68. 1. A method for reducing a genetic locus for corn breeding by site-specific insertion of a transgene that provides tolerance to a PPO herbicide at a genomic location in the corn plant that is within about 3-8 cM of a genetic locus in the genome of the corn plant, the method comprising transgenes that are tolerant to at least three additional herbicide modes of action, each of the three additional herbicide modes of action being different from one another.
69. 69. The corn plant, plant seed, plant part, or plant cell of claim 44, or the method of any one of claims 66-68, wherein the additional transgene is selected from the group consisting of FT_T, dicamba monooxygenase (DMO), phosphinothricin N-acetyltransferase (PAT), 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), and any combination thereof.
70. 70. The corn plant, plant seed, plant part, plant cell, or method of claim 69, wherein the FT_T transgene comprises a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 171, the DMO transgene comprises a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 169, the PAT transgene comprises a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO: 167, and the EPSPS transgene comprises a polynucleotide sequence encoding a protein having the amino acid sequence of SEQ ID NO:
173.
71. 71. The corn plant, plant seed, plant part, or plant cell of claim 44, 69, or 70, or the method of any one of claims 66-70, wherein the additional transgene provides tolerance to an herbicide having a mode of action selected from the group consisting of an inhibitor of glutamine synthetase, an inhibitor of acetyl-CoA carboxylase (ACCase) in an aryloxyphenoxypropionate (FOP) group, an inhibitor of EPSPS, a synthetic auxin, and any combination thereof.
72. The inhibitor of acetyl-CoA carboxylase (ACCase) in the aryloxyphenoxypropionate (FOP) group is selected from the group consisting of cloradifop, clodinafop, clodinafop-ethyl, clodinafop-propargyl, clofop, cyhalofop, cyhalofop-butyl, diclofop, diclofop-methyl, diclofop-P, diclofop-P-methyl, fenoxaprop, fenoxaprop-P, fenoxaprop-P-ethyl, fentiaprop, fluazifop, fluazifop-butyl, fluazifop-P, fluazifop-P-butyl, haloxyfop, haloxyfop-ethotyl, haloxyfop-methyl, haloxyfop-P, haloxyfop-P-methyl, isoxaprop, cyclopropanol ...
72. The corn plant, plant seed, plant part, plant cell, or method of claim 71, wherein the synthetic auxin is selected from the group consisting of sapirifop, metamifop, propaquizafop, quizalofop, quizarafop-ethyl, quizalofop-P, quizarafop-P-ethyl, quizarafop-P-tefuryl, trifop, and any combination thereof; the synthetic auxin is selected from the group consisting of dicamba, 2,4-D, dichlorprop, mecoprop, 2,4,5-T (2,4,5-trichlorophenoxyacetic acid), and any combination thereof; the inhibitor of glutamine synthetase comprises glufosinate; and the inhibitor of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) comprises glyphosate.
73. 73. The corn plant, plant seed, plant part, plant cell, or method of any one of claims 44 and 69-72, or the method of any one of claims 66-72, wherein the corn plant, plant seed, plant part, or plant cell further comprises corn event MON87429.
74. the corn plant, plant seed, plant part, or plant cell is a recombinant DNA molecule comprising a sequence selected from the group consisting of SEQ ID NO:212, SEQ ID NO:213, SEQ ID NO:214, SEQ ID NO:215, SEQ ID NO:216, SEQ ID NO:217, SEQ ID NO:218, SEQ ID NO:219, SEQ ID NO:220, SEQ ID NO:221, the full length of SEQ ID NO:212 or the full length of SEQ ID NO:213 and at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, at least 100%, at least 101%, at least 102%, at least 103%, at least 104%, at least 105%, at least 106%, at least 107%, at least 108%, at least 109%, at least 110%, at least 111%, at least 112, at least 113, at least 114%, at least 115%, at least 116%, at least 117%, at least 118%, at least 119%, at least 120%, at least 121%, at least 122, at least 123, at least 124%, at least 125%, at least 126%, at least 127%, at least 128%, at least 129%, at least 129% 72. The corn plant, plant seed, plant part, plant cell, or method of any one of claims 44 and 69-72, or the method of any one of claims 66-72, further comprising a polynucleotide having a sequence that is 8%, at least 99%, at least 99.1%, at least 99.2%, at least 99.3%, at least 99.4%, at least 99.5%, at least 99.6%, at least 99.7%, at least 99.8%, or at least 99.9% identical to the corn plant, plant seed, plant part, plant cell, or method of any one of the foregoing.
75. 1. A corn plant, plant seed, plant part, plant cell, or progeny plant comprising a recombinant nucleic acid molecule, wherein said recombinant nucleic acid molecule comprises a target corn genomic nucleic acid sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs:174-190, and a DNA sequence of interest, wherein said DNA sequence of interest is inserted into said target corn genomic nucleic acid sequence.
76. 76. The corn plant, seed, plant part, plant cell, or progeny plant of claim 75, comprising a recombinant nucleic acid molecule, wherein said recombinant nucleic acid molecule comprises a target corn genomic nucleic acid sequence having a sequence selected from the group consisting of SEQ ID NOs:174-190.
77. 77. The corn plant, seed, plant part, plant cell or progeny plant of claim 75 or 76, wherein the DNA sequence of interest comprises a gene of agronomic interest.
78. 78. The corn plant, seed, plant part, plant cell or progeny plant of claim 77, wherein the gene of agronomic interest confers herbicide tolerance to the plant.
79. 79. The corn plant, seed, plant part, plant cell, or progeny plant of any one of claims 75-78, wherein the target corn genomic nucleic acid sequence is at least 1 kb from the insertion site of MON87429.
80. 80. The corn plant, seed, plant part, plant cell, or progeny plant of any one of claims 75-79, wherein the target corn genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site.
81. 81. The corn plant, seed, plant part, plant cell, or progeny plant of any one of claims 75 to 80, wherein the target corn genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation of 10% or less of the genome-wide population average, and / or has a redundancy score of 30% or less.
82. 1. A method for producing a recombinant corn plant cell, comprising: a. Obtaining a corn plant, seed, or cell, wherein the plant, seed, or cell comprises a target corn genomic nucleic acid molecule having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 174-190, or a complement thereof; b. introducing into said corn plant, seed, or cell a site-specific nuclease capable of specifically binding to and cleaving said target corn genomic nucleic acid molecule; c. introducing a DNA sequence of interest into said corn plant, seed, or cell; and d. selecting a recombinant corn plant, seed, or cell that contains the DNA sequence of interest inserted into the target corn genomic nucleic acid molecule.
83. 83. The method of Claim 82, wherein the site-specific nuclease is selected from the group consisting of an RNA-guided nuclease, a zinc finger nuclease, and a TALEN.
84. 84. The method of Claim 83, wherein the RNA-guided nuclease is Cas12a.
85. 85. The method of claim 84, further comprising introducing into the corn plant, seed, or cell a guide polynucleotide comprising a nucleic acid sequence substantially complementary to the target corn genomic nucleic acid, wherein the guide polynucleotide and the RNA-guided nuclease form a complex capable of binding to and cleaving the corn genomic nucleic acid molecule.
86. 86. The method of Claim 85, wherein the guide polynucleotide comprises a nucleotide sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
87. 87. The method of Claim 85 or 86, wherein the guide polynucleotide further comprises SEQ ID NO:
23.
88. 88. The method of any one of claims 82-87, wherein the target maize genomic nucleic acid sequence is at least 1 kb from the MON87429 insertion site.
89. 89. The method of any one of claims 82-88, wherein the target maize genomic nucleic acid sequence maps within 5 cM of the MON87429 insertion site.
90. 90. The method of any one of claims 82-89, wherein the target maize genomic nucleic acid sequence is more than 1 kb from a gene, more than 1 kb from a repressive chromatin mark, more than 200 nucleotides from a small RNA hotspot, more than 1 kb from a long repeat region, has DNA methylation of 10% or less of the genome-wide population average, and / or has a redundancy score of 30% or less.
91. A recombinant DNA molecule comprising a DNA sequence having at least 85% sequence identity, at least 90% sequence identity, or at least 95% sequence identity to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
92. 92. The recombinant DNA molecule of claim 91, comprising a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
93. 93. The recombinant DNA molecule of claim 91 or 92, wherein the DNA sequence is operably linked to a heterologous promoter sequence.
94. 94. The recombinant DNA molecule of any one of claims 91 to 93, further comprising SEQ ID NO:
23.
95. A recombinant RNA molecule comprising an RNA sequence that is at least 85% complementary, at least 90% complementary, or at least 95% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
96. 96. The recombinant RNA molecule of claim 95, wherein the RNA sequence is 100% complementary to a nucleic acid molecule selected from the group consisting of SEQ ID NOs: 195-211.
97. 1. A method for controlling or preventing the growth of weeds in an area, comprising: planting corn comprising event Zm_CSM63715 and event MON87429 in the area; and applying an effective amount of at least one herbicide selected from the group consisting of a PPO herbicide, dicamba, glufosinate, 2,4-D, glyphosate, an FOP herbicide, and any combination thereof to control weeds in the area, wherein the method results in no phytotoxicity to the corn or less than about 10% phytotoxicity to the corn.