Highly-multiplexed SNP genotyping for genetic mapping and germplasm diversity studies in pea

被引：108

作者：

Deulvot, Chrystel ^{[1
]}

Charrel, Helene ^{[1
]}

Marty, Amandine ^{[2
,4
]}

Jacquin, Francoise ^{[1
]}

Donnadieu, Cecile ^{[2
]}

Lejeune-Henaut, Isabelle ^{[3
]}

Burstin, Judith ^{[1
]}

Aubert, Gregoire ^{[1
]}

机构：

[1] INRA UMRLEG, F-21065 Dijon, France

[2] INRA, GENOTOUL Platform, F-31326 Castanet Tolosan, France

[3] INRA SGV, UMR SADV, F-80203 Peronne, France

[4] Euralis Semences, Domaine Sandreau, F-31700 Mondonville, France

来源：

BMC GENOMICS | 2010年 / 11卷

关键词：

PISUM-SATIVUM L; MOLECULAR MARKERS; LINKAGE MAP; GENOME; CROP; RETROTRANSPOSON; MICROSATELLITE; POLYMORPHISM; PROTEIN; RESISTANCE;

D O I：

10.1186/1471-2164-11-468

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Background: Single Nucleotide Polymorphisms (SNPs) can be used as genetic markers for applications such as genetic diversity studies or genetic mapping. New technologies now allow genotyping hundreds to thousands of SNPs in a single reaction. In order to evaluate the potential of these technologies in pea, we selected a custom 384-SNP set using SNPs discovered in Pisum through the resequencing of gene fragments in different genotypes and by compiling genomic sequence data present in databases. We then designed an Illumina GoldenGate assay to genotype both a Pisum germplasm collection and a genetic mapping population with the SNP set. Results: We obtained clear allelic data for more than 92% of the SNPs (356 out of 384). Interestingly, the technique was successful for all the genotypes present in the germplasm collection, including those from species or subspecies different from the P. sativum ssp sativum used to generate sequences. By genotyping the mapping population with the SNP set, we obtained a genetic map and map positions for 37 new gene markers. Conclusion: Our results show that the Illumina GoldenGate assay can be used successfully for high-throughput SNP genotyping of diverse germplasm in pea. This genotyping approach will simplify genotyping procedures for association mapping or diversity studies purposes and open new perspectives in legume genomics.

引用

页数：10

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