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SNP molecular markers used in chromosome 6 of pig for traceability and application thereof

A technology of molecular markers and chromosomes, which is applied in the direction of recombinant DNA technology, microbial measurement/inspection, DNA/RNA fragments, etc., can solve the problems that molecular markers cannot be independent of each other, individuals cannot be distinguished, and molecular marker linkage phenomena, etc., to achieve perfect detection Effects of coverage, improved accuracy, and expanded detection range

Active Publication Date: 2016-01-20
SHANGHAI ACAD OF AGRI SCI
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Using the existing 13 known SNP molecular markers as a combination of traceability markers, some individuals may not be able to distinguish when using this set of markers for traceability in highly selected pig populations
[0007] In addition, in the long-term breeding work, a large number of accumulated SNP markers are often concentrated on some chromosomes, while other chromosomes, such as chromosomes 5, 6, 8, 14, 15 and 18 The lack of SNP markers can easily lead to linkage between molecular markers, and the molecular markers cannot be independent of each other, reducing the detection range of traceability experiments, resulting in the actual detectable range being smaller than the expected detectable range

Method used

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  • SNP molecular markers used in chromosome 6 of pig for traceability and application thereof
  • SNP molecular markers used in chromosome 6 of pig for traceability and application thereof
  • SNP molecular markers used in chromosome 6 of pig for traceability and application thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0029] Example 1 Search for Molecular Markers

[0030] (1) Primer design

[0031] Using the DNA sequence of pig chromosome 6 (Genbank: FN673727) as a template, design primers to isolate the DNA fragment of pigs (using the DNA of a Duroc pig as a template for PCR amplification), the primers are as follows:

[0032] Forward primer: 5'-TCAGTCAGTGCCGTTTCA-3' (as shown in SEQ ID NO.2)

[0033] Reverse primer: 5'-GACAGGCAGCAATGTTAGG-3' (as shown in SEQ ID NO.3)

[0034] The total volume of the PCR reaction is 20μl, including about 100ng of porcine genomic DNA, containing 1×buffer (Promega Company), 1.5mmol / LMgCl 2 , the final concentration of dNTP (Shanghai Sangon Biological Company) was 150 μmol / L, the final concentration of primers was 0.2 μmol / L, and 2UTaq DNA polymerase (Promega Company).

[0035] PCR amplification: 94°C for 4min, (94°C for 30s, 60°C for 30s, 72°C for 40s) cycled 30 times, and finally 72°C for 10min.

[0036] PCR reaction products were detected by 1% agarose...

Embodiment 2

[0047] The distribution situation of embodiment 2 alleles

[0048] (1) Design of test groups

[0049] Experimental group: collected Pietrain (21 heads), Meishan (17 heads), Dabai (43 heads), Shannon (52 heads), Changshen (16 heads), Dushen (23 heads), Pi Dashen (11 heads) ), Dachangshen (25 heads), Du Dashen (17 heads) and Du Pi Dashen (20 heads) individual ear tissues, and DNA was extracted, a total of 246 DNA samples.

[0050] The purpose of the test population is to detect the distribution of SNP markers in different breeds.

[0051] (2) Genetic testing

[0052] Forward primer: 5'-TCAGTCAGTGCCGTTTCA-3' (as shown in SEQ ID NO.2);

[0053] Reverse primer: 5'-GACAGGCAGCAATGTTAGG-3' (as shown in SEQ ID NO.3).

[0054] Perform amplification (amplification conditions are the same as in Example 1), and use the same PCR-Eco72I-RFLP method to detect all individual genotypes of the test population.

[0055] (3) Statistical analysis

[0056] Record all individual genotypes of th...

Embodiment 3

[0060] Example 3 SNP molecular marker usability traceability test verification

[0061] The SNP molecular marker of the present invention has been preliminarily confirmed that it can be used in traceability markers. In order to ensure the usability in traceability markers, the present invention re-sampled in different locations, and existing 13 SNP molecular markers (as shown in Table 2 below) Shown) combined use (total 14 SNP molecular markers) to carry out usability traceability test verification, at the same time, use only the existing 13 SNP molecular markers to carry out traceability test verification as a comparison example.

[0062] Randomly collect 100 ear tissue samples and 100 muscle samples from individual pigs at Fuxing Slaughterhouse (every pig individual sample is collected at the same time as ear tissue samples and muscle samples), ear tissue samples are numbered E1-E100, and muscle samples are numbered M1-M100, respectively DNA from muscle samples and ear tissu...

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Abstract

The invention discloses SNP molecular markers used in chromosome 6 of a pig for traceability and application thereof. The SNP molecular markers are obtained by means of NCBI database sequence alignment, and peculiarly recognized by Eco72I restrictive endonuclease, the total number is 670 bp, a base substitution exists in a base group of the 284th position and is 284 C or 284 T, and the sequence of the molecular markers is shown as SEQ ID NO.1; distribution conditions alleles of the SNP molecular markers in test groups are analyzed in the test groups including ten pig varieties or strains, it is found that allele frequencies of the SNP molecular markers in the different varieties or strains are approximate, polymorphism is rich, the allele frequency distribution difference among the varieties or the strains is small, heterozygosity is larger than 0.3, and the SNP molecular markers can be used for DNA traceability of pork products.

Description

technical field [0001] The invention belongs to the field of food safety, and in particular relates to a SNP molecular marker used for traceability on pig No. 6 chromosome and an application thereof. Background technique [0002] With the development of society, the links in the food supply chain are constantly increasing. From farms, pastures to processing, packaging, storage, transportation and sales of food enterprises, there are food safety hazards in all links of food supply, and food safety problems often occur. occur. Therefore, it is necessary to carry out traceability management of meat products, and establish a traceability system for all links from the place of origin to the dining table, so as to provide consumers with accurate and detailed information about the product, and help producers and operators to timely discover irregularities in each link. Security risks. Since the food safety crisis in the mid-1990s, the traceability of meat products has been regard...

Claims

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Application Information

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IPC IPC(8): C12N15/11C12Q1/68
Inventor 吴潇唐雪明吕贝贝蒋玮王金斌武国干李鹏白蓝刘华赵凯
Owner SHANGHAI ACAD OF AGRI SCI
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