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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 affect the body size traits of ponies through genome-wide scanning. However, previous studies have also shown that domestic and foreign ponies have their own independent formation mechanisms. Therefore, it is necessary to develop specific molecular markers for domestic ponies , applied to domestic pony breeding

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

Embodiment 1

[0041] Example 1 Identification of polymorphic sites in the TBX3 gene of Chinese national horses.

[0042] 1.1 Extract the 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 horses of normal height (including 30 from In the Tibetan area, 45 horses came from Northwest China, 32 horses came from Inner Mongolia, and 43 horses came from Northeast China). Genomic DNA in the blood was extracted by conventional methods.

[0044] 1.2 Amplify the nucleotide fragment containing the SNP site: design primers according to the sequence of the TBX3 gene locus recorded in the NCBI database (gi194246389:18100500-18101500EquuscaballusisolateTwilightbreedthoroughbredchromosome8, EquCab2.0, wholegenomeshotgunsequence), including forward primer F: 5'-CTTAACAACACCTGC 3' and reverse primer R: 5'-GCGACTTCGAAGAGGAGAAA-3', use the genomic DNA in 1.1 as a template to ampl...

Embodiment 2

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

[0051] According to the method in Example 1, the genomic DNA samples of 32 parts of pony, 32 parts of Yili horse and 32 parts of Mongolian horse are extracted and detected by DNA chip, and the genotyping of TBX3 gene is as sequence 489bp site shown in SEQIDNO.1 The result is as image 3 shown. Using FDR correction and "adaptive" model in PLINK software for genome-wide association analysis, it was found that the above SNP loci were significantly associated with height (P<7.1e-11). The frequency of allele A in pony horses was as high as 80.65%, but only 18.85% in Yili horses and Mongolian horses. Genotype AA occurs only in ponies, and horses with genotype AA are significantly shorter in average height than horses with genotype GG.

Embodiment 3

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

[0053] Table 1 The genotype frequencies and allele frequencies 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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