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Acta Agron Sin ›› 2013, Vol. 39 ›› Issue (12): 2154-2161.doi: 10.3724/SP.J.1006.2013.02154

• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS • Previous Articles     Next Articles

Genetic Diversity and Linkage Disequilibrium Analysis in Barley

LAI Yong1,2,**,MENG Ya-Xiong1,2,**,WANG Jin1,2,FAN Gui-Qiang1,2,SI Er-Jing1,2,WANG Peng-Xi1,2,LI Bao-Chun3,MA Xiao-Le2,YANG Ke1,2,SHANG Xu-Wu2,WANG Hua-Jun1,2,*   

  1. 1 Gansu Key Laboratory of Crop Improvement & Germplasm Enhancement / Gansu Provincial Key Laboratory of Aridland Crop Science, Lanzhou 730070, China; 2 College of Agronomy, Gansu Agricultural University, Lanzhou 730070, China; 3 College of Life Sciences and Technology of Gansu Agricultural University, Lanzhou 730070, China
  • Received:2013-05-08 Revised:2013-07-26 Online:2013-12-12 Published:2013-09-29
  • Contact: 王化俊,E-mail: whuajun@yahoo.com

Abstract:

The objective of this study was to provide a suitable evaluation for introduced germplasm resources and useful information for associate analysis and parental combinations in barley (Hordeum valgare L.). A total of 192 alleles were detected by 64 SSR markers on chromosomes 1H to 7H in 221 barley accessions with 2–7 alleles per locus. The allelic frequency ranged from 0.0090 to 0.9729, with the mean of 0.3333. The gene diversity was from 0.0528 to 0.7807, averagely 0.4813. The polymorphism information content (PIC) value ranged from 0.0514 to 0.7464 with the mean of 0.4113. The genetic similarity of the 221 accessions ranged from 0.4844 to 0.9792 with the mean of 0.7023. All accessions were clustered into two major groups and seven subgroups. Most landraces or developed varieties fell into the same major group. Genetic structure analysis revealed two subpopulations of these accessions, with consistence to the clustering analysis. Genetic distance between the two subpopulations was 0.3358, and the second subpopulation had richer diversity than the first one. There was linkage disequilibrium (LD) among linked loci and unlinked loci pairs, and 830 out of 2016 loci pairs (41.2%) had significant LD (P < 0.01) with D′ average value of 0.4. The LD level of developed variety was higher than that of landraces. Target traits of developed varieties were mainly distributed on chromosomes 2H, 4H, 6H, and 7H.

Key words: Barley, SSR, Genetic diversity, Linkage disequilibrium, Association analysis

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