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Molecular diversity and identification of alleles for Verticillium wilt resistance in elite cotton (Gossypium hirsutum L.) germplasm

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Abstract

Cotton is an important crop in the textile, food and pharmaceutical industries. In the present study, a panel of 108 elite cotton (Gossypium hirsutum L.) lines was genotyped with 177 genome-wide SSR markers to assess genetic diversity, linkage disequilibrium, population structure and association analyses. A total of 967 loci were assayed and the lines fell into four main groups with a mean genetic distance of 39%. The linkage disequilibrium (LD) decay rate was estimated to be 20–30 cm (r2 ≤ 0.5). Association analyses were performed with both general linear model and mixed linear model methods to identify SSR marker loci linked to Verticillium wilt resistance. Verticillium wilt is a fungal disease that causes huge yield losses in cotton production throughout the world. A total of 26 marker loci distributed on 14 chromosomes were associated with resistance at p ≤ 0.05. Eight of the 26 associated marker loci were highly significant (p < 0.01). The phenotypic variation explained (r2) by individual markers ranged from 3.2% to 8.2%. Three of the 26 marker loci (JESPR153, JESPR274 and CIR218) were consistent with previous studies. Our results should be useful in improving Verticillium wilt resistance in cotton breeding lines.

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Acknowledgements

We would like to express our thanks to Ibrahim Celik, Izmir Institute of Technology, for providing training for software analysis of data. We are grateful to Nazilli Cotton Research Institute (NCRI, Nazilli, TURKEY) for providing seeds. This study was supported by GDARP (General Directorate of Agricultural Research and Policies, Ministry of Food, Agriculture and Livestock Republic of Turkey) Project No. TAGEM-11/AR-GE/17.

Author contributions

AAB: molecular characterization, data analysis, interpretation of data, manuscript drafting and revision; OE: experimental design, pathogen assays, manuscript revision; AF: conception and design, interpretation of data, manuscript revision; AF: interpretation of data, manuscript revision; SD: conception and design, manuscript revision; All: final approval of the version to be published.

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Authors and Affiliations

  1. Department of Molecular Biology and Genetics, Izmir Institute of Technology, Izmir, Turkey

    Asena Akkose Baytar, Anne Frary & Sami Doganlar

  2. Department of Biosystem Engineering, Nevsehir Haci Bektas Veli University, Nevsehir, Turkey

    Oktay Erdogan

  3. Department of Biological Sciences, Mount Holyoke College, South Hadley, MA, 01075, USA

    Amy Frary

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  1. Asena Akkose Baytar
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Correspondence to Sami Doganlar.

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Baytar, A.A., Erdogan, O., Frary, A. et al. Molecular diversity and identification of alleles for Verticillium wilt resistance in elite cotton (Gossypium hirsutum L.) germplasm. Euphytica 213, 31 (2017). https://doi.org/10.1007/s10681-016-1787-y

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