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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Plant Sci. | doi: 10.3389/fpls.2019.00964

Genetic Detection of Lint Percentage Applying Single-Locus and Multi-Locus Genome-Wide Association Studies in Chinese Early-maturity Upland Cotton

 Junji Su1*, Caixiang Wang1,  Fushun Hao2, Qi Ma3, Ji Wang2, Jilian Li3 and Xinzhu Ning3*
  • 1Gansu Agricultural University, China
  • 2Henan University, China
  • 3Xinjiang Academy of Agricultural and Reclamation Science (XAARS), China

Upland cotton (Gossypium hirsutum L.) is the most important source of natural fiber in the world. Early-maturity upland cotton varieties are commonly planted in China. Nevertheless, lint yield of early-maturity upland cotton varieties is strikingly lower than that of middle- and late-maturity ones. How to effectively improve lint yield of early maturing cotton becomes a focus of cotton research. Here, based on 72,792 high-quality single nucleotide polymorphisms (SNPs) of 160 early-maturing upland cotton accessions, we performed genome-wide association studies (GWAS) for lint percentage (LP), one of the most lint-yield component traits, applying one single-locus method and six multi-locus methods. A total of 4 and 45 significant quantitative trait nucleotides (QTNs) were respectively identified to be associated with LP. Interestingly, in two of four planting environments, two of these QTNs (A02_74713290 and A02_75551547) were simultaneously detected via both one single-locus and three or more multi-locus GWAS methods. Among these 42 genes within a genomic region (A02: 74.31-75.95 Mbp) containing the above two peak QTNs, Gh_A02G1269, Gh_A02G1280 and Gh_A02G1295 had the highest expression levels in ovules during seed development from 20 and 25 days post anthesis (DPA), whereas Gh_A02G1278 preferentially expressed in the fibers rather than other organs. These results imply that the four potential candidate genes might be closely related to cotton LP by regulating the proportion of seed weight and fiber yield. The QTNs and potential candidate genes for LP identified in this study provide valuable resource for cultivating novel cotton varieties with earliness and high lint yield in the future.

Keywords: Upland cotton, Lint percentage, Early maturity, GWAS, QTNs, candidate genes

Received: 04 Apr 2019; Accepted: 10 Jul 2019.

Edited by:

Yuan-Ming Zhang, College of Plant Science and Technology, Huazhong Agricultural University, China

Reviewed by:

Wangzhen Guo, Nanjing Agricultural University, China
Chengqi Li, Henan Institute of Science and Technology, China
Xinhui Nie, Shihezi University, China  

Copyright: © 2019 Su, Wang, Hao, Ma, Wang, Li and Ning. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence:
Dr. Junji Su, Gansu Agricultural University, Lanzhou, Gansu Province, China,
Mr. Xinzhu Ning, Xinjiang Academy of Agricultural and Reclamation Science (XAARS), Shihezi, Xinjiang Uyghur Region, China,