SNP (single nucleotide polymorphism) marker correlated with characteristic of short stature of Chinese domestic horses and application of SNP marker

A technology of Chinese family and traits, applied in the field of genetic biology, can solve the problems of lack of breeding markers, low degree of selection, and low degree of development and utilization, and achieve the effect of promoting the breeding process, easy operation, and accurate and reliable methods

Pending Publication Date: 2016-06-29
INST OF ANIMAL SCI CAAS
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, due to the low level of domestic pony breeding, the lack of breeding markers, and the low degree of development and utilization, the resource advantages of pony horses in my country cannot be transformed into economic advantages.
At present, foreign countries have located HMGA2 and other gene loci that

Method used

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  • SNP (single nucleotide polymorphism) marker correlated with characteristic of short stature of Chinese domestic horses and application of SNP marker
  • SNP (single nucleotide polymorphism) marker correlated with characteristic of short stature of Chinese domestic horses and application of SNP marker
  • SNP (single nucleotide polymorphism) marker correlated with characteristic of short stature of Chinese domestic horses and application of SNP marker

Examples

Experimental program
Comparison scheme
Effect test

Example Embodiment

[0041] Example 1 Identification of Chinese horse TBX3 gene polymorphism sites.

[0042] 1.1 Extraction of genomic DNA from the blood of Chinese horses to be tested

[0043] 127 ponies (including 37 from Debaodi, 31 from Baise, 31 from Luoping, 11 from Guizhou, and 17 from Wenshan) and 150 normal-height horses (including 30 from In the Tibetan area, 45 blood samples were from the northwest, 32 from Inner Mongolia, and 43 from the northeast), and the genomic DNA in the blood was extracted by conventional methods.

[0044] 1.2 Amplify nucleotide fragments containing SNP sites: Design primers according to the sequence of the TBX3 gene locus (gi194246389:18100500-18101500EquuscaballusisolateTwilightbreedthoroughbredchromosome8, EquCab2.0, wholegenomeshotgunsequence) included in the NCBI database, including forward primer F: 5'-CCAACAACACCTGCCTTTTT- 3' and reverse primer R: 5'-GCGACTTCGAAGAGGAGAAA-3', using the genomic DNA in 1.1 as a template, amplify the nucleotide fragment where...

Example Embodiment

[0050] Example 2 Correlation analysis and detection application of different genotypes and height of Chinese horses.

[0051] According to the method in Example 1, the genomic DNA samples of 32 pony horses, 32 Yili horses and 32 Mongolian horses were extracted for DNA chip typing detection. The result is as image 3 shown. Genome-wide association analysis was performed using FDR correction and "adaptive" model in PLINK software, and it was found that the above SNP loci were significantly associated with height (P<7.1e-11). The frequency of allele A is as high as 80.65% in pony, but only 18.85% in Yili horse and Mongolian horse. Genotype AA only appeared in ponies, and the average height of horses with genotype AA was significantly shorter than that of horses with genotype GG.

Example Embodiment

[0052] Example 3 An expanded population analysis was performed on the polymorphic sites of the TBX3 gene locus in 277 Chinese horses. The chi-square test of R software was used for analysis, and the frequency of allele A of the above SNP loci in pony was significantly higher than that of allele A in other normal-height horses (non-pony) (P<2.2 e-16). The correlation between the allele A of the SNP locus and the short stature of Chinese horses was further verified (as shown in Table 1).

[0053] Table 1 Genotype frequency and allele frequency of SNP loci in Chinese pony and non-pony breeds

[0054] Phenotype

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Abstract

The invention relates to an SNP (single nucleotide polymorphism) marker correlated with the characteristic of short stature of Chinese domestic horses. The SNP marker is located in the 18,101,000th base pair of the chromosome 8 of a horse. The SNP marker correlated with the characteristic of short stature of Chinese domestic horses and the application of the SNP marker have the advantages as follows: (1) the provided molecular marker is free from limits of age, sex and the like of the Chinese domestic horses and can be used for early-stage selection of the Chinese domestic horses, even the Chinese domestic horses that are just born can be accurately screened, and the breeding progress of the superior pony variety in Chinese domestic horses can be remarkably promoted; (2) a method for detecting the SNP of TBX3 genes of the Chinese domestic horses is accurate, reliable and simple and convenient to operate; (3) detection of SNP sites of the TBX3 genes of the Chinese domestic horses provides a scientific basis for marker assisted selection of the height of the Chinese domestic horses.

Description

technical field [0001] The invention belongs to the field of genetic biology, and specifically relates to a SNP marker related to the dwarf trait of Chinese horses and its application. Background technique [0002] SNP single nucleotide polymorphism site mainly refers to the polymorphism of DNA fragments caused by the variation of a single deoxynucleotide on the genome deoxynucleic acid (DNA) sequence. The polymorphism of SNP only involves the variation of a single base, and the expression forms include substitution, insertion and deletion. [0003] SNP detection methods currently commonly used include Sanger sequencing, DNA chips, time-of-flight mass spectrometry, and the latest high-throughput next-generation sequencing technologies. As a genetic marker, SNP has been widely used in research fields such as gene mapping, cloning, genetic breeding and genetic diversity. [0004] Transcription factor TBX3 (T-Boxtranscriptionfactor3) is one of the key genes regulating growth ...

Claims

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Application Information

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IPC IPC(8): C12Q1/68C12N15/11
CPCC12Q1/6888C12Q2600/124C12Q2600/156
Inventor 马月辉蒋琳刘雪雪阿地力江·卡德尔浦亚斌何晓红
Owner INST OF ANIMAL SCI CAAS
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