29 results about "Allelotype" patented technology

The invention relates to the technical field of biology, in particular to an SNP molecular marker for identifying upland cotton fiber quality, a KASP primer group and application of the SNP molecular marker and the KASP primer group. The invention provides five SNP (Single Nucleotide Polymorphism) molecular markers XW1-XW5 which are obviously related to fiber quality, and accurate and stable genotyping can be realized through verification. Wherein the fiber length can be remarkably increased by excellent allelotypes corresponding to the markers XW1, XW2, XW4 and XW5; the excellent allelotype corresponding to the marker XW3 can significantly improve the micronaire value, provides a reliable tool for upland cotton fiber quality identification and molecular breeding, and has important application value.

The invention belongs to the technical field of crop molecular markers, and particularly discloses a molecular marker for identifying the salt tolerance of brassica napus in the germination period and application of the molecular marker. The molecular marker is located at the position of an A02 chromosome scafoldA028707654 of a brassica napus reference genome ZS11.v10, and the allelotype of the molecular marker is wild type C or mutant type CATATT insertion. The invention also provides a specific primer group for detecting the molecular marker, and the salt tolerance (sensitive type or tolerance type) of the brassica napus line can be quickly identified according to the existence of 411bp and 416bp bands through double PCR amplification and electrophoresis detection. The molecular marker is significantly associated with salt tolerance phenotypes, the detection method is rapid, accurate and low in cost, the molecular marker can be used for brassica napus salt tolerance germplasm resource screening and molecular marker-assisted breeding, and the breeding efficiency is significantly improved.

The invention relates to the technical field of modern livestock breeding, in particular to an SNP (Single Nucleotide Polymorphism) molecular marker rs663564950 related to growth traits of goats and application of the SNP molecular marker rs663564950. The SNP molecular marker is located at the 51bp position of a nucleotide sequence shown in SEQ ID NO.01, and the polymorphism of the SNP molecular marker is C / T. When the genotype of the polymorphic site contained in the molecular marker is CT or TT, the genotype corresponds to the relative advantage of the growth traits of the goat to be detected. The molecular marker provided by the invention can be applied to the identification or prediction of the growth state of the goat, can also be applied to the field of molecular breeding, and judges the genetic potential of the goat based on the analysis of the genotype of the goat; by optimizing the dominant allelotype of the SNP molecular marker, the 6-month-old weight of the goat offspring can be improved, so that the SNP molecular marker is further used for genetic improvement of breeding sheep, and the economic benefit of the mutton sheep breeding industry is effectively improved.

The invention relates to a computer-implemented method for determining pharmacogenetic star alleles from high-throughput sequencing data, the method comprising the following steps: providing a plurality of result files which have been output by a plurality of different computer programs for genotyping and which each have a plurality of result elements, wherein each result element has at least one gene designation; shortening the allele designation as far as possible on the right for each result element of the plurality of result elements from each result file of the plurality of result files; and outputting the gene designation and a specific result diplotype. The invention also relates to a computer-implemented method for determining rare genetic variants. Finally, the invention also relates to a device having a processor and a memory in order to carry out such methods.

The application discloses a genetic marker linked with a wheat kernel nickel ion accumulation QTL qNi.hnaas-6BS, adopts a Wheat Breeders 660K microarray chip to identify genotype data of a natural population, combines phenotype data of kernel nickel ion content of the wheat natural population, carries out whole genome association analysis (GWAS), identifies that a quantitative trait locus (QTL) qNi.hnaas-6BS for controlling wheat kernel nickel ion accumulation exists on a short arm of a 6B chromosome of the wheat, the QTL is closely linked with SNP6872, is located at the 125,482,475th nucleotide of the 6B chromosome, and the SNP6872 has C / T polymorphism. Haplotype analysis results on a population level show that when the nucleotide of the site is CC, the wheat kernel has lower nickel ion content, and is a favorable allelic genotype for limiting the accumulation of the wheat kernel nickel ion.

The invention discloses an SNP (Single Nucleotide Polymorphism) site related to thousand seed weight character of brassica napus and a KASP (Keyhole Associated Specific Protein) marker primer group thereof, and belongs to the field of gene engineering, the SNP marker is positioned at the 3967014bp position of the A09 chromosome of brassica napus, the reference genome version is ZS11.v0, the SNP marker has G / A polymorphism, A is an excellent allele type, the phenotype contribution rate of the A to thousand seed weight is 10.0-12.8%, and the KASP marker primer group has the advantages that the KASP marker primer group can be used for detecting the thousand seed weight character of the brassica napus; the individual with the genotype AA or AG at the position has a higher thousand seed weight character than the individual with GG. A specific KASP marker primer group is developed aiming at the SNP locus, and the KASP marker primer group can realize genetic typing of the locus, and can be used for molecular marker-assisted breeding selection, acceleration of thousand seed weight character identification and breeding in the rape breeding process, and improvement of breeding screening efficiency.

The present invention provides a method for improving rice yield tms5 The method for the sterility threshold temperature of two-line sterile lines comprises the following steps: TMS5 CRISPR / Cas9 gene editing targets T501 and T502 were designed 22bp and 57bp downstream of the gene translation start site ATG, respectively, and gene editing vectors TMS501 and TMS502 were constructed to transform rice varieties to achieve TMS5 Site-directed mutation of genes to obtain different multiple alleles tms5 Gene frameshift mutant material. Experiments have shown that in the same genetic background, the T501 target site editing tms5-1 The sterility starting temperature of the frameshift mutants was significantly higher than that of the T502 target. tm5-2 Mutants. The method provided by the present invention can quickly obtain rice with different sterility threshold temperature phenotypes under the same genetic background. tms5 Mutants can overcome the interference of different genetic backgrounds and provide a basis for studying rice tms5 The molecular mechanism and genetic regulatory network of the starting temperature of two-line sterility provide new ideas.

The application discloses a molecular marker related to wheat kernel nickel ion accumulation, uses a natural population constructed by a team in the early stage, uses a Wheat Breeders 660K microarray chip to identify genotypic data of the natural population, combines phenotypic data of the wheat natural population kernel nickel ion content, carries out whole genome association analysis (GWAS), identifies that a quantitative trait locus (QTL) qNi.hnaas-6BL controlling the wheat kernel Ni ion accumulation exists on a long arm of a 6B chromosome of the wheat, the QTL is closely linked with SNP4008, is located at the 693,584,519th nucleotide of the 6B chromosome, and the SNP4008 has A / G polymorphism. Haplotype analysis results on the population level show that when the nucleotide of the site is AA, the wheat kernel has lower nickel ion content, and is a favorable allelic genotype; when the nucleotide of the site is GG, the wheat kernel has higher nickel ion content, and is an unfavorable allelic genotype.

The invention belongs to the field of rice molecular genetics, and particularly discloses an MBKbase database-based dominant allelotype analysis method for stem strength genes, which comprises the following steps: firstly, analyzing different genotypes of rice stem strength genes SCM3 and OsRLCK191, and according to different genotype germplasm resources of the rice stem strength genes carried in MBKbase-Rice, constructing a dominant allelotype of the rice stem strength genes SCM3 and OsRLCK191; the method comprises the following steps: selecting rice materials with single-dominant allelic genes, double-dominant allelic genes and non-dominant allelic genes (reference genome type), determining the stem strength character of rice germplasm resources of different genotype combinations of the rice stem strength gene, and finally performing sequencing verification on different genotypes of the rice stem strength gene. Finally, clearly breeding a strategy that the stalks are thick and strong, the stalks are high in elasticity or the stalks are moderate in thickness and elasticity to improve the lodging resistance of the rice variety; therefore, low-cost and high-throughput genotype screening can be realized.

The invention discloses a protein GIP1 related to rice grain size regulation and a coding gene and application thereof. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 3 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 3, is related to plant grain size regulation and is derived from the sequence 3. The GIP1 gene disclosed by the invention can control the grain size character in rice, namely overexpression of the gene can increase the length and thousand grain weight of rice grains. According to the invention, a new gene resource is provided for research on the grain size character of plants, especially rice, and a rice material with a GIP1 excellent allelotype is selected for genetic improvement of rice and plays an important role in application in the field of rice breeding.

The application discloses a kind of rice Hot1 Gene and its alleles, molecular markers and applications belong to the technical field of molecular biology.The application clones high-temperature-resistant gene Hot1 In rice, through overexpression experiment, it is proved that the gene positively regulates the high-temperature-resistant ability of rice, and subsequent haplotype analysis shows that the alleles Hot1 Derived from Indian rice Kasalath Hot1-Hap7 Can significantly improve the high-temperature-resistant ability of plants after being introduced into japonica rice Nip.The application screens an allelic form of high-temperature-resistant gene Hot1 Through high-temperature treatment and agronomic trait analysis, it is proved that the allelic form has a significant contribution to the high-temperature resistance of rice, and provides an important gene resource for rice high-temperature-resistant breeding.

The invention discloses a protein TaEOG1 related to wheat grain quality regulation and control as well as a coding gene and application of the protein TaEOG1. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 1 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 1, is related to plant seed quality regulation and is derived from the sequence 1. The TaEOG1 gene disclosed by the invention can control grain quality characters in wheat, namely homozygous mutation of the gene causes increase of protein content and precipitation value of wheat seeds. A new gene resource is provided for research on quality characters of plants, especially wheat grains, a wheat material with the TaEOG1 excellent allele type is selected for genetic improvement of wheat, and the gene plays an important role in application in the field of wheat breeding.

The invention belongs to the technical field of plant genetic engineering, and discloses an application of a gene Gohi.A03G043500 in salt-tolerant breeding of cotton. The invention discloses the expression characteristic of stress-induced down-regulation of the gene in the salt-tolerant cotton and the key function of the gene as a stress negative regulation factor for regulating growth-stress resistance balance for the first time. The salt tolerance of the cotton germplasm can be accurately identified by detecting the expression change of the gene under salt stress or the allelotype of a regulation region of the gene; meanwhile, the salt tolerance of the cotton can be effectively improved by accurately regulating and controlling the expression level of the gene. The invention provides a new functional marker, a breeding strategy and a gene resource for salt-tolerant breeding of cotton, and has important application value in breeding of salt-tolerant cotton varieties.

The invention discloses a protein LBL2 related to rice grain size regulation and a coding gene and application thereof. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 1 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 1, is related to plant grain size regulation and is derived from the sequence 1. The LBL2 gene disclosed by the invention can control the grain size character in rice, namely overexpression of the gene can increase the length and thousand grain weight of rice grains. According to the invention, a new gene resource is provided for research on the grain size character of plants, especially rice, and a rice material with an excellent LBL2 allele type is selected for genetic improvement of rice and plays an important role in application in the field of rice breeding.

The invention discloses a protein OsEOG1 related to rice grain size regulation and a coding gene and application thereof. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 1 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 1, is related to plant seed size regulation and is derived from the sequence 1. The OsEOG1 gene disclosed by the invention can control important yield traits of grain size in rice, that is, homozygous mutation of the gene causes increase of grain length and grain width of rice seeds and increase of hundred-grain weight. The invention provides a new gene resource for research on yield traits of plants, especially rice, selects a rice material with the excellent OsEOG1 allelotype for genetic improvement of rice, and plays an important role in application in the field of rice breeding.

This invention discloses a CAPS molecular marker for enhancing the cold tolerance gene OsSGR in rice, along with its detection and identification methods and applications, belonging to the field of plant molecular breeding technology. The molecular marker consists of two primers, OsSGR-CAPS-F (SEQ ID NO.1) and OsSGR-CAPS-R (SEQ ID NO.2), and can rapidly and accurately distinguish between two OsSGR alleles through PCR amplification, Nhe I restriction enzyme digestion, and electrophoretic analysis. The presence of only a 1038 bp band indicates a cold-sensitive genotype, while the presence of two bands (231 bp and 800 bp) indicates a cold-tolerant genotype. This invention also provides a method for genotype detection using this marker and its application in backcross breeding for selecting cold-tolerant rice lines. This marker system has advantages such as accurate detection, simple operation, and high breeding efficiency, making it suitable for large-scale application.

The invention relates to the technical field of modern livestock breeding, in particular to an SNP (Single Nucleotide Polymorphism) molecular marker rs637601961 related to the body weight of a goat at the age of 6 months and an application of the SNP molecular marker rs637601961. The SNP molecular marker is located at the 51bp position of a nucleotide sequence shown in SEQ ID NO.01, and the polymorphism of the SNP molecular marker is G / T. When the genotype of the polymorphic site contained in the molecular marker is GT or TT, the genotype corresponds to the relative advantage of the 6-month-old body weight of the goat to be detected. The molecular marker provided by the invention can be applied to the identification or prediction of the growth state of the goat, can also be applied to the field of molecular breeding, and judges the genetic potential of the goat based on the analysis of the genotype of the goat; by optimizing the dominant allelotype of the SNP molecular marker, the 6-month-old weight of the goat offspring can be improved, so that the SNP molecular marker is further used for genetic improvement of breeding sheep, and the economic benefit of the mutton sheep breeding industry is effectively improved.

The invention discloses a primer probe combination for detecting four genetic defect genes of a dairy cow and application of the primer probe combination. The primer probe combination for detecting citrullinemia, bovine spinal malformation syndrome, bovine leukocyte adhesion deficiency and / or bovine uridine monophosphate synthase deficiency of dairy cows can directly detect nucleic acid, and is high in accuracy, high in sensitivity, good in specificity, short in detection time and high in sensitivity. Allelic genotypes of related genes of four genetic diseases of the dairy cow can be rapidly, accurately and efficiently detected. Meanwhile, the primer probes are combined to prepare a detection kit for four disease-related gene mutation sites, so that powerful help is provided for accurately screening citrullinemia, bovine spinal malformation syndrome, bovine leukocyte adhesion deficiency and bovine uridine monophosphate synthase deficiency carriers of the dairy cow, and high-quality breeding of the dairy cow can be effectively assisted.

The invention discloses a protein TIP1 related to rice grain size regulation and a coding gene and application thereof. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 1 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 1, is related to plant grain size regulation and is derived from the sequence 1. The TIP1 gene disclosed by the invention can control the grain size character in the rice, namely the homozygous mutation of the gene can improve the grain size of the rice. According to the invention, a new gene resource is provided for research on grain size characters of plants, especially rice, and a rice material with excellent TIP1 allelotype is selected for genetic improvement of rice and plays an important role in application in the field of rice breeding.

The invention discloses an identification method for meiosis recombination of a citrus F1-generation hybrid population based on next-generation sequencing data. Sequencing the parents and the offspring; screening identification type SNP sites which are homozygous in one parent and heterozygous in the other parent; distinguishing the parent source and the parent source recombinant identification type SNP sites; in combination with the control parent, inferring an allelotype of the filial generation obtained from the identification parent and forming a filial generation chromosome haplotype; clustering the chromosome haplotypes of the offspring; constructing an identification parent fitting chromosome haplotype according to a majority principle; and comparing the fitting chromosome haplotype of the identified parent with the chromosome haplotype of the offspring to judge a recombination event (when the recombination of the male parent is analyzed, the male parent is the identified parent, and the female parent is the contrast parent, and the female parent is in the same way). The method provided by the invention breaks through the difficulty that the existing recombination analysis technology cannot identify the citrus hybrid population with few generations, high parent heterozygosity and unknown haplotype, so that the recombination identification of the perennial woody fruit tree population mainly comprising citrus becomes possible.

The invention belongs to the technical field of molecular genetics and molecular breeding, and relates to a molecular marker linked with a major QTL site related to the number of kernels per pod of peanut, a primer composition, an identification method and application, the major QTL site of the number of kernels per pod of peanut is located at the 05 chromosome of a peanut genome, and the molecular marker is InDel markers CNJ-9 and CNJ-12, a nucleotide sequence in a 600bp range in the Huayu No. 25 corresponding to the marker CNJ-9 is shown as SEQ ID NO: 1, and a nucleotide sequence in 600bp in the corresponding three-seed black is shown as SEQ ID NO: 2; a nucleotide sequence in a 600bp range in Huayu No. 25 corresponding to the marker CNJ-12 is as shown in SEQ ID NO: 4, and a nucleotide sequence in a 600bp range in corresponding three-seed black is as shown in SEQ ID NO: 5. Based on the developed markers CNJ-9 and CNJ-12, the allelotype of an individual at a target site can be accurately judged, and early, efficient and accurate selection of a target character is realized.

The application discloses a method for identifying meiotic recombination of citrus F1 hybrid population based on second-generation sequencing data. The parent and offspring are sequenced; the differential SNP sites which are homozygous in one parent and heterozygous in the other parent are screened; the paternal and maternal origin recombination differential SNP sites are distinguished; the control parent is combined to deduce the allele genotype of the offspring from the identification parent and to form the offspring chromosome haplotype; the offspring chromosome haplotype is clustered; the identification parent fitting chromosome haplotype is constructed according to the majority principle; and the identification parent fitting chromosome haplotype is compared with the offspring chromosome haplotype to determine the recombination event (when the father is analyzed, the father is the identification parent and the mother is the control parent; the mother is the same). The method breaks through the difficulty that the existing recombination analysis technology cannot identify the citrus hybrid population with less generation number, high parent heterozygosity and unknown haplotype, and makes it possible to identify the recombination of the perennial woody fruit tree population mainly with citrus.

The application discloses a SNP site related to the thousand kernel weight trait of Brassica napus and a KASP marker primer set thereof, belongs to the field of genetic engineering, and the SNP marker is located at the position of 3967014bp of the A09 chromosome of Brassica napus, the reference genome version is ZS11.v0, has G / A polymorphism, A is an excellent allelic genotype, the phenotype contribution rate of the thousand kernel weight is 10.0%-12.8%, and the individual with the genotype AA or AG at the position has a higher thousand kernel weight trait than the individual with the genotype GG. A specific KASP marker primer set is developed for the SNP site, the KASP marker primer set can realize the site genotyping, can be used for molecular marker assisted breeding selection, accelerates the identification and breeding of the thousand kernel weight trait in the rapeseed breeding process, and improves the breeding screening efficiency.

The invention belongs to the technical field of molecular genetic breeding, and particularly relates to a KASP molecular marker related to the protein content of rice grains and application of the KASP molecular marker. The invention provides a molecular marker developed on the basis of a KASP technology and used for detecting the protein content character of rice grains. The molecular marker comprises KASP-OsGluA2 and KASP-OsAAP6, wherein the molecular marker comprises KASP-OsGluA2 and KASP-OsAAP6; the KASP-OsGluA2 is located at the 31st basic group of the nucleotide sequence as shown in SEQ ID NO: 1, and has T / A polymorphism; the KASP-OsAAP6 is located at the 40th site of the nucleotide sequence as shown in SEQ ID NO: 6, and has C / CTCTGTG polymorphism. The molecular marker disclosed by the invention can be used for rapidly and accurately identifying the allelotype of the OsGluA2 and the OsAAP6 in a high-throughput manner, and has important significance on improving the protein content of rice grains so as to cultivate high-quality rice varieties.

The invention discloses a protein OsGSK3 related to rice grain size regulation and control as well as a coding gene and application thereof. The protein provided by the invention is the following (a) or (b): (a) a protein consisting of an amino acid sequence shown as a sequence 1 in a sequence table; and (b) a protein which is obtained by substitution and / or deletion and / or addition of one or more amino acid residues on the amino acid sequence of the sequence 1, is related to plant seed size regulation and is derived from the sequence 1. The OsGSK3 gene disclosed by the invention can control important yield traits of grain size in rice, that is, homozygous mutation of the gene leads to increase of grain length and grain width of rice seeds and increase of hundred-grain weight. The invention provides a new gene resource for research on yield traits of plants, especially rice, selects a rice material with the excellent OsGSK3 allele for genetic improvement of rice, and plays an important role in application in the field of rice breeding.

The invention discloses a method for screening dairy cow milk production performance and blood character markers and application. The method comprises the following steps: performing GWAS preliminary screening by a FarmCPU method, performing GWAS analysis on a gene level, constructing a geneHapR haplotype module, and performing correlation analysis. According to the present invention, it is found for the first time that four modules exist in the LOC112441463 gene of the chromosome 15, wherein the modules Block2 and Block4 are significantly related to the number of lymphocytes and the milk yield of 305 days; h001 (CT / TA) in Block2 and H001 (GT / AC) in Block4 are haplotype dominant allelotype, the number of lymphocytes carrying haplotype individuals is relatively low, but the milk yield in 305 days is relatively high. Therefore, the H001 haplotype in the two modules of the LOC112441463 gene can be used as a molecular marker for disease-resistant breeding, so that the milk production performance of dairy cows is improved.

The invention discloses a KASP molecular marker associated with citrus hesperidin accumulation and application of the KASP molecular marker, and belongs to the technical field of molecular biology and fruit tree breeding. The molecular marker is based on an SNP site at the 185th site in a coding region of a key gene 4 'OMT4 of a citrus hesperidin synthesis pathway, hesperidin is accumulated in a broad-peel citrus with an allelotype of CC, a sweet orange with a genotype of CT and a sour orange with a genotype of CT, and hesperidin is not accumulated in a pomelo with an allelotype of TT and a Yichang orange with an allelotype of TT. The invention also provides a specific KASP primer group for detecting the site. By utilizing the molecular marker and the primer group, genetic typing can be quickly and accurately performed on citrus germplasm resources, and the hesperidin accumulation capability of the citrus germplasm resources can be identified, so that the molecular marker and the primer group are applied to molecular marker-assisted selective breeding of citrus functional varieties, the breeding efficiency is remarkably improved, and the breeding process of high-added-value citrus varieties is promoted.

The invention discloses application of two GhUspA genes and alleles thereof in high-temperature-resistant germplasm breeding of upland cotton, and belongs to the technical field of plant molecular breeding. The invention discloses protein coding sequences of two extensive stress protein genes GhUspA-At and GhUspA-Dt participating in high-temperature stress response of upland cotton for the first time, and four high-temperature-resistant allelic genotypes created through gene editing, and also provides a primer and a detection method for detecting the allelic genotypes. The gene is derived from a high-temperature-resistant site qPV-A01-1 and a homologous site qPV-D01 of upland cotton, the allelotype of the gene is obtained through gene editing, the high-temperature resistance of cotton pollen can be remarkably improved, and other agronomic characters are not affected. The gene resource, the allelotype and the molecular marker provided by the invention can be used for molecular marker-assisted breeding, accelerating the germplasm innovation and breeding process of high-temperature-resistant upland cotton, and solving the problem of squaring and boll falling caused by high temperature in the Xinjiang cotton area.

The application discloses a kind of ultra-high sensitivity sample component evaluation and traceability method and device, the method comprises: obtaining sample, carries out nucleic acid extraction, library construction, capture enrichment and sequencing, generates sequencing data;Sequencing data is preprocessed, and high-quality sequencing data is obtained;Identify the SNP site and its genotype that exist in high-quality sequencing data, construct SNP combination database;Quantitative statistics is carried out to the double allele genotype of SNP site, and the variation abundance of suballele is calculated;According to the genotype information and allele variation abundance of SNP site, construct SNP site variation abundance background distribution model;Using the SNP combination database and variation abundance background distribution model constructed, cross contamination evaluation is carried out to sample.The method of the application realizes the qualitative evaluation of multiple source components in sample, the quantitative calculation of cross contamination proportion and the traceability analysis of non-self source.