20 results about "Polymorphic locus" patented technology

The invention belongs to the technical field of plant molecular markers, and particularly discloses an Indel molecular marker related to the salt tolerance of brassica napus and application of the Indel molecular marker. The marker is located at the position of an A01 chromosome scafoldA0133077947 of a brassica napus reference genome ZS11.v10, and the genotype of a polymorphic site is CTAA or C. The invention further discloses a method for identifying the marker of the brassica napus. Large-scale group phenotypic association analysis proves that the molecular marker is remarkably associated with the salt tolerance of the brassica napus in the germination period, and when the polymorphic site genotype is CTAA, the salt tolerance in the germination period is high; when the genotype of the polymorphic site is C, low salt tolerance in the germination period is shown. The invention finds that the polymorphic site is obviously associated with the salt tolerance of the brassica napus for the first time, provides a powerful molecular tool for solving the problems of difficulty in phenotype identification, long period and low efficiency in salt tolerance breeding of the brassica napus, can accurately screen salt-tolerant materials in the early stage, and greatly accelerates the breeding process of new varieties of the salt-tolerant brassica napus.

The invention discloses a scophthalmus maximus anti-edwardsiella tarda SNP molecular marker and application thereof, and belongs to the technical field of molecular breeding and biology. The nucleotide sequence of the SNP molecular marker is shown as SEQ ID No.1, and the polymorphic site of the SNP molecular marker is A / C. The invention further provides application of the SNP molecular marker in screening of turbots with the Edwardsiella tarda resistant character, and the CC genotype turbots are individuals with the Edwardsiella tarda resistant character. By utilizing the SNP molecular marker provided by the invention, DNA level selection can be carried out in the early stage of fish fries, interference of environmental factors is avoided, the accuracy and efficiency of breeding are remarkably improved, and the breeding period is shortened. The molecular marker is remarkably verified in an independent verification group through linear regression analysis, genotype-phenotype association is stable and reliable, false positive is eliminated, and the molecular marker has a good market application prospect.

This invention belongs to the field of molecular marker-assisted selection technology for pig breeding and pigs, specifically involving molecular markers related to pork quality traits and their applications. This invention will be located in... PPP3CB 5' flanking promoter region of the gene InDel Polymorphic sites are associated with pork quality traits including water loss rate, water holding capacity, and intramuscular fat. InDel When the genotype at the polymorphic locus is TT, the pork has a lower water loss rate, a higher water holding capacity, and a higher intramuscular fat content. InDel InDel When the genotype of a polymorphic locus is deleted, the pork has a higher water loss rate, lower water holding capacity, and lower intramuscular fat content. This invention enables early prediction and selection of meat quality traits that can only be measured after slaughter, during the early stages of pig growth and development. It not only allows for live detection and screening of pork quality traits but also significantly shortens the generation interval, accelerates the breeding process, and provides technical support for early pig breeding.

The application discloses application of a CALD1 gene SNP molecular marker in evaluation of chicken feed conversion rate traits and belongs to the technical field of chicken genetic breeding. The SNP molecular marker is located at the 401th nucleotide sequence shown in SEQ ID NO. 1, the 62383600th site of the first chromosome of a chicken, the RS number is rs732824512, and the base polymorphism is A or G. The polymorphic site is significantly related to the feed conversion rate traits of the chicken, the SNP molecular marker genotypes from high to low are GG, AG and AA in turn, the feed utilization performance of the chicken in the fast growth period can be more accurately judged, the chicken feed conversion rate traits can be early screened, the screening cost can be greatly reduced, the genetic breeding process can be accelerated, the breeding efficiency can be effectively improved, and the application has high economic application value and scientific research value.

The present invention provides a molecular marker associated with resistance to Mycoplasma pneumonia lesions in sheep and its application. The molecular marker was screened from the FOXF1 gene in a GWAS of lung tissue pathology scores. DNA was extracted from sheep blood, and the polymorphic sites of 203 Hu sheep were detected using KASPar primers. A least squares model was established, and the genotypes of the polymorphic sites in the 203 Hu sheep were associated with the pneumonia lesion phenotypic data. Ultimately, it was determined that the FOXF1 gene and its related SNPs screened by the present invention can be used as molecular markers associated with resistance to Mycoplasma pneumonia lesions in sheep. The molecular markers associated with resistance to Mycoplasma pneumonia lesions provided by the present invention can be used to screen high-quality meat sheep with high resistance to Mycoplasma pneumonia, providing a genetic engineering method for rapid screening of disease-resistant sheep breeding, and having significant practical application value.

This invention discloses a method for accurately assessing the germplasm purity of Fujian oysters, comprising the following steps: Step 1, acquiring high-coverage whole-genome resequencing data of the oyster individual to be tested; Step 2, comparing the resequencing data with the Fujian oyster reference genome and identifying the nucleotide base types of the individual to be tested; Step 3, assigning a score to each specific single nucleotide polymorphism site and accumulating the scores of all sites to obtain a total score; Step 4, calculating the Fujian oyster germplasm purity value of the individual to be tested based on the total score. This invention utilizes high-coverage genome resequencing to screen for single nucleotide polymorphism sites throughout the Fujian oyster genome and compares them with the genome sequence of Pacific oyster to identify highly reliable Fujian oyster genome-specific nucleotide bases, constructing a purebred Fujian oyster genome sequence site set, and achieving efficient and accurate quantitative assessment of Fujian oyster germplasm purity by calculating the percentage of purebred sites in the Fujian oyster genome.

The invention relates to a primer group for detecting TOMM40-APOE-APOC1 gene variation, a kit and a detection method. The primer group comprises the following primer groups: (I) SEQ ID NO: 1 and SEQ ID NO: 2; (II) SEQ ID NO: 3 and SEQ ID NO: 4. According to the invention, the full length of the TOMM40-APOE-APOC1 gene is amplified and enriched by adopting a long fragment amplification technology, the exon and intron of the gene are simultaneously sequenced by applying a three-generation sequencing technology, all known and unknown variation types such as SNV, InDel, SV, dynamic mutation and the like are detected, and accurate, rapid and high-throughput detection of the variation of the TOMM40-APOE-APOC1 gene is realized; meanwhile, by means of bioinformatics analysis, polymorphic sites most related to the Alzheimer's disease (AD) are analyzed, and gene typing is achieved.

A calculation method and matching system for calculating disease risk based on genotype data for each of n polymorphic loci are provided. [Solution] In the matching system 1, the disease risk score calculation means 113 of the information processing unit 11 calculates the disease risk score as the sum of the values ​​obtained by multiplying the number of disease-associated alleles (effect alleles) at each polymorphic locus by the phenotype severity of the disease-associated alleles at each polymorphic locus, based on the genotype data of each of n polymorphic loci in an individual organism.

The application relates to a method for rapid parentage identification by linkage block of polymorphic loci and application thereof, and the like. The method comprises the following steps: establishing a linkage database of polymorphic loci, obtaining low-depth WGS sequencing data of a sample, obtaining a mapping relationship between a point locus and linkage polymorphism, and performing parentage identification according to the low-depth WGS sequencing data and the mapping relationship between the point locus and the linkage polymorphism and taking a plurality of loci constituting the linkage polymorphism as a unit. The method has a short cycle, can realize parentage identification results within 24 hours without specific regional polymorphic locus capture, and has a wide application prospect.

A method for evaluating fetal DNA concentration (cffDNA) in maternal blood during pregnancy through polymorphic locus linkage block, comprising: obtaining low-depth WGS sequencing data of the sample; obtaining a mapping relationship between the locus and the linkage polymorphism; and calculating the concentration according to the low-depth WGS sequencing data and the mapping relationship between the locus and the linkage polymorphism and taking a plurality of loci constituting the linkage polymorphism as a unit. Wherein, the mapping relationship between the locus and the linkage polymorphism can be obtained by processing public genome WGS data, processing public linkage polymorphism block data or processing a large amount of high-depth WGS measured data. The present application is based on low-depth WGS data, and the heterozygosity of the linkage SNP block can be used to calculate the cffDNA concentration in the maternal blood during pregnancy, which is not affected by the fetal gender in the actual application of NIPT, does not require the father's sample and does not require additional experiments, has high stability, high performance and low cost.

The invention discloses a KASP molecular marker related to the melon length character, a detection primer and application of the KASP molecular marker and the detection primer, and belongs to the field of molecular assisted genetic breeding. An A / G polymorphic site related to the fruit length character is identified at the 15150285th site of the No.13 chromosome of the towel gourd, a set of specific primer combination for KASP typing is developed and synthesized based on the site, the fruit length character can be accurately identified in the seedling stage of the towel gourd, and the primer combination can be stably applied to towel gourd breeding populations and diversified germplasm resources and has a wide application prospect. The defects that traditional breeding depends on phenotypic selection, is long in period and low in efficiency and is easily influenced by the environment are effectively overcome. The application of the method can shorten the breeding cycle of the length character of the loofah fruit and accelerate the breeding process of a new loofah variety meeting the market demand.

The application belongs to the field of agricultural biotechnology, and relates to a rice high-yield salt-tolerant molecular marker and application thereof. The rice high-yield salt-tolerant molecular marker is located at 615,560 of rice reference genome IRGSP1.0 chromosome 6, and a polymorphic site is G / A. The high-yield salt-tolerant characteristics of the germplasm carrying A nucleotide allelic variation are significantly lower than those of the germplasm carrying G nucleotide allelic variation, specifically, the yield of the GG genotype is the highest, the yield of the GA genotype is in the middle, and the yield of the AA genotype is the lowest. The molecular marker and the corresponding identification method can accurately and rapidly identify the genotype in the precise design of the high-yield salt-tolerant rice, reduce the cost of phenotype identification in the later field test, and promote the application of the rice precise design technology in breeding.

The invention discloses application of an RNASEH2B gene SNP molecular marker in evaluation of chicken growth and slaughter traits, and belongs to the technical field of chicken genetic breeding. The SNP molecular marker is located at the 352 site of a nucleotide sequence as shown in SEQ ID NO.1, and the base polymorphism is C or T. The polymorphic site is remarkably related to chicken growth and slaughter traits, SNP molecular marker genotypes with the traits from high to low are TT, CT and CC in sequence, the final change of the weight and slaughter performance in each stage in the future development process of the chicken can be accurately judged, the SNP molecular marker can be used for early screening of the chicken growth and slaughter traits, the screening cost is greatly reduced, and the screening efficiency is improved. The genetic breeding process is accelerated, the breeding efficiency is effectively improved, and high economic application value and scientific research value are achieved.

The application discloses a functional molecular marker method of rice panicle neck small vascular bundle number gene LOC_Os07g49460 and application thereof, relates to the technical field of rice molecular breeding, and has the technical scheme as follows: a SNP27810 marker is located at the physical position (rs7_29627810) of the 7th chromosome of rice 29627810, the base is a A-G polymorphic site, when the site is AA, the number of rice panicle neck small vascular bundles is more, and when the site is GG, the number of rice panicle neck small vascular bundles is less. The application uses 4.8M high-density SNP genotype data and rice panicle neck small vascular bundle number phenotype data to perform whole genome association analysis (GWAS) and locate a QTL qSVN7 affecting the number of panicle neck small vascular bundles, identifies a candidate gene LOC_Os07g49460 regulating the number of rice panicle neck small vascular bundles, verifies the gene function by constructing a transgenic material, identifies a variation site on the LOC_Os07g49460 gene and the phenotype by using correlation analysis based on the candidate gene, and develops a corresponding functional molecular marker based on the variation site. The functional molecular marker method can be used in rice molecular marker assisted selection breeding.

This invention discloses a SNP molecular marker for resistance to Edwardsiella tarda in turbot and its application, belonging to the fields of molecular breeding and biotechnology. The nucleotide sequence of the SNP molecular marker is shown in SEQ ID No. 1, and the polymorphic site of the SNP molecular marker is A / C. This invention also provides the application of the SNP molecular marker in screening turbot with resistance to Edwardsiella tarda; turbot with the CC genotype are individuals with resistance to Edwardsiella tarda. Using the SNP molecular marker provided by this invention, DNA-level selection can be performed in the early stages of fish fry development, unaffected by environmental factors, significantly improving the accuracy and efficiency of breeding and shortening the breeding cycle. The molecular marker was significantly validated in an independent validation population through linear regression analysis, demonstrating stable and reliable genotype-phenotype association, excluding false positives, and showing good market application prospects.

The invention belongs to the technical field of hybrid capture and high-throughput sequencing, and particularly relates to a probe combination for unbiased enrichment of nucleic acid as well as a design method and application of the probe combination. The probe is only combined with sequences on the two sides of a polymorphic site and is not directly combined with the polymorphic site, so that the combination capacity of different allele fragments has no difference, hybridization capture bias is eliminated, and the allele frequency in an enriched product is closer to a true value. On the basis, the length of a region where the probes are combined with the target is set to be 20-40 basic groups, and sequences of which the two sides are combined with other probes are combined, so that a plurality of probes can quickly form a stable complex with the target fragment, the experiment time is shortened, and the experiment steps are simplified. Meanwhile, the area where the probe is combined with the target is 20-40 basic groups, and a sufficient number of probe combinations are provided for relatively short target fragments, so that the capture efficiency of the target fragments generated by different fracture sites around the polymorphic site is ensured.

This invention relates to the field of pig selective breeding technology, and particularly to a SNP molecular marker, primers, and applications related to the IFITM1 gene and inter-sex disease in pigs. The nucleotide sequence of this molecular marker is SEQ ID NO:1, and the 32nd base Y in the nucleotide sequence of the SNP molecular marker is a polymorphic site. At this polymorphic site, individuals with genotypes TT and TC exhibit inter-sex disease characteristics, while individuals with genotype CC do not exhibit inter-sex disease characteristics. The SNP molecular marker is located in the second exon of the IFITM1 gene on pig chromosome 2. This SNP molecular marker is closely related to the inter-sex disease trait in pigs. By detecting the SNP site using the primers disclosed in this invention, individuals carrying the pathogenic gene can be screened for use in breeding selection of pigs to prevent the spread of inter-sex diseases in pigs.

This invention relates to the field of pig selective breeding technology, and particularly to a SNP molecular marker, primers, and applications related to the NOBOX gene and intersex pigs. The nucleotide sequence of this SNP molecular marker is SEQ ID NO:1, and the 231st base S in the nucleotide sequence of the SNP molecular marker is a polymorphic site; at this polymorphic site, individuals with genotypes CC and CG exhibit abnormal sex development, while individuals with genotype GG exhibit normal sex development. The primers of this invention include F1 and a downstream primer R1. The SNP molecular marker of this invention is closely related to intersex disease traits in pigs and can be effectively used in breeding pigs to prevent abnormal sex development, achieving eugenic goals in pigs, and also providing a reference for human sex development abnormalities.

The invention relates to an SNP (Single Nucleotide Polymorphism) molecular marker related to the ATP (Adenosine Triphosphate) concentration of sperms of breeding rabbits and application of the SNP molecular marker. The nucleotide sequence of the SNP molecular marker is shown as SEQ ID NO: 1. In the sequence, the 141 basic group from the 5'end is a C / G polymorphic site, and the ATP concentration of sperms of breeding rabbits with genotypes of homozygous GG and heterozygous CG at the site is obviously higher than that of sperms of individual breeding rabbits with genotypes of homozygous CC. The invention also provides a primer pair for detecting the SNP molecular marker, and application of the SNP molecular marker, the primer pair and the like in molecular marker-assisted breeding of breeding rabbits. According to the invention, the SNP marker related to sperm energy metabolism is explored in Fujian local breeding rabbits for the first time, and a molecular basis is provided for breeding rabbit breeding; through early genotyping, high-energy metabolism individuals can be quickly screened, and the artificial insemination breeding efficiency is improved.

The invention belongs to the technical field of molecular biology, and relates to a primer pair, a kit and a detection reagent for detecting the genotype of an rs339725582 site of a pig chromosome 2 and application of the primer pair, the kit and the detection reagent. The primer pair comprises an upstream primer and a downstream primer, the sequence of the upstream primer is as shown in SEQ ID NO: 2, and the sequence of the downstream primer is as shown in SEQ ID NO: 3. The primer pair provided by the invention can be applied to marker-assisted selection of pork color L * value traits, and pig groups or strains with moderately high pork color L * value are screened by identifying genotypes of polymorphic sites of primer pair amplification products. Establishment of the group or strain can improve the L * value of pork color and produce more social and economic benefits.