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Linkage disequilibrium and association mapping of fibre quality traits in elite Asiatic cotton (Gossypium arboreum) germplasm populations

Author

Listed:
  • Khushboo SETHI

    (Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, Haryana, India)

  • Priyanka SIWACH

    (Department of Biotechnology, Chaudhary Devi Lal University, Sirsa, Haryana, India)

  • Surender Kumar VERMA

    (Central Institute of Cotton Research, Regional Station, Sirsa, Haryana)

Abstract

Cotton productivity has been hindered by the narrow genetic base of cultivated cotton. Linkage disequilibrium-based association mapping has become a powerful molecular tool to dissect and exploit genetic diversity. In the present study, population structure and marker-trait associations for fibre quality traits in genotypes belonging to six races of Gossypium arboreum were assessed. Out of 300 simple sequence repeat (SSR) markers, 100 were found polymorphic, yielding a total of 240 alleles (all polymorphic). Structure analysis revealed allelic admixtures between genotypes. A Q-matrix exhibited mixed ancestry for the majority of genotypes, the race indicum forming a significant percent ancestry for almost all genotypes. At significant threshold values of r2 ≥ 0.05, 7.37% of SSR loci showed significant linkage disequilibrium (LD), while at highly significant threshold of r2 ≥ 0.1, the value was reduced to 5.31%. LD clearly decayed within the genetic distance of 9-10 cM, with r2 ≥ 0.1. Twenty-eight SSR markers were found associated with six fibre quality traits using general linear model and mixed linear model.

Suggested Citation

  • Khushboo SETHI & Priyanka SIWACH & Surender Kumar VERMA, 2017. "Linkage disequilibrium and association mapping of fibre quality traits in elite Asiatic cotton (Gossypium arboreum) germplasm populations," Czech Journal of Genetics and Plant Breeding, Czech Academy of Agricultural Sciences, vol. 53(4), pages 159-167.
    • Handle: RePEc:caa:jnlcjg:v:53:y:2017:i:4:id:142-2016-cjgpb
    DOI: 10.17221/142/2016-CJGPB
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