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QTL mapping and candidate gene prediction for fiber yield and quality traits in a high-generation cotton chromosome substitution line with Gossypium barbadense segments

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Abstract

Gossypium provides the foremost natural fiber for supporting the rapid development of the textile industry. Quantitative trait locus (QTL) mapping of fiber yield and quality traits is, thus, of great significance for providing a foundation for the genetic improvement of key target traits in cotton production. In this study, a superior chromosome segment substitution line (CSSL), MBI8255, with high yield and premium fiber quality characteristics was cultivated from the BC5F3:5 lineage derived from G. barbadense Hai1 and G. hirsutum CCRI36, and was chosen to construct a segregation population containing 123 F2 individuals with CCRI36. A total of 71 polymorphic SSR (simple sequence repeat) markers were identified based on a previous high-density linkage map, and 17 QTLs distributed on five chromosomes were detected, of which 10 QTLs for cotton yield explained 0.26–15.41% of phenotypic variations, while 7 QTLs for fiber quality explained 0.84–9.38% of phenotypic variations, separately containing four and one stable QTLs detected from over two environments. Among three identified QTL clusters, only the Chr19 QTL cluster harbored two stable and one unstable QTL for three different traits, and hence this significant region, which included 1546 genes, was subjected to functional enrichment and transcriptome expression analyses, ultimately screening eight candidate genes relevant to fiber development. This study not only provides useful information for the further fine-mapping and functional verification of candidate genes, but also offers a solid foundation for revealing the molecular mechanisms of fiber formation.

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Acknowledgements

This study was supported by the National Natural Science Foundation of China (31801404 and 32070560), Joint Funds of the National Natural Science Foundation (U1804103), the Doctoral and Postdoctoral Research Fund of Anyang Institute of Technology (BSJ2019014 and BHJ2020002), and the Natural Science Foundation of Henan Province(202300410549), and Central Public-interest Scientific Institution Basal Research Fund (1610162021011).

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  1. Quanwei Lu and Pengtao Li have contributed equally to this work.

Authors and Affiliations

  1. School of Biotechnology and Food Engineering, Anyang Institute of Technology, Anyang, 455000, Henan, China

    Quanwei Lu, Pengtao Li, Ziyin Li, Shengli Du & Jundi Wang

  2. State Key Laboratory of Cotton Biology, Key Laboratory of Biological and Genetic Breeding of Cotton, Institute of Cotton Research, The Ministry of Agriculture, Chinese Academy of Agricultural Sciences, Anyang, 455000, Henan, China

    Rui Yang, Xianghui Xiao, Ziyin Li, Qiuyu Wu, Juwu Gong, Qun Ge, Aiying Liu, Yuzhen Shi & Youlu Yuan

  3. Innovation and Practice Base for Postdoctors, Anyang Institute of Technology, Anyang, 455000, China

    Pengtao Li

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  1. Quanwei Lu
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Contributions

Conceived and designed the experiments: YLY, YZS, and QWL. Performed the experiments: PTL, RY, XXH, ZYL, QYW, JWG, QG, AYL, SLD, JDW, and YZS. Analyzed the data: QWL and XHX. Drafted the manuscript: PTL and QWL. Revised the manuscript: QWL, PTL, YZS, and YLY.

Corresponding author

Correspondence to Youlu Yuan.

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Communicated by Bing Yang.

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Lu, Q., Li, P., Yang, R. et al. QTL mapping and candidate gene prediction for fiber yield and quality traits in a high-generation cotton chromosome substitution line with Gossypium barbadense segments. Mol Genet Genomics 297, 287–301 (2022). https://doi.org/10.1007/s00438-021-01833-7

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