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384 SNP loci and application thereof in soybean variety resource identification

A soybean and variety technology, applied in recombinant DNA technology, microbial determination/inspection, DNA/RNA fragments, etc., can solve the problem of inability to use chips, achieve the effect of improving the detection level, safeguarding farmers' rights and interests, and speeding up the breeding process

Active Publication Date: 2016-05-11
INST OF CROP SCI CHINESE ACAD OF AGRI SCI
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  • Abstract
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  • Application Information

AI Technical Summary

Problems solved by technology

However, the selection criteria for SNP sites suitable for soybean variety authenticity identification and fingerprint database construction are quite different from other research fields such as association analysis, genetic map construction, etc., and these high-density chips cannot be directly applied to soybean varieties. Authenticity identification and database construction

Method used

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  • 384 SNP loci and application thereof in soybean variety resource identification
  • 384 SNP loci and application thereof in soybean variety resource identification
  • 384 SNP loci and application thereof in soybean variety resource identification

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0035] Example 1. Preparation of Chips for Soybean Variety Resource Identification or Soybean Molecular Breeding

[0036] The SoySNP6K chip was used to identify 300 soybean varieties from different ecological regions, and the data of 5361 SNP sites were obtained, and 384 SNP sites were screened out according to the identification results, the identification efficiency of the sites, and the principle of even distribution of SNPs on the chromosome The specific screening process is as follows: (1) By eliminating the sites with no signal and no polymorphism, and screening the SNP sites with MAF>0.2 and the ratio of missing data + heterozygosity <5%, 2839 candidate SNPs were obtained; ( 2) Through linkage disequilibrium analysis and screening, 1440 tagSNPs located in different linkage disequilibrium regions were obtained; (3) 384 core SNPs were determined based on the principle of no tight linkage and uniform distribution on the chromosome.

[0037] The 384 SNP sites and their flan...

Embodiment 2

[0424] Embodiment 2, using the SNP chip prepared in embodiment 1 to identify the authenticity of soybean variety resources

[0425] One. Determination of the criteria for judging the authenticity of soybean variety resources using the SNP chip prepared in Example 1

[0426] The contriver selects the seed of 192 soybean varieties resources with stronger representativeness to be experimental material (table 1, these 192 soybean varieties all originate from the national germplasm resource bank, are recorded in " Chinese soybean variety resources catalog " (Chinese Academy of Agricultural Sciences) Oil Crops Research Institute, Agricultural Press, Beijing, 1982), "Chinese Soybean Variety Resources Catalog / Sequel II" (Edited by the Institute of Crop Variety Resources, Chinese Academy of Agricultural Sciences, Agricultural Press, Beijing, 1996) and "China Soybean Variety Resource Catalog / Continuation III" (edited by the Institute of Crop Science, Chinese Academy of Agricultural Scie...

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Abstract

The invention discloses 384 SNP loci and application thereof in soybean variety resource identification. In the application disclosed by the invention, the physical locations of the 384 SNP loci are determined on the basis of whole genome sequence alignment of the soybean variety of Williams 82, and the version number of a whole genome sequence of the soybean variety of Williams 82 is Glyma.Wm82.al(Gmax1.01); the 384 SNP loci are SMK001-SMK384. An SNP chip based on the 384 SNP loci can be applied to identifying a soybean variety resource; the application of the combination of the 384 SNP loci can greatly improve the detection accuracy, shorten the detection time and improve the detection level, which provides a strong technical support for soybean variety popularization and seed market testing, and accelerates the seed selection process of an excellent new soybean variety.

Description

technical field [0001] The invention relates to 384 SNP sites in the field of biotechnology and their application in the identification of soybean variety resources. Background technique [0002] Soybeans originated in China and are the main source of plant protein and fat for humans. my country has the most abundant soybean germplasm resources in the world, with more than 23,000 cultivated soybean germplasms and more than 7,000 wild soybean germplasms preserved in the national germplasm bank. Among the germplasm resources in storage, many of them have only recorded phenotypic traits, lacking in-depth identification in genetics. With the improvement of people's living standards in our country, the demand for soybeans has increased sharply, and the number of bred varieties has also increased rapidly. So far, the number of bred varieties has exceeded 1,800, and more than 200 soybean varieties have participated in national and regional trials every year. Such a large number o...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68C12N15/11
CPCC12Q1/6895C12Q2600/156
Inventor 邱丽娟郭勇刘桂凤宋健周福来刘章雄
Owner INST OF CROP SCI CHINESE ACAD OF AGRI SCI
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