76 results about "Plant genomes" patented technology

The invention relates to the technical field of collaborative prediction, in particular to a plant polygene stress resistance collaborative prediction method and system based on a federal map neural network. The method comprises the following steps: modeling a multilayer heterogeneous graph according to acquired plant genome data; constructing a dynamic graph neural network model based on time sequence perception; training a dynamic graph neural network model by using the multi-layer heterogeneous graph, and performing distributed privacy calculation on the multi-layer heterogeneous graph by using a federated graph neural network; generalization training is carried out on the small sample scene data based on multi-task learning and a cross-species migration mechanism; and obtaining a gene function prediction result. Through a multi-layer heterogeneous graph fusion technology and a dynamic graph neural network design of time sequence perception, multi-dimensional biological information such as gene regulation, protein interaction, metabolic pathways and stress response can be captured at the same time, and time sequence change characteristics of gene expression in the plant stress response process can be captured at the same time.

The invention belongs to the field of gene engineering, and relates to a plant genome directional editing tool based on transposon-coded nuclease. The invention aims to solve the technical problem that the application range of a plant genome editing tool based on CRISPR-Cas9 and Cas12a is limited to a great extent due to the fact that CRISPR-Cas9 and Cas12a are large in protein size and difficult to deliver. The invention provides transposon nuclease suitable for plant genome editing. The transposon nuclease is IsDge10, IsAam1 or enIscB subjected to codon preference optimization; and a gene editing system containing the three transposon nuclease is constructed. The gene editing system can be suitable for editing a coding region, a non-coding region and the like; the method can be widely applied to monocotyledonous plants, dicotyledonous plants, gymnosperm and the like.

The invention discloses application of novel reverse transcriptase and related fusion protein of the novel reverse transcriptase in plant-guided editing. Candidate RT protein is obtained through systematic mining from a public database, novel reverse transcriptase cl1 with activity is screened out in combination with a fluorescence report system, and a guided editing system suitable for plants is constructed. The system tests in wheat protoplast, and verifies the editing activity of cl1 to a plurality of endogenous targets. Further combining with protein structure prediction and rational design point mutation optimization, the cl1 mutant with higher editing efficiency is obtained, and the method can be applied to accurate and effective editing of plant genomes and plant breeding and improvement.

The invention belongs to the field of gene engineering, and relates to nuclease generated based on AI and having a gene editing function and application of the nuclease. The technical problem to be solved by the invention is to develop more nuclease suitable for eukaryote gene editing. According to the technical scheme, nuclease AIGCprotein which is generated based on AI and has a gene editing function is obtained through the following steps that a plurality of protein amino acid sequences are generated through a known nuclease three-dimensional structure in a PDB database, the sequences are classified and compared, and a protein skeleton of the nuclease AIGCprotein is obtained through extraction; the known nuclease is Cas12. The invention provides nuclease which is generated on the basis of Protein MPNN AI and has a gene editing function, and the protein does not exist in the nature; the method can be used for constructing a plant genome editing system.

The present invention relates to a method for plant genome modification of at least one plant cell being in the developmental stage of a plant immature inflorescence meristem (IIM) cell, wherein the modification of the specific cell type is achieved by providing a genome modification or editing system, optionally together with at least one regeneration booster, preferably wherein the effector molecules are introduced by particle bombardment. To this end, new artificial and precisely controllable booster genes and proteins are provided. Further, the modified plant cells are regenerated in a direct or an indirect way. Finally, methods, tools, constructs and strategies are provided to effectively modify at least one genomic target site in a plant cell, to obtain the modified plant cell and to regenerate a plant tissue, organ, plant or seed from the modified plant cell.

The present invention relates to a method for preparing a MAGEA8-Fc transgenic plant. Through a platform using a tobacco plant, a recombinant protein MAGEA8-Fc, in which a human IgG Fc fragment is fused to a MAGEA8 protein, can be stably expressed. The method of the present invention enables high-level expression efficiency and stable protein production by introducing a target gene into a plant genome using an Agrobacterium binary vector. By directly isolating and purifying the recombinant protein from the transgenic tobacco plant, large-scale production can be easily achieved. Compared to conventional microbial or animal cell-based expression systems, the method provides economic efficiency and scalability, and thus can be usefully applied as a platform for producing fusion proteins.

The disclosure relates to a plant that is tolerant or resistant to species of Ca. Liberibacter. Specifically exemplified are Citrus and solanaceous plants. Provided by the disclosure is a modified Citrus or solanaceous plant that is resistant or tolerant to Sec-dependent effectors secreted by bacteria. Also provided by the disclosure are methods of modifying a plant genome plant to provide tolerance or resistance to species of Ca. Liberibacter. Still further provided by the disclosure are methods conferring a population of plants with tolerance or resistance to species of Ca. Liberibacter and screening that population for the plants that are tolerant or resistant to species of Ca. Liberibacter.

Compositions containing chimeric RNA molecules which comprise meristem targeting sequences that are fused to RNA cargo sequences that include gene editing molecules are provided. Methods of using the compositions to efficiently edit plant genomes without intervening tissue culture steps are also provided. The solutions described here relate to engineered RNA molecules useful in producing plants with altered genomes. As such, it relates to substantially purified compositions, vectors, systems, as well as genomes of plants.

The application discloses a plant genome DNA extraction reagent, which comprises Buffer 1 lysate, Buffer 2 precipitate and Buffer 3 combination liquid; the Buffer 1 lysate comprises sodium chloride, PVP40, sodium metabisulfite and SDS; wherein the concentration of the sodium chloride is 250-1200 mM; the mass percentage of the PVP40 is 0.5%-3%; the concentration of the sodium metabisulfite is 50-150 mM; and the mass percentage of the SDS is 0.7%-2.5%; the Buffer 2 precipitate comprises acetate; wherein the concentration of the acetate is 2.2-4.3 M; and the Buffer 3 combination liquid comprises guanidine hydrochloride; wherein the concentration of the guanidine hydrochloride is 0.5-2.5 M. The extraction reagent does not contain organic solvents such as phenol and chloroform, and can improve the removal rate of polyphenols.

Methods arc provided for making a plant genome having a desired nucleic acid sequence. One example method includes identifying genomic segments of a plant that include at least one desired nucleic acid sequence, using a trained neural network, which is biology-informed through first pre-training connections between a genetic data layer and at least one intermediate layer and second pre-training connection between the at least one intermediate layer and a phenotypic layer. The method also includes recombining the at least one at least one desired nucleic acid sequence with a second nucleic acid sequence to form a target plant genome.

The invention belongs to the field of gene engineering. Specifically, the invention relates to a method for inserting an exogenous sequence in a genome at a fixed point. Specifically, on the basis of a guided editing system (PE), two adjacent pegRNAs with partially overlapped sequences on a reverse transcription template are used, and efficient and accurate exogenous sequence fixed-point insertion is realized in a genome, especially a plant genome. The system is further coupled with a recombinase system such as Cre / Lox or FLP / FRT and the like, and large-fragment exogenous sequence fixed-point insertion is realized in genomes, especially plant genomes.

The application discloses a kind of plant whole genome RNA-chromatin interaction detection methods, the method includes the interaction state of fixed RNA and chromatin, preparation double link, obtain nuclear, chromatin DNA fragment, RNA / linker / DNA chimera, RNA-DNA double-stranded complex in turn;Tn5 transposase fragmentization cuts double-stranded complex;PCR amplification forms DNA library.The application applies Tn5 transposase to the original RADICL-seq method, successfully to RNA-DNA complex is cut and library, greatly simplifies the process, experimental procedure is reduced by at least half, experimental period is shortened from 4-5 days to 3 days, the fragment size of DNA library produced is between 250bp-400bp, increase the length of final effective RNA / DNA fragment pair, thereby greatly improve the efficiency when aligning to plant genome in subsequent bioinformatics analysis, provide effective means for plant whole genome RNA-chromatin interaction detection.

Disclosed herein are methods of improving agronomic traits in crop plants through editing sequences within the 5′ untranslated region (UTR) of plant genomes.

The invention belongs to the technical field of agricultural biology, and particularly relates to a rice endogenous space-time specific promoter OsSULTR1; the invention discloses 3pro and application thereof. The promoter OsSULTR1 is characterized in that the promoter OsSULTR1 The nucleotide sequence of 3pro is as shown in SEQ ID NO. 1. The invention provides an OsSULTR1; 3pro is a space-time specific expression regulation element from rice, can efficiently and stably drive a target gene to be expressed in a plant callus, and can realize targeted efficient and stable expression in root and stem tissues in a plant vegetative growth period. The promoter can effectively replace a non-plant-source promoter commonly used in existing plant genetic engineering, has an important industrial application value in the field of plant genetic engineering, and not only can improve the targeting and stability of target gene expression in transgenic plants, but also can improve the yield of the transgenic plants. And the potential biological safety risk of the transgenic plant caused after the exogenous DNA is introduced into the plant genome can be obviously reduced.

The invention relates to the technical field of agriculture, in particular to an efficient CBE base editing tool based on Cas12i3 and application of the efficient CBE base editing tool. According to the Cas12i3-based efficient CBE base editing tool provided by the invention, the base editing tool comprises a protein expression cassette; the nucleotide sequence of the protein expression cassette is as shown in SEQ ID NO. 1. The tool can realize efficient, accurate and low-off-target C-to-T single base replacement in a plant genome, the editing efficiency and the target flexibility are remarkably improved, and an autonomous and controllable novel base editing platform is provided for crop functional gene research and molecular breeding.

To provide a method for genome editing of a plant with improved genome editing efficiency.SOLUTION: A method for genome editing of a plant, comprising: (1) introducing a CRISPR / Cas system into a meristematic tissue of a bud having shoot-forming ability of the plant by a particle bombardment method; and (2) culturing the meristematic tissue having the CRISPR / Cas system introduced in step (1) under a high temperature condition.SELECTED DRAWING: None

The invention relates to the technical field of biology, and particularly discloses application of OsARF family protein or a coding gene thereof in regulation and control of plant stress resistance. The research finds that the OsARF4 gene has the capability of negatively regulating the salt stress resistance of the plant, and further provides the application of the OsARF4 protein or the coding gene thereof or a biological material containing the coding gene in regulating the salt stress resistance of the plant. By applying the plant OsARF4 gene, the plant OsARF4 gene can be modified through gene editing to obtain a salt-tolerant new germplasm, and theoretical guidance is provided for plant genome function analysis and salt-tolerant new variety creation.

The present invention discloses an RNA aptamer and its application in improving the salt tolerance of rice. The present invention utilizes the systematic evolution screening technology of nucleic acid aptamers to enrich and obtain an aptamer sequence eApt‑2 with high affinity for eIF4A, which can inhibit the RNA helicase activity of eIF4A and selectively block the 5' cap-dependent translation initiation process. After the eApt‑2 coding sequence is introduced into rice cells, the transgenic rice shows significantly enhanced salt tolerance under salt stress conditions: the growth condition is improved, and the biomass and photosynthetic efficiency are higher than those of the control plants. Compared with the traditional strategy of improving salt tolerance by gene overexpression or knockout, the method of the present invention does not require permanent modification of the plant genome, and utilizes aptamers to perform precise and reversible regulation of translation initiation factors, thereby achieving optimization of stress-responsive protein synthesis, and has higher specificity and safety. The present invention provides a novel and efficient technical approach for cultivating salt-tolerant crops, and has broad application prospects.

The invention belongs to the field of gene engineering, and relates to a gramineous plant genome directional editing tool based on transposon-coded nuclease. The invention aims to solve the technical problem that the application range of a plant genome editing tool based on CRISPR-Cas9 and Cas12a is limited to a great extent due to the fact that CRISPR-Cas9 and Cas12a are large in protein size and difficult to deliver. The invention provides transposon nuclease suitable for genome editing of gramineous plants. The transposon nuclease is IsDge10, IsAam1 or enIscB subjected to codon preference optimization; and a gene editing system containing the three transposon nuclease is constructed. The gene editing system can be suitable for editing a coding region, a non-coding region and the like; the method can be widely applied to gramineous plants.

Compositions and methods are provided for genome modification of a target sequence in the genome of a plant or plant cell, without incorporating a selectable transgene marker. The methods and compositions employ a guide polynucleotide / Cas endonuclease system to provide an effective system for modifying or altering target sites within the genome of a plant, plant cell or seed, without incorporating a selectable transgene marker. Once a genomic target site is identified, a variety of methods can be employed to further modify the target sites such that they contain a variety of polynucleotides of interest. Breeding methods and methods for selecting plants utilizing a guide polynucleotide / Cas endonuclease system are also disclosed. Compositions and methods are also provided for editing a nucleotide sequence in the genome of a cell, without incorporating a selectable transgene marker.

A method of decreasing conversion of nicotine to nornicotine is provided herein. The methods includes administering at least one basic region / leucine zipper (bZIP) type transcription factor inhibitor to an organism in need thereof. Also provided herein is a method of decreasing conversion of nicotine to nornicotine including mutating a bZIP type transcription factor binding site on a promoter of a nicotine N-demethylase (NND). Further provided herein is a method of decreasing conversion of nicotine to nornicotine including mutating a plant genome to knockout at least one bZIP type transcription factor.

Provided herein are variant Cas12a proteins comprising at least one artificial evoked mutation. Also provided are fusion proteins comprising these variant Cas12a proteins and one or more heterologous domains. Related nucleic acids, DNA constructs, vectors, cells, and methods of editing nucleic acids using these variant Cas12a proteins and / or fusion proteins are also provided. Using the provided proteins can increase the frequency of desired nucleic acid editing (e.g., SDN-1 editing in the plant genome).

The application discloses an anti-disease related protein OsMED16, a biomaterial thereof and application of the protein. The application solves the technical problem of improving plant disease resistance, reducing plant tillering number, delaying plant flowering time or preparing a plant with delayed flowering time. The application specifically provides a protein and a biomaterial thereof. The protein is any one of the following: A1) a protein with an amino acid sequence shown in sequence 2; A2) a protein with more than 80% identity with the protein shown in A1) and capable of improving plant disease resistance, which is obtained by substitution, deletion and / or addition of amino acid residues of the protein in A1); and A3) a fusion protein obtained by connecting a protein tag to the N terminal or / and C terminal of A1) or A2). Replacing a coding gene of the protein in a related gene in a plant genome can improve plant disease resistance, reduce plant tillering number and delay plant flowering time, and is used for rice variety improvement or breeding.

The present invention belongs to the field of biological information processing and discloses a method and use for analyzing DNA integration information in transgenic plants. The method comprises the following steps: comparing the genome sequence of the transgenic plant with the plant genome sequence and the transgenic vector sequence, respectively, and screening for SCRs that align to the plant genome and transgenic vector sequences; grouping the SCRs according to their SCR alignment positions; arranging the unaligned sequence portions of each SCR in each SCR group from longest to shortest according to sequence length; if a short sequence appears within a long sequence, the short sequence and the long sequence belong to the same SCR subgroup; accurately aligning the longest sequence portion in each SCR subgroup that does not align to the transgenic vector sequence with the plant genome and transgenic vector sequences, and obtaining transgenic insertion site information based on the SCR subgroup's alignment information to the transgenic vector and plant genome. The method of the present invention can evaluate the molecular characteristics of inserted fragments, including various insertion scenarios, in transgenic plants.

A non-naturally occurring heterologous CRISPR-Cas12a genomic editing system is described, including or encoding at least one Cas12a ortholog endonuclease selected from among Lb5Cas12a, CMaCas12a, BsCas12a, BoCas12a, MlCas12a, Mb2Cas12a, MbCas12a TsCas12a, and MAD7® ErCas12a endonucleases. The ortholog endonucleases enable genomic editing of plants at low temperatures, e.g., below 25° C. The CRISPR-Cas12a system can be employed for targeting PAM sites such as TTN, TTV, TTTV, NTTV, TATV, TATG, TATA, YTTN, GTTA, and GTTC, utilizing corresponding gRNAs, and is readily adapted to multiplexed editing operations of plants such as rice and other food crops.

The present application belongs to the field of genetic engineering. Specifically, the present application relates to a method for site-specific insertion of exogenous sequences in a genome. Specifically, the present application is based on a prime editing system (PE) using two adjacent pegRNAs with partially overlapping sequences on a reverse transcription template to achieve efficient and precise site-specific insertion of exogenous sequences in a genome, particularly a plant genome. Further coupling the system with a recombinase system such as Cre / Lox or FLP / FRT, etc. achieves site-specific insertion of large fragments of exogenous sequences in a genome, particularly a plant genome.

Provided is a simple and efficient method of plant genome editing that does not involve the incorporation of a gene cassette for the expression system of a site-specific DNA modification protein. The method of the present invention comprises: (i) a step for mixing plant cells or a tissue containing plant cells together with a site-specific DNA modification protein and a needle-shaped inorganic compound in a liquid medium and making a disturbance to perforate the cells with the needle-shaped inorganic compound, thereby introducing the site-specific DNA modification protein into the cells; and (ii) a step for culturing the plant cells or the tissue containing the plant cells, into which the site-specific DNA modification protein has been introduced in step (i), thereby causing a DNA mutation specific to a target site in the genome of the plant cells.

The present invention relates to a method for producing a MAGEA4-Fc transgenic plant, and can stably express the recombinant protein MAGEA4-Fc in which a human IgG Fc fragment is fused to a MAGEA4 protein through a platform using a tobacco plant. The method according to the present invention enables high-level expression efficiency and stable protein production by introducing a target gene into a plant genome by using an Agrobacterium binary vector. Mass production can be easily achieved by directly separating and purifying the recombinant protein from the transformed tobacco plant, and greater economic feasibility and expandability are provided compared to existing microbial or animal cell-based expression systems, thus providing greater utility as a fusion protein production platform.

The application belongs to the technical field of genetic engineering, and particularly relates to a negative-sense RNA virus plant genome editing system and application thereof. The genome editing system uses a CRISPR-Cas9 gene editing technology, takes a plant cytoplasmic rhabdovirus as a delivery carrier, is transmitted to a plant by means of a vector, utilizes an RNA movement motif, delivers gene editing components to an axillary meristem, and obtains mutant lateral buds along with plant tillering. The application can complete plant gene editing without tissue culture, overcomes plant tissue culture dependence, expands the range of gene editing lines, and only needs one generation to obtain a pure mutant without going through hybridization and selfing processes.

The invention discloses an editor fusing 5 'exonuclease and CRISPR-Cas12i2 as well as construction and application of the editor, and relates to the technical field of plant biology. The editor for fusing the 5'exonuclease and the CRISPR-Cas12i2 comprises a 5 'exonuclease T5E and Cas12i2 variant fusion protein T5E-Cas12i2 v1 coded by a nucleotide sequence, and a nuclear localization signal bpNLS, the 5' exonuclease T5E, the Cas12i2 variant Cas12i2 v1 and a nuclear localization signal bpNLS are sequentially arranged from the N end to the C end. Compared with an existing plant genome editing tool, the constructed T5E-Cas12i2v1 editor has the advantages that the efficiency is high, TTN-PAM sites are targeted, and site-specific large fragment deletion can be generated. The method is beneficial to accurate manipulation research on large cis-genetic elements, and has a wide application prospect in plant functional genome research and genetic improvement of crops.