Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

作     者：Gary MUEHLBAUER Brian STEFFENSON 

作者机构：Department of Agronomy and Plant GeneticsUniversity of MinnesotaSt.PaulMN 55108USA Department of Plant PathologyUniversity of MinnesotaSt.PaulMN 55108USA 

出 版 物：《Journal of Zhejiang University-Science B(Biomedicine & Biotechnology)》 (浙江大学学报（英文版）B辑（生物医学与生物技术）)

年 卷 期：2012年第13卷第6期

页      面：438-451页

核心收录：

学科分类：09[农学] 0901[农学-作物学] 

基　　金：Project supported by the Barley Coordinated Agricultural Project (No.USDA-CSREES-2006-55606-16722) of the USDA National Institute of Food and Agriculture and the Lieberman-Okinow Endowment at the University of Minnesota USA 

主　　题：Association mapping (AM) Structure Linkage disequilibrium (LD) 

摘      要：Cultivated barley is known to have a complex population structure and extensive linkage disequilibrium (LD).To conduct robust association mapping (AM) studies of economically important traits in US barley breeding germplasm,population structure and LD decay were examined in a complete panel of US barley breeding germplasm (3840 lines) genotyped with 3072 single nucleotide polymorphisms (SNPs).Nine subpopulations (sp1 sp9) were identified by the program STRUCTURE and subsequently confirmed by principle component analysis (PCA).Out of the nine subpopulations,seven were very similar to the respective subpopulations identified by Hamblin et al.(2010) which were based on half of the germplasm and half of the SNP markers,but two subpopulations were found to be *** subpopulation was dominated by six-rowed spring lines from Utah State University (UT) and the other was composed of six-rowed spring lines from multiple breeding programs (USDA-ARS Aberdeen (AB),Busch Agricultural Resources Inc.(BA),UT,and Washington State University (WA)).LD was found to decay across a range from 4.0 to 19.8 *** result indicates that the germplasm genotyped with 3072 SNPs would be robust for mapping and possibly identifying the causal polymorphisms contributing to disease resistance and perhaps other traits.