Identification of SNPs in barley (Hordeum vulgare L.) by deep sequencing of six reduced representation libraries

Crop Journal

Dawa Dondup¹  Sha Hu¹  Jing Zhang¹  Xingmiao Yuan¹  Ganggang Guo¹  Lisha Zhang² 

[1] Key Laboratory of Crop Germplasm Resources and Utilization (MOA), The National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China;Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa 850032, China;

关键词: Barley;    SNP discovery;    Reduced representation libraries;    Allele-specific PCR;   

DOI  :  doi:10.1016/j.cj.2014.06.008

来源: DOAJ

【 摘 要 】

High-density genetic markers are required for genotyping and linkage mapping in identifying genes from crops with complex genomes, such as barley. As the most common variation, single nucleotide polymorphisms (SNPs) are suitable for accurate genotyping by using the next-generation sequencing (NGS) technology. Reduced representation libraries (RRLs) of five barley accessions and one mutant were sequenced using NGS technology for SNP discovery. Twenty million short reads were generated and the proportion of repetitive sequences was reduced by more than 56%. A total of 6061 SNPs were identified, and 451 were mapped to the draft sequence of the barley genome with pairing reads. Eleven SNPs were validated using length polymorphic allele-specific PCR markers.

【 授权许可】

Unknown