Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau

NWIPB OpenIR

	Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau
	Wang, Lei ; Xu, Jinqing ; Xia, Tengfei ; Zhang, Huaigang ; Liu, Dengcai ; Shen, Yuhu
	2014-09-01
发表期刊	CROP SCIENCE ; Wang, L; Xu, JQ; Xia, TF; Zhang, HG; Liu, DC; Shen, YH.Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau,CROP SCIENCE,2014,54(5):2011
摘要	The genetic diversity, population structure, and extent of linkage disequilibrium (LD) were investigated at a genome-wide level in 255 six-rowed barley (Hordeum vulgare L. ssp. Vulgare) landraces from the Qinghai-Tibetan Plateau using 1264 polymorphic diversity array technology (DArT) markers. The mean polymorphism information content (PIC) of the DArT markers ranged between 0.008 and 0.500 with an average of 0.213. Bayesian, principal coordinate analysis, and phylogenetic analysis supported that six-rowed barley landraces from this region are divided into five distinct subpopulations centered on the regions of origin of the germ-plasm. The genetic distances calculated for all the individual pairs were geographically dependent, as revealed by Mantel tests (r = 0.35, P < 0.001) and spatial autocorrelation analysis. The LD values, expressed as r(2), declined with increasing genetic distance, and the same tendency occurred on each chromosome. In general, LD values were low (9.1% of adjacent markers; P < 0.001), and mean LD values across the whole genome decayed to below the critical r(2) of 0.22 after 3.32 cM. Approximately 19.0% of marker pairs (mean r(2) = 0.586) located on the same chromosome and 4.9% of pairs (mean r(2) = 0.318) located on different chromosomes were in LD (r(2) = 0.22). Our results discerned relevant patterns of genetic diversity, population structure, and LD among members of a Qinghai-Tibet Plateau barley landraces panel proposed to be 'typical' of a target region or environment and have important implications for further studies on association mapping and practical breeding in high-altitude naked barley.; The genetic diversity, population structure, and extent of linkage disequilibrium (LD) were investigated at a genome-wide level in 255 six-rowed barley (Hordeum vulgare L. ssp. Vulgare) landraces from the Qinghai-Tibetan Plateau using 1264 polymorphic diversity array technology (DArT) markers. The mean polymorphism information content (PIC) of the DArT markers ranged between 0.008 and 0.500 with an average of 0.213. Bayesian, principal coordinate analysis, and phylogenetic analysis supported that six-rowed barley landraces from this region are divided into five distinct subpopulations centered on the regions of origin of the germ-plasm. The genetic distances calculated for all the individual pairs were geographically dependent, as revealed by Mantel tests (r = 0.35, P < 0.001) and spatial autocorrelation analysis. The LD values, expressed as r(2), declined with increasing genetic distance, and the same tendency occurred on each chromosome. In general, LD values were low (9.1% of adjacent markers; P < 0.001), and mean LD values across the whole genome decayed to below the critical r(2) of 0.22 after 3.32 cM. Approximately 19.0% of marker pairs (mean r(2) = 0.586) located on the same chromosome and 4.9% of pairs (mean r(2) = 0.318) located on different chromosomes were in LD (r(2) = 0.22). Our results discerned relevant patterns of genetic diversity, population structure, and LD among members of a Qinghai-Tibet Plateau barley landraces panel proposed to be 'typical' of a target region or environment and have important implications for further studies on association mapping and practical breeding in high-altitude naked barley.
文献类型	期刊论文
条目标识符	http://210.75.249.4/handle/363003/27153
专题	中国科学院西北高原生物研究所
推荐引用方式 GB/T 7714	Wang, Lei,Xu, Jinqing,Xia, Tengfei,et al. Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau[J]. CROP SCIENCE, Wang, L; Xu, JQ; Xia, TF; Zhang, HG; Liu, DC; Shen, YH.Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau,CROP SCIENCE,2014,54(5):2011,2014.
APA	Wang, Lei,Xu, Jinqing,Xia, Tengfei,Zhang, Huaigang,Liu, Dengcai,&Shen, Yuhu.(2014).Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau.CROP SCIENCE.
MLA	Wang, Lei,et al."Population Structure and Linkage Disequilibrium in Six-Rowed Barley Landraces from the Qinghai-Tibetan Plateau".CROP SCIENCE (2014).