Application of SNP (Single Nucleotide Polymorphism) molecular marker in identification or auxiliary identification of goat chest circumference

Abstract

The invention relates to the field of molecular markers, in particular to application of an SNP (Single Nucleotide Polymorphism) molecular marker in identification or auxiliary identification of goat chest circumference. The invention provides an SNP (Single Nucleotide Polymorphism) molecular marker related to a goat chest circumference character. The SNP molecular marker comprises SNP01-SNP06; wherein the SNP01, the SNP02 and the SNP04 are all beneficial mutations, and the remarkable dominant genotypes of the SNP01, the SNP02 and the SNP04 are CC, GG and CC respectively; sNP03 and SNP05 are both harmful mutations, and the obvious dominant genotypes are TT and AA respectively; sNP06 is beneficial mutation, and the significant dominant genotype is GG. The SNP molecular marker provided by the invention is related to the chest circumference character of the goat, and the chest circumference character of the goat can be more accurately predicted, so that effective selection is carried out in the breeding process, the breeding efficiency of the goat with larger chest circumference is improved, and a new molecular marker resource is also provided for genetic breeding of other livestock.

Description

Technical Field

[0001] The present invention relates to the field of molecular markers, and particularly to the application of SNP molecular markers in identifying or assisting in identifying the chest girth size of goats. Background Art

[0002] Longling Huangshan goats, as a unique meat - type goat breed in Yunnan Province, their chest girth trait is a key indicator for measuring their early growth potential and meat quality development. In the field of goat genetic improvement, the improvement of chest girth trait has a significant impact on enhancing meat - using value and production efficiency. Facing the current situation of low productivity and low economic efficiency in the global goat industry, traditional phenotypic selection methods mainly rely on phenotypic selection, but this method is inefficient and difficult to accurately predict the phenotypes of offspring, and it can no longer meet the precise requirements of modern breeding. Molecular marker technology, especially single - nucleotide polymorphism (SNP) loci, has become an important tool for identifying molecular markers related to complex traits. SNP loci are polymorphisms of DNA sequences caused by single - nucleotide variations. They are densely distributed in the genome and carry huge amounts of genetic information, and are considered to be genetic markers with the best application prospects. However, there are currently no molecular markers related to the chest girth of goats. Summary of the Invention

[0003] To solve the above problems, the present invention provides the application of SNP molecular markers in identifying or assisting in identifying the chest girth size of goats. The SNP molecular markers provided by the present invention can quickly screen and identify the chest girth traits of 9 - month - old goats and / or 12 - month - old goats, and improve the breeding efficiency of goats with larger chest girths.

[0004] To achieve the above object, the present invention provides the following technical solutions:

[0005] The present invention provides the application of SNP molecular markers in identifying or assisting in identifying the chest girth size of goats, and the SNP molecular markers include: one or more of SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06; SNP01, SNP02, SNP03, SNP04, and SNP05 are related to the chest girth size of 9 - month - old goats; SNP06 is related to the chest girth size of 12 - month - old goats;

[0006] SNP01 is located at position 5025206bp on chromosome 5 of the goat reference genome ARS1.2, the base is T or C, and the chest girth of goats with genotype CC is larger than that of goats with genotype TT or TC;

[0007] SNP02 is located at position 57741042bp on chromosome 5 of the goat reference genome ARS1.2, the base is G or A, and the chest girth of goats with genotype GG is larger than that of goats with genotype AA or AG;

[0008] The SNP03 is located at the 3,048,751bp of chromosome 6 of the goat reference genome ARS1.2, the base is C or T, and the chest circumference of goats with the genotype TT is greater than that of goats with the genotype CC or TC;

[0009] The SNP04 is located at the 62,672,520bp of chromosome 13 of the goat reference genome ARS1.2, the base is T or C, and the chest circumference of goats with the genotype CC is greater than that of goats with the genotype TT or TC;

[0010] The SNP05 is located at the 59,469,971bp of chromosome 19 of the goat reference genome ARS1.2, the base is A or T, and the chest circumference of goats with the genotype AA is greater than that of goats with the genotype TT or TA;

[0011] The SNP06 is located at the 67,375,675bp of chromosome 20 of the goat reference genome ARS1.2, the base is T or G, and the chest circumference of goats with the genotype GG is greater than that of goats with the genotype TT or TG;

[0012] The RefSeq number of the goat reference genome ARS1.2 in the NCBI database is GCA_001704415.2.

[0013] The present invention provides an SNP molecular marker related to the chest circumference trait of goats, including one or more of SNP01, SNP02, SNP03, SNP04, SNP05 and SNP06;

[0014] The nucleotide sequence of the SNP01 is as shown in SEQ ID NO.1 or SEQ ID NO.2;

[0015] The nucleotide sequence of the SNP02 is as shown in SEQ ID NO.3 or SEQ ID NO.4;

[0016] The nucleotide sequence of the SNP03 is as shown in SEQ ID NO.5 or SEQ ID NO.6;

[0017] The nucleotide sequence of the SNP04 is as shown in SEQ ID NO.7 or SEQ ID NO.8;

[0018] The nucleotide sequence of the SNP05 is as shown in SEQ ID NO.9 or SEQ ID NO.10;

[0019] The nucleotide sequence of the SNP06 is as shown in SEQ ID NO.11 or SEQ ID NO.12.

[0020] The present invention provides the use of the SNP molecular markers described in the above technical solution in one or more of the following:

[0021] (1) Identifying or assisting in identifying the chest circumference size of goats; (2) Screening or assisting in screening goats with a large chest circumference; (3) Cultivating or assisting in cultivating goats with a large chest circumference.

[0022] Preferably, the goats include 9-month-old goats and / or 12-month-old goats.

[0023] Preferably, the breed of the goats includes Longling Yellow Goats.

[0024] The present invention provides a method for identifying or assisting in identifying the chest circumference size of goats, comprising the following steps:

[0025] Detecting the SNP molecular markers described in the above technical solution of the goat to be tested;

[0026] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP01 is C, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP01 is T, it is identified as a goat with a small chest circumference;

[0027] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP02 is G, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP02 is A, it is identified as a goat with a small chest circumference;

[0028] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP03 is T, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP03 is C, it is identified as a goat with a small chest circumference;

[0029] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP04 is C, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP04 is T, it is identified as a goat with a small chest circumference;

[0030] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP05 is A, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP05 is T, it is identified as a goat with a small chest circumference;

[0031] When the goat to be tested is a 12-month-old goat, when the 101st base from the 5' end of the SNP06 is G and, it is identified as a goat with a large chest circumference, and when the 101st base from the 5' end of the SNP06 is T, it is identified as a goat with a small chest circumference.

[0032] Preferably, the breed of the goats includes Longling Yellow Goats.

[0033] The present invention provides a method for screening or assisting in screening goats with large chest circumferences, comprising the following steps:

[0034] Detect the polymorphism of the SNP molecular markers described in the above technical solution of the goat to be tested;

[0035] Select and retain goats carrying the CC genotype at the 101st position from the 5'-end of the said SNP01;

[0036] Select and retain goats carrying the GG genotype at the 101st position from the 5'-end of the said SNP02;

[0037] Select and retain goats carrying the TT genotype at the 101st position from the 5'-end of the said SNP03;

[0038] Select and retain goats carrying the CC genotype at the 101st position from the 5'-end of the said SNP04;

[0039] Select and retain goats carrying the AA genotype at the 101st position from the 5'-end of the said SNP05;

[0040] Select and retain goats carrying the GG genotype at the 101st position from the 5'-end of the said SNP06.

[0041] Preferably, the breed of the goats includes Longling Huang goats.

[0042] The present invention provides a method for cultivating or assisting in cultivating goats with large chest circumferences by using the method described in the above technical solution, comprising the following steps:

[0043] Use the selected and retained goats as male or female parents for breeding, and select and retain individuals with relatively more corresponding genotypes in the offspring according to the selection method in the method described in the above technical solution.

[0044] Beneficial effects:

[0045] The SNP molecular markers provided by the present invention are SNP molecular markers related to the chest circumference trait of goats, including one or more of SNP01, SNP02, SNP03, SNP04, SNP05 and SNP06; SNP01 is located at position 5025206 bp on chromosome 5 of the goat reference genome ARS1.2, the base is T or C, and CC is the dominant genotype of the chest circumference trait of 9-month-old goats; SNP02 is located at position 57741042 bp on chromosome 5 of the goat reference genome ARS1.2, the base is G or A, and GG is the dominant genotype of the chest circumference trait of 9-month-old goats; SNP03 is located at position 3048751 bp on chromosome 6 of the goat reference genome ARS1.2, the base is C or T, and TT is the dominant genotype of the chest circumference trait of 9-month-old goats; SNP04 is located at position 62672520 bp on chromosome 13 of the goat reference genome ARS1.2, the base is T or C, and CC is the dominant genotype of the chest circumference trait of 9-month-old goats; SNP05 is located at position 59469971 bp on chromosome 19 of the goat reference genome ARS1.2, the base is A or T, and AA is the dominant genotype of the chest circumference trait of 9-month-old goats; SNP06 is located at position 67375675 bp on chromosome 20 of the goat reference genome ARS1.2, the base is T or G, and GG is the dominant genotype of the chest circumference trait of 12-month-old goats; the RefSeq number of the goat reference genome ARS1.2 in the NCBI database is GCA_001704415.2.

[0046] The SNP molecular markers provided by the present invention are related to the chest circumference trait of goats, and can more accurately predict the chest circumference trait of goats, so as to make effective selections during the breeding process, improve the breeding efficiency of goats with larger chest circumferences, and also provide new molecular marker resources for the genetic breeding of other livestock. Description of the Drawings

[0047] In order to more clearly illustrate the technical solutions in the embodiments of the present invention or the prior art, the following will briefly introduce the drawings required to be used in the embodiments.

[0048] Figure 1 Are the Manhattan plot and QQ plot for the chest circumference trait of 9-month-old goats;

[0049] Figure 2 Are the Manhattan plot and QQ plot for the chest circumference trait of 12-month-old goats;

[0050] Figure 3Association analysis results of genotypes of SNP combinations (SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06) with chest circumference traits; among them, ns indicates no significant difference, * indicates P < 0.05, ** indicates P < 0.01, *** indicates P < 0.001, and **** indicates P < 0.0001. Detailed implementation manners

[0051] The present invention provides the application of SNP molecular markers in identifying or assisting in identifying the chest circumference size of goats. The SNP molecular markers include one or more of SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06; SNP01, SNP02, SNP03, SNP04, and SNP05 are related to the chest circumference size of 9-month-old goats; SNP06 is related to the chest circumference size of 12-month-old goats;

[0052] SNP01 is located at position 5025206 bp on chromosome 5 of the goat reference genome ARS1.2. The base is T or C. The chest circumference of goats with the genotype CC is greater than that of goats with the genotype TT or TC;

[0053] SNP02 is located at position 57741042 bp on chromosome 5 of the goat reference genome ARS1.2. The base is G or A. The chest circumference of goats with the genotype GG is greater than that of goats with the genotype AA or AG;

[0054] SNP03 is located at position 3048751 bp on chromosome 6 of the goat reference genome ARS1.2. The base is C or T. The chest circumference of goats with the genotype TT is greater than that of goats with the genotype CC or TC;

[0055] SNP04 is located at position 62672520 bp on chromosome 13 of the goat reference genome ARS1.2. The base is T or C. The chest circumference of goats with the genotype CC is greater than that of goats with the genotype TT or TC;

[0056] SNP05 is located at position 59469971 bp on chromosome 19 of the goat reference genome ARS1.2. The base is A or T. The chest circumference of goats with the genotype AA is greater than that of goats with the genotype TT or TA;

[0057] SNP06 is located at position 67375675 bp on chromosome 20 of the goat reference genome ARS1.2. The base is T or G. The chest circumference of goats with the genotype GG is greater than that of goats with the genotype TT or TG;

[0058] The RefSeq number of the goat reference genome ARS1.2 in the NCBI database is GCA_001704415.2.

[0059] Through genome-wide association analysis, the present invention screens out SNP loci significantly associated with the chest girth trait of goats and obtains the molecular markers described in the above technical solution, which can more accurately predict the chest girth trait of goats. As Figure 3 shown, SNP01, SNP02, and SNP04 are all beneficial mutations, and the significant dominant genotypes are CC, GG, and CC, respectively; SNP03 and SNP05 are both harmful mutations, and the significant dominant genotypes are TT and AA, respectively; SNP06 is a beneficial mutation, and the significant dominant genotype is GG. The present invention not only provides technical support for the molecular breeding of goats, but also improves the efficiency of goat genetic improvement, and also provides new molecular marker resources for the genetic breeding of other livestock. The six SNP molecular markers in the SNP molecular markers of the present invention can be used alone or in combination. By comprehensively analyzing the genotypes of each molecular marker in the test sample, goats with the genetic potential of excellent chest girth traits can be more accurately screened out, providing rich and accurate information for goat genetic breeding.

[0060] Based on the above advantages, the present invention provides an SNP molecular marker related to the chest girth trait of goats, including one or more of SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06;

[0061] The nucleotide sequence of the SNP01 is as shown in SEQ ID NO.1 or SEQ ID NO.2;

[0062] The nucleotide sequence of the SNP02 is as shown in SEQ ID NO.3 or SEQ ID NO.4;

[0063] The nucleotide sequence of the SNP03 is as shown in SEQ ID NO.5 or SEQ ID NO.6;

[0064] The nucleotide sequence of the SNP04 is as shown in SEQ ID NO.7 or SEQ ID NO.8;

[0065] The nucleotide sequence of the SNP05 is as shown in SEQ ID NO.9 or SEQ ID NO.10;

[0066] The nucleotide sequence of the SNP06 is as shown in SEQ ID NO.11 or SEQ ID NO.12.

[0067] The SNP molecular marker related to the chest girth trait provided by the present invention is a nucleic acid molecule (nucleotide sequence) containing the SNP locus intercepted according to the positioning of the SNP locus in the goat reference genome ARS1.2, and can be used to identify or assist in identifying the chest girth of goats, screen or assist in screening goats with large chest girths, and breed or assist in breeding goats with large chest girths. Those skilled in the art can also intercept other sequences as SNP molecular markers according to the positioning information of the SNP locus in the SNP molecular marker described in the above technical solution in the goat reference genome ARS1.2, which also belongs to the protection scope of the present invention.

[0068] Based on the above advantages, the present invention provides the application of the SNP molecular marker described in the above technical solution in one or more of the following:

[0069] (1) Identifying or assisting in identifying the chest girth of goats; (2) Screening or assisting in screening goats with large chest girths; (3) Breeding or assisting in breeding goats with large chest girths.

[0070] As an implementation manner, the goats include 9-month-old goats and / or 12-month-old goats.

[0071] As an implementation manner, the breed of the goats includes Longling Huangshan goats.

[0072] Based on the above advantages, the present invention provides a method for identifying or assisting in identifying the chest girth of goats, including the following steps:

[0073] Detecting the SNP molecular marker described in the above technical solution of the goat to be tested;

[0074] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP01 is C, it is identified as a goat with a large chest girth, and when the 101st base from the 5' end of the SNP01 is T, it is identified as a goat with a small chest girth;

[0075] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP02 is G, it is identified as a goat with a large chest girth, and when the 101st base from the 5' end of the SNP02 is A, it is identified as a goat with a small chest girth;

[0076] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP03 is T, it is identified as a goat with a large chest girth, and when the 101st base from the 5' end of the SNP03 is C, it is identified as a goat with a small chest girth;

[0077] When the goat to be tested is a 9-month-old goat, when the 101st base from the 5' end of the SNP04 is C, it is identified as a goat with a large chest girth, and when the 101st base from the 5' end of the SNP04 is T, it is identified as a goat with a small chest girth;

[0078] When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5'-end of the SNP05 is A, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5'-end of the SNP05 is T, it is identified as a goat with a small chest circumference.

[0079] When the goat to be tested is a 12-month-old goat, if the base at the 101st position from the 5'-end of the SNP06 is G, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5'-end of the SNP06 is T, it is identified as a goat with a small chest circumference.

[0080] As an implementation mode, the breed of the goat includes Longling Huangshan goats.

[0081] Based on the above advantages, the present invention provides a method for screening or assisting in screening goats with a large chest circumference, including the following steps:

[0082] Detect the polymorphism of the SNP molecular marker described in the above technical solution of the goat to be tested;

[0083] Select and retain the goats carrying the CC genotype at the 101st position from the 5'-end of the SNP01;

[0084] Select and retain the goats carrying the GG genotype at the 101st position from the 5'-end of the SNP02;

[0085] Select and retain the goats carrying the TT genotype at the 101st position from the 5'-end of the SNP03;

[0086] Select and retain the goats carrying the CC genotype at the 101st position from the 5'-end of the SNP04;

[0087] Select and retain the goats carrying the AA genotype at the 101st position from the 5'-end of the SNP05;

[0088] Select and retain the goats carrying the GG genotype at the 101st position from the 5'-end of the SNP06.

[0089] As an implementation mode, the breed of the goat includes Longling Huangshan goats.

[0090] Based on the above advantages, the present invention provides a method for cultivating or assisting in cultivating goats with a large chest circumference by using the method described in the above technical solution, including the following steps:

[0091] Use the selected and retained goats as male or female parents for breeding, and select and retain the individuals with relatively more corresponding genotypes in the offspring according to the selection method in the method described in the above technical solution.

[0092] The method provided by the present invention can increase the frequency of dominant genotypes generation by generation, thereby breeding goats with more dominant genotypes, and further breeding goat breeds with larger chest circumferences. Compared with screening based on phenotypes, the method provided by the present invention can screen according to the detection results of genotypes at 9-month-old goats and / or 12-month-old goats, improving the breeding efficiency of goats with larger chest circumferences.

[0093] To further illustrate the present invention, the application of the SNP molecular markers provided by the present invention in identifying or assisting in identifying the chest circumference size of goats will be described in detail below in conjunction with the accompanying drawings and embodiments, but they should not be construed as limiting the protection scope of the present invention.

[0094] Example 1 Screening of SNP loci related to chest circumference traits in goats

[0095] 1. Sample collection and sequencing

[0096] Collect blood samples of 300 Longling Huangshan goat samples and entrust Beijing Yinuozhongda Biotechnology Co., Ltd. to conduct whole-genome resequencing. Using high-throughput sequencing technology, obtain the genomic data of each sample. At the same time, strictly measure the chest circumference phenotypic indicators of Longling Huangshan goats in accordance with NY / T1236-2023 "Technical Specification for Determination of Production Performance of Breeding Goats".

[0097] 2. Data alignment and SNP locus identification

[0098] In the present invention, the Fastq files returned by the sequencing company are aligned with the ARS1.2 reference genome through the BWA (Version: 0.7.18) software. After alignment, the samtools (Version: 1.20) software is used to generate a bam format file. Then, a VCF file containing all variant information is obtained through the GATK (Version: 4.6.0.0) software. Finally, the VCF file is filtered through Plink software to remove loci with a missing rate above 20% and a minor allele frequency within 0.05, and finally a SNP set containing 10,726,542 variant loci is obtained.

[0099] 3. Genome-wide association analysis

[0100] In the present invention, the emmax software is used to conduct genome-wide association analysis on the chest circumference traits of these 300 goats at 9 months and 12 months of age respectively to identify SNP loci significantly related to the chest circumference traits. SNP loci with a P (p-value) less than or equal to 0.000001 are screened out. The Manhattan plot and QQ plot of the chest circumference trait of goats at 9 months of age are shown in Figure 1 The Manhattan plot and QQ plot of the chest circumference trait of goats at 12 months of age are shown in Figure 2 .

[0101] 4. Extraction of SNP Locus Combinations

[0102] As shown in Table 1, SNP loci with P values less than or equal to 0.000001 were extracted from the total SNP set, forming 16 SNP loci related to the chest circumference trait of 9-month-old Longling Huangshan goats.

[0103] As shown in Table 1, SNP loci with P values less than or equal to 0.000001 were extracted from the total SNP set, forming 7 SNP loci related to the chest circumference trait of 12-month-old Longling Huangshan goats.

[0104] Table 1 Significant SNP Loci Related to Chest Circumference Trait

[0105]

[0106] Note: E in Table 1 is the symbol in scientific notation, representing 10 to the power of n. That is, 4.77E-07 in Table 1 is 4.77×10 -7 , and the same applies to other p-value values.

[0107] 5. Dominant Genotype Combinations

[0108] Significance analysis was performed on the phenotypic values corresponding to the genotypes of the screened significant SNPs. It was found that there were dominant genotypes for SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06, and the statistical results are shown in Table 2. Finally, it was found that SNP01, SNP02, and SNP04 were all beneficial mutations, and the significant dominant genotypes were CC, GG, and CC respectively; SNP03 and SNP05 were both harmful mutations, and the significant dominant genotypes were TT and AA respectively; SNP06 was a beneficial mutation, and the significant dominant genotype was GG.

[0109] Table 2 Information on SNP Locus Combinations Screened in the Present Invention

[0110]

[0111] Note: E in Table 1 is the symbol in scientific notation, representing 10 to the power of n. That is, 5.40E-07 in Table 1 is 5.40×10 -7 , and the same applies to other p-value values.

[0112] The nucleotide sequences of the molecular markers containing the above mutation sites are shown in Table 3.

[0113] Table 3 Nucleotide Sequences of SNP Molecular Markers Screened in the Present Invention

[0114]

[0115]

[0116] Note: The bases marked in bold and underlined in Table 3 are the mutation sites.

[0117] As can be seen from the results in Example 1, through re-sequencing and genome-wide association analysis, the present invention screened out significant SNP sites related to the chest circumference trait of goats, and mined SNP01, SNP02, SNP03, SNP04, SNP05 and SNP06 sites and their dominant genotypes, which can more accurately predict the chest circumference trait of goats.

[0118] Example 2 SNP Molecular Marker Detection and Its Association Verification with Body Height Trait

[0119] Based on the SNP site combination (SNP01, SNP02, SNP03, SNP04 and SNP05) obtained in Example 1, in this example, another 300 Longling Huangshan goats with body size traits at different growth and development stages were selected as the research objects, and the above 6 sites were genotyped respectively, and the genotyping results were analyzed for association with the chest circumference trait. The results are shown in Table 4 and Figure 3 .

[0120] Table 4 Results of Association Analysis between Polymorphism of SNP Molecular Markers Screened by the Present Invention and Chest Circumference Trait

[0121]

[0122] Note: Different letters indicate significant differences (P < 0.05), and the same letter indicates no significant difference (P > 0.05). If only one individual is detected for a certain genotype of the molecular marker, it is not included in the analysis.

[0123] As can be seen from Table 4, for SNP01, the chest circumference of individuals with the genotype CC is the largest, and the chest circumference of individuals with the genotype TT is the smallest; for SNP02, the chest circumference of individuals with the genotype GG is the largest, and the chest circumference of individuals with the genotype AA is the smallest; for SNP03, the chest circumference of individuals with the genotype TT is the largest, and the chest circumference of individuals with the genotype CC is the smallest; for SNP04, the chest circumference of individuals with the genotype CC is the largest, and the chest circumference of individuals with the genotype TT is the smallest; for SNP05, the chest circumference of individuals with the genotype AA is the largest, and the chest circumference of individuals with the genotype TT is the smallest; for SNP06, the chest circumference of individuals with the genotype GG is the largest, and the chest circumference of individuals with the genotype TT is the smallest.

[0124] In the genome-wide association study, the SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06 molecular markers in the goat genome all reached the genome-wide significant level, indicating that these markers were significantly associated with the chest girth trait of Longling Yellow goats. When the polymorphism at the 101st position from the 5' end of the SNP01 marker was C, it was beneficial for Longling Yellow goats to have a larger chest girth; when the polymorphism at the 101st position from the 5' end of the SNP02 marker was G, it was beneficial for Longling Yellow goats to have a larger chest girth; when the polymorphism at the 101st position from the 5' end of the SNP03 marker was T, it was beneficial for Longling Yellow goats to have a larger chest girth; when the polymorphism at the 101st position from the 5' end of the SNP04 marker was C, it was beneficial for Longling Yellow goats to have a larger chest girth; when the polymorphism at the 101st position from the 5' end of the SNP05 marker was A, it was beneficial for Longling Yellow goats to have a larger chest girth; when the polymorphism at the 101st position from the 5' end of the SNP06 marker was G, it was beneficial for Longling Yellow goats to have a larger chest girth.

[0125] Thus, it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP01, that is, the T→C mutation at position 5025206bp on chromosome 5 of the goat genome. By selecting individuals with the CC genotype as the male or female parent, the chest girth of the offspring can be increased; it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP02, that is, the A→G mutation at position 57741042bp on chromosome 5 of the goat genome. By selecting individuals with the GG genotype as the male or female parent, the chest girth of the offspring can be increased; it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP03, that is, the T→C mutation at position 3048751bp on chromosome 6 of the goat genome. By selecting individuals with the TT genotype as the male or female parent, the chest girth of the offspring can be increased; it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP04, that is, the T→C mutation at position 62672520bp on chromosome 13 of the goat genome. By selecting individuals with the CC genotype as the male or female parent, the chest girth of the offspring can be increased; it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP05, that is, the A→T mutation at position 59469971bp on chromosome 19 of the goat genome. By selecting individuals with the AA genotype as the male or female parent, the chest girth of the offspring can be increased; it is possible to breed the Longling Yellow goat breed with a large chest girth through SNP06, that is, the T→G mutation at position 67375675bp on chromosome 20 of the goat genome. By selecting individuals with the GG genotype as the male or female parent, the chest girth of the offspring can be increased.

[0126] Those skilled in the art can make various changes and modifications to the present invention without departing from the spirit and scope of the present invention. Thus, if these modifications and variations of the present invention fall within the scope of the claims of the present invention and their equivalent technologies, the present invention also intends to include these changes and modifications.

Claims

1. Application of SNP molecular markers in identifying or assisting in identifying the chest circumference size of goats, characterized in that, The SNP molecular markers include one or more of SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06; SNP01, SNP02, SNP03, SNP04, and SNP05 are related to the chest circumference of 9-month-old goats; SNP06 is related to the chest circumference of 12-month-old goats; SNP01 is located at position 5025206 bp on chromosome 5 of the goat reference genome ARS1.

2. The base is T or C. The chest circumference of goats with the genotype CC is larger than that of goats with the genotype TT or TC; SNP02 is located at position 57741042 bp on chromosome 5 of the goat reference genome ARS1.

2. The base is G or A. The chest circumference of goats with the genotype GG is larger than that of goats with the genotype AA or AG; SNP03 is located at position 3048751 bp on chromosome 6 of the goat reference genome ARS1.

2. The base is C or T. The chest circumference of goats with the genotype TT is larger than that of goats with the genotype CC or TC; SNP04 is located at position 62672520 bp on chromosome 13 of the goat reference genome ARS1.

2. The base is T or C. The chest circumference of goats with the genotype CC is larger than that of goats with the genotype TT or TC; SNP05 is located at position 59469971 bp on chromosome 19 of the goat reference genome ARS1.

2. The base is A or T. The chest circumference of goats with the genotype AA is larger than that of goats with the genotype TT or TA; SNP06 is located at position 67375675 bp on chromosome 20 of the goat reference genome ARS1.

2. The base is T or G. The chest circumference of goats with the genotype GG is larger than that of goats with the genotype TT or TG; The RefSeq number of the goat reference genome ARS1.2 in the NCBI database is GCA_001704415.

2.

2. A SNP molecular marker related to the chest girth trait of goats, characterized in that, Including: One or more of SNP01, SNP02, SNP03, SNP04, SNP05, and SNP06; The nucleotide sequence of SNP01 is shown as SEQ ID NO.1 or SEQ ID NO.2; The nucleotide sequence of SNP02 is shown as SEQ ID NO.3 or SEQ ID NO.4; The nucleotide sequence of SNP03 is shown as SEQ ID NO.5 or SEQ ID NO.6; The nucleotide sequence of SNP04 is shown as SEQ ID NO.7 or SEQ ID NO.8; The nucleotide sequence of SNP05 is shown as SEQ ID NO.9 or SEQ ID NO.10; The nucleotide sequence of SNP06 is shown as SEQ ID NO.11 or SEQ ID NO.

12.

3. Application of the SNP molecular marker according to claim 2 in one or more of the following: (1) Identifying or assisting in identifying the chest circumference of goats; (2) Screening or assisting in screening goats with a large chest circumference; (3) Breeding or assisting in breeding goats with a large chest circumference.

4. The application according to claim 3, characterized in that The goats include 9-month-old goats and / or 12-month-old goats.

5. The application according to claim 3 or 4, characterized in that, The breed of the goats includes Longling Huang goats.

6. A method for identifying or assisting in the identification of the chest circumference size of goats, characterized in that, The method includes the following steps: Detect the SNP molecular markers described in claim 2 of the goats to be tested; When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5' end of the SNP01 is C, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP01 is T, it is identified as a goat with a small chest circumference; When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5' end of the SNP02 is G, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP02 is A, it is identified as a goat with a small chest circumference; When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5' end of the SNP03 is T, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP03 is C, it is identified as a goat with a small chest circumference; When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5' end of the SNP04 is C, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP04 is T, it is identified as a goat with a small chest circumference; When the goat to be tested is a 9-month-old goat, if the base at the 101st position from the 5' end of the SNP05 is A, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP05 is T, it is identified as a goat with a small chest circumference; When the goat to be tested is a 12-month-old goat, if the base at the 101st position from the 5' end of the SNP06 is G, it is identified as a goat with a large chest circumference; if the base at the 101st position from the 5' end of the SNP06 is T, it is identified as a goat with a small chest circumference.

7. The method according to claim 6, wherein The breed of the goats includes Longling Huang goats.

8. A method for screening or assisting in screening goats with large chest circumferences, characterized in that, The method includes the following steps: Detect the polymorphism of the SNP molecular markers described in claim 2 of the goats to be tested; Select and retain the goats carrying the CC genotype at the 101st position from the 5' end of the SNP01; Select and retain the goats carrying the GG genotype at the 101st position from the 5' end of the SNP02; Select and retain the goats carrying the TT genotype at the 101st position from the 5' end of the SNP03; Select and retain the goats carrying the CC genotype at the 101st position from the 5' end of the SNP04; Select and retain the goats carrying the AA genotype at the 101st position from the 5' end of the SNP05; Select and retain the goats carrying the GG genotype at the 101st position from the 5' end of the SNP06.

9. The method according to claim 8, wherein The breed of the goats includes Longling Huang goats.

10. A method for breeding or assisting in the breeding of big-chested goats using the method according to claim 8 or 9, characterized in that, The method includes the following steps: Use the selected and retained goats as male or female parents for breeding, and according to the selection method in claim 8 or 9, select and retain the individuals with relatively more corresponding genotypes in the offspring.

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