Analysis of genetic diversity and population structure in upland cotton (Gossypium hirsutum L.) germplasm using simple sequence repeats

Journal of genetics

MULUGETA SEYOUM^1¹  XIONG MING DU^2² 

[1] College of Agriculture and Veterinary Medicine, Jimma University, P.O. Box 307, Jimma, Ethiopia^1;State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences (ICR, CAAS), P.O. Box 455000, Anyang, Henan, People’s Republic of China^2

关键词: genetic diversity;    population structure;    simple sequence repeats;    upland cotton;    Gossypium hirsutum;   

DOI  :  

学科分类：生物科学（综合）

来源: Indian Academy of Sciences

【 摘 要 】

Improvement of cotton fibre yield and quality is challenging due to the narrow genetic base of modern cotton cultivars, which emphasizes the great need to effectively explore the existing germplasm resources. With major objective to assess the genetic diversity and population structure at DNA level, 302 elite upland cotton germplasm accessions (253 Chinese and 49 different exoticorigins), were genotyped using 198 simple sequence repeats (SSRs) markers. Each of the 198 markers differed greatly in its ability to detect variations in the panel of cotton germplasm. The SSRs amplified 897 alleles, of which 77.7% were polymorphic. The number of alleles varied from2 to 12 (mean 4.53). Gene diversity ranged from 0.020 to 0.492 with amean of 0.279. The polymorphic informationcontent (PIC) values ranged from 0.371 to 0.019 (mean 0.225). Genetic distances in the whole cotton germplasm ranged from 0.451 to 0.052 (mean 0.270), demonstrating relatively wider genetic diversity range. Chinese-origin cotton germplasm showed the highest level of SSR polymorphisms (gene diversity=0.268, PIC=0.218), whereas American-origin revealed the highest mean genetic distance (0.274).Model-based Bayesian analysis clustered the whole cotton germplasm into three subpopulations, and the highest molecularvariation ws revealed between subpopulations (4%, P<0.001). The SSRs revealed moderate level of genetic diversity at DNA level, identified three structured subpopulations, suggesting a potential use of these markers for genomewide association mapping studies and for identifying and conserving useful alleles in upland cotton germplasm.

【 授权许可】

CC BY