95 results about "Allelotype" patented technology

The invention discloses a method and system for polymerase chain reaction sequencing-based typing (PCR-SBT). The method comprises the following steps: a heterozygote site and a base sequence to be typed are interpreted through a computer program according to a sequencing result; the base sequence to be typed is compared to a typing database of a corresponding site, an alignment position relation between the base sequence to be typed and reference sequences in the typing database is recognized; an allelic genetype in the typing database is searched, a penalty score of the allelic genetype in the typing database is obtained according to a sequencing strategy; and a candidate type group set is obtained according to the penalty score of the allelic gene type in the typing database. In the SBT method and system provided by the invention, automatic recognition of candidate genetypes can be achieved through a computer and other devices, thereby improving typing efficiency; and the convenience is provided for confirmation and modification of typing of typing personnel through imaging interface display and other technical means, thus typing accuracy and typing efficiency are provided.

The invention discloses a PCR (Polymerase Chain Reaction) molecular marking method for identifying allele mutation of rice long-grain gene qGL3, and belongs to the technical field of agro-biological engineering. According to the PCR molecular marking method, four specific molecular marking primers are designed and synthesized for PCR amplification of DNA of different rice based on the difference of long-grain and large-grain variety TD70 and short-grain and small-grain variety Kasalath on the nucleotide base sequence of the long-grain gene qGL3, the amplified product is subjected to electrophoresis detection with 2.0% of agarose gel, and DNA brands of different dimension represent different allele types of qGL3 after DuRed nuclear acid developing. With the adoption of the molecular marking method, the difference of different alleles of the long-grain gene qGL3 in rice germplasm resources or breeding population can be quickly and accurately identified; in addition, the selection efficiency for the long-grain homozygous genotype qGL3-TqGL3-T is obviously improved; and therefore, the coordinative improvement of the appearance quality and output traits of rice can be realized.

The invention discloses a microsatellite instability detection and prediction method, a related site screening method, a model construction method and an application. The site screening method comprises the following steps: i) determining a microsatellite instability predicted value of a candidate microsatellite site in a sample; and/or ii) screening sites or site combinations for microsatellite instability detection by using one or more indicators including the microsatellite instability predicted value of the candidate microsatellite site; wherein the microsatellite instability predicted value is a quantified value of an abundance difference between a major allele type and a minor allele type in the candidate microsatellite site. The method provided by the invention is high in accuracy,and can accurately and stably detect the MSI state only on the basis of a single tumor sample.

The invention relates to a detection method of HLA (Human Leukocyte Antigen)-B*58:01 allele. The detection method comprises the following steps: providing a mixture of a sample to be tested, a nucleic acid amplification system and a fluorescence detection system; circularly amplifying target polynucleotide through an amplified reaction; indirectly combining a fluorescence generating group and an amplified target polynucleotide sequence; and detecting the fluorescent amount generated by the fluorescence generating group so as to determine existence of the target polynucleotide and the relative amount thereof. The invention further discloses a kit for detecting the allele. The kit comprises a plurality of sealed centrifuge tubes which are respectively filled with a reaction liquid 1, a reaction liquid 2, a reaction liquid 3, an EZ Taq enzyme mixed liquid, a standard liquid 1 and a standard liquid 2 as well as the kit which separates and packages the centrifuge tubes in a centralized manner. The kit and the detection method provided by the invention are simple and convenient to operate, short in time consumed, strong in specificity and high in sensitivity. The kit and the detection device can be widely applied to detecting the HLA-B*58:01 allele and clinically avoiding severe untoward effects of skins of the HLA-B*58:01 allele patients caused by using allopurinol.

The invention belongs to the fields of molecular biotechnology and molecular marker technology, and relates to applications of an SNP molecular marker in researches on yean trait of sheep and in sheepbreeding. The site of the sheep SNP molecular marker is shown as SEQ ID NO.1, and nucleic acid single-base mutation at the 193rd site of the sequence fragment is named as G765A. The SNP molecular marker corresponds to G>A mutation at the 765bp of a coding region sequence of a BMPR-IB gene (accession number: NC-019463.2) on the No.6 sheep chromosome, which is issued, on GeneBank. According to theinvention, by optimizing a dominant allele type of the SNP molecular marker, a genetic progress of yean trait of the Huyang sheep can be accelerated and breeding time of reproduction trait of the Huyang sheep can be shortened, so that reproduction cost is reduced, and economic benefits of mutton sheep breeding industry are effectively improved.

The invention discloses a cultivation method and application of a recessive white feather new strain of Xiaoxiang chicken in southeast of Guizhou province. The method includes the following steps: (1) selfcrossing breeding is carried out on white feather chicken separated from the Xiaoxiang chicken in southeast of Guizhou province to obtain a F1 generation; (2) according to molecule marker-assisted selection, individuals of recessive homozygosis allelic genotypes of II are screened from the F1 generation; (3) test mating between a sanhuang chicken pure line or other colored feather chicken pure lines and the F1 is carried out, the dominance white feather individual and the colored feather individual which are separated from the F1 are rejected, recessive pure individual cock and hen are bred in cooperation with detection results in the step (2), and then self-reproducing is carried out to obtain B; according to the method in the step (3), repeated test mating and breeding are carried out on W in the step (3), and the separated dominance white feather individual and the separated colored feather individual are rejected continuously; selfcrossing breeding and group extending are carried out on the selected dominance white feather individual, a family is formed, and the recessive white feather new strain is cultivated.

The invention discloses a susceptible/resistant MUC 13 molecular marker capable of identifying F4 weaning brash of piglets of western pig breeds and application thereof to genetic improvement of pig breeds. The molecular marker firstly identifies single nucleotide polymorphism (SNP) A157G, and then adopts a SNaPshot method to perform genotype judgment on the SNPA157G. The invention detects a polymorphic site through modern molecular biology technology, utilizes the marker assisted selection (MAS) to select advantageous allelotype reserved individual breed, can obviously improve weaning brash resistance of species groups, and greatly reduces the death rate of the piglets.

The invention relates to a molecular marker for identifying an allelotype of a rice chalk gene Chalk5. Two pairs of specific PCR (polymerase chain reaction) primer molecular markers, namely Chalk12 and NChalk12 as well as Chalk22 and NChalk22, are developed in accordance with functional mutant sites of dominant and recessive alleles of a major gene Chalk5 which is capable of significantly relieving rice chalk so as to improve the appearance quality of rice. In addition, the invention relates to a method for identifying the allelotype of the rice chalk gene Chalk5, wherein DNAs of various rice plants are amplified by virtue of the molecular marker. The molecular marker and the method disclosed by the invention not only can accurately identify whether the rice contains the rice chalk gene Chalk5 or not but also can further distinguish homozygote and heterozygote of the Chalk5 gene, so that the selection efficiency of rice grain weight is improved.

The invention relates to the plant genetic engineering field, in particular to clone of a pleiotropic gene Ghd8 which affects yield, florescence and plant height of rice grain. In the invention, the gene Ghd8 is separated and cloned by experiments such as establishment of a near-isogenic line of a target gene, preliminary location, comparative sequencing, genetic transformation and complementation and the like, wherein the sequence of the gene Ghd8 is shown as SEQ ID NO:2. Compared with a recessive allelic single plant, the yield of a dominant allelic single plant is increased by 58%, the plant height thereof is increased by 25.6%, but the heading stage thereof is only increased by 9 days. By means of results of Ghd8 main mutation site and trait correlation analysis and haploid cluster analysis of protein sequences of different varieties, the near-isogenic lines of different allelic types are established to obtain four favorable Ghd8 allelic types, wherein, the Ghd8-9311 and Ghd8-ruf allelic types can increase yield of the rice grain but not delay blossoming, thus being applicable to breeding the rice grain in areas with good light and temperature conditions; and Ghd8-MH63 and Ghd8-Nip allelic types are not photosensitive, thus being applicable to increasing yield and breeding the rice grain in areas under a short-day condition.

The invention discloses a genetic testing method for risk of causing serious adverse reactions of carbamazepine. The genetic testing method comprises the following steps: collecting oral mucosa cells of a subject, extracting genome DNA (deoxyribonucleic acid) of the oral mucosa cells, testing HLA (human leukocyte antigen)-B*1502 allelotype of the genome DNA and evaluating the risk of causing the serious adverse reactions of the skin of an anti-epileptic medicament-carbamazepine, thereby providing reference basis for clinical individual medication.

The invention belongs to the field of biotechnology, and particularly relates to a method for qualitatively detecting HLA-B*1502 gene with a PCR-SSP method and a clinical detection kit. The method comprises the following steps of: finding 6 specific areas capable of effectively identifying HLA-B*1502 allele type; designing 6 specific primers covering the 6 specific areas, and screening out a high-specificity primer pair applicable to PCR-SSP; and adding dUTP and UDG enzyme (uracil-DNA glycosylase) into a reaction system to solve the problem of PCR cross pollution and further improve the detection reliability. An HLA-B*1502 quick and convenient qualitative detection kit is researched and developed accordingly. The method and the clinical detection kit provided by the invention have the advantages of convenience in operation, short time, strong specificity, high accuracy, low cost and the like, and is suitable for realizing individual safe and reasonable drug use through HLA-B*1502 genotype detection before the Chinese or Asian epileptics take carbamazepine and phenytoin sodium.

The invention discloses a KASP functional molecular marker of a rice blast resistance gene Pi2 and an application of the KASP functional molecular marker, and relates to the technical field of rice breeding. The KASP functional molecular marker is marked as variant GCA GGA/GTG TTA on codons in 787-poisition and 788-poisition of the gene Pi2. With the adoption of the KASP functional molecular marker as well as primers and a kit thereof, an allelotype of the rice blast resistance gene Pi2 of a breeding material can be detected in the early stage (a seed or seedling stage), rice blast resistanceof the breeding material is predicted, and the breeding material is accurately screened and is not required to be planted in a disease nursery for evaluation. Therefore, genetic improvement of a ricevariety with rice blast resistance is promoted, and efficiency of variety breeding is improved. An SNP (single nucleotide polymorphism) site is detected with a KASP method, the detection method is simple to operate and low in cost, a detection result is accurate and reliable, and the KASP functional molecular marker is environmentally friendly, harmless to a human body and suitable for high-throughput large-scale commercial breeding application.

A single nucleotide polymorphic locus of a1,2- fucose transfer enzyme gene affecting obviously resistant dropsy and diarrhea. It identifies single nucleotide polymorphic locus(SNP) c228T firstly and then judges type of SNPC 228T gene by way of PCR-SS CP,ARMS-PCR and so on.

The invention provides a warfarin sensitivity gene detection kit (an electrochemical gene sensor method) which is a kit used for rapid detection of a warfarin sensitivity gene in a human genome by using electrochemical gene sensor technology. The kit is applicable to qualitative detection of *2, *3 and *5 allele types of the cytochrome CYP2C9 gene and 1639G>A and 1173C>T allele types of vitamin K epoxide reductase complex 1 (VKORC 1) in clinical specimens like human peripheral blood and a variety of tissue and cells; the above-mentioned genotypes are helpful for clinical discrimination of patients with increased drug susceptibility to warfarin and enable the dosage range of warfarin to be rapidly determined, curative effects to be guaranteed and the risk of hemorrhage to be reduced. Combination of warfarin gene detection results with INR monitoring enables the maintenance dose of warfarin to be effectively and rapidly adjusted, thereby lowering down the risk of hemorrhage while achieving curative effects.

The invention relates to an HLA typing method and equipment based on Sanger sequencing. The HLA typing method comprises the following steps: acquiring sequencing data of a gene to be identified; according to the sequencing data of the to-be-identified gene, based on a pre-trained base identification model, obtaining a correct base signal of each site of the to-be-identified gene; and interpreting a nucleic acid sequence of the to-be-identified gene, comparing the nucleic acid sequence with a reference sequence to obtain a difference site, and comparing by adopting bit operation based on a pre-arranged allele type and the difference site to obtain an HLA typing result. Because the base recognition model is trained by taking sequencing data of abnormal bases as sample data, the base recognition model obtained by training can recognize abnormal bases such as low-quality heterozygous bases and pollution signals in Sanger sequencing data, and an allele typing result is quickly obtained by using bit operation; and the problems of low speed and low accuracy of manual recognition are solved.

The invention provides an SNP molecular marker related with pig growth velocity and application thereof. According to the SNP molecular marker disclosed by the invention, a TRPC1 gene is utilized as acandidate gene which can affect the pig growth velocity; a sequencing technique is utilized to screen and identify SNP loci related with the pig growth velocity to obtain 2 SNP loci which can affectthe pig growth velocity and a gene type effect; the 2 SNP loci are respectively arranged (595bp)th and (539bp)th positions of a sequence shown in SEQ ID NO.1; allelotype of the 2 SNP loci is C and T;furthermore, alleles of C and C and T and T of the 2 SNP loci are completely linked on a genome; thus, any SNP locus can be applied to breeding pig breed growth rate characters; furthermore, the SNP loci cannot be limited by ages, genders and breeds of pigs, can be applied to early breeding of the pigs and can quicken a breeding process.

The invention discloses molecular markers for identifying the PHYB wild type and mutant of a rice phytochrome gene. The nucleotide sequences of the markers related to phyB wild type site detection and phyB mutant site detection are shown as Seq No.1-2 respectively. A primer PHYBF4/PHYBR1 is used for carrying out PCR amplification, and an amplification product is subjected to BamH I digestion and electrophoretic analysis, wherein if the PCR product can not be digested by BamH I and is a 175bp DNA fragment, the PCR product is the wild type phyB, and if the PCR product can be digested by BamH I, and the digestion products are a 25bp DNA fragment and a 151bp DNA fragment, the PCR product is the mutant phyB1. The molecular markers have the advantages that amplification is easy and fast, and cost is low. The molecular markers can be used for effectively, rapidly and reliably identifying the phyB allelotype, and a powerful tool is provided for subsequent application of the phyB mutant in breeding population screening.

The invention belongs to the technical field of molecular biology and discloses a molecular marker for identifying rice grain length characters, an identification method and application. The molecular marker is GS3-TPAP and comprises GS3-TPAP-O-F with the nucleotide sequence shown as SEQ ID NO.1, GS3-TPAP-O-R with the nucleotide sequence shown as SEQ ID NO.2, GS3-TPAP-I-F with the nucleotide sequence shown as SEQ ID NO.3, and GS3-TPAP-I-R with the nucleotide sequence shown as SEQ ID NO.4. The molecular marker can be used for directly identifying two allelotypes of the rice grain length characters of the GS3 gene, the accuracy reaches 100%, the two allelotypes can be distinguished well, influences of environmental conditions are avoided, and the identifying method is low in consumption and suitable for large-scale application and popularization.

The invention discloses a flight mass spectrometry genotyping detection method. The method comprises the following steps: (1) designing three oligonucleotide probes for a SNP site, wherein the 3/endsof a first probe and a second probe are respectively two allelic genes, i.e., allele-specific oligos (ASOs) of a pre-selected SNP site, (2) when the sequence is completely matched with the target sequence, preparing a connection product, (4) carrying out enzyme digestion on the PCR product by using restriction endonuclease, and purifying the product by using streptavidin-coated beads, and (5) transferring the purified product to a 384-well chip. SNP site typing is carried out by adopting MALDI-TOF mass spectrometry, and SNP typing is provided by adopting the method which is simple to operate,low in cost and high in resolution ratio.

The invention discloses a molecular marker primer for rapidly and efficiently identifying a rice salt tolerant gene SKC1 and an application. Specific to the specific difference sites present in the initially reported salt-tolerant (Nona-type) and salt-sensitive (sensitive type) SKC1 gene sequences, a molecular marker primer SKC1-Allele1/ Allele2/Common for distinguishing the salt-tolerant gene type and sensitive type of the rice salt-resistant gene SKC1 is designed, thereby accurately, quickly and efficiently identifying the SKC1 allele, and providing a powerful tool for the subsequent cultivation of a new strain of salt tolerant rice. Compared with the prior art, the method is more rapid and time-saving, saves the time and effort of an agarose electrophoresis test, and a result can be obtained by only needing 30 seconds of fluorescence scanning after a PCR amplification procedure is finished, the result is clear at a glance, and the accuracy is improved.

The present invention provides methods to infer STR allelic genotype from SNPs in a genome by obtaining statistical probabilities for the association of a plurality of SNPs in a genome with a Short Tandem Repeat (STR) locus allele for the genome to obtain a SNP constellation association value.

The invention relates to a functional marker of a maize nuclear male sterility gene ms1, a functional marker developing method and applications of the functional marker. According to the mutation siteof the mutant gene ms1, the functional marker which comprises two functional markers ms1-IN1 and ms1-IN2 is designed to ensure that a maize mutant ms1-alb and the mutant gene ms1 in a maize sterile material transferred from mutant can be specifically detected; and by utilizing the ms1-IN1, the ms1-IN2 or other similar functional markers and functional markers Ms1-1, Ms1-2 or other similar functional markers of a corresponding wild type allele Ms1, the situation of a nuclear male sterility gene Ms1 allele in a sample can be quickly identified through PCR (Polymerase Chain Reaction) detection and agarose gel electrophoresis detection. By utilizing the functional marker designed by the invention, the allele genotypes of the maize nuclear male sterility gene ms1 or a fertile gene Ms1 can be accurately detected and marked; the functional marker can be used for identification of male sterile strains and screening of target single stains; and the functional marker has important application value in maize male sterile strain breeding, sterile hybrid seed production and molecular marker-assisted selection and has important significance for improving maize cross breeding efficiency and seedproduction efficiency, guaranteeing seed production quality and the like.