Dissection of complicate genetic architecture and breeding perspective of cottonseed traits by genome-wide association study

文献类型： 外文期刊

第一作者： Xiongming Du;;Shouye Liu

作者： Xiongming Du;Shouye Liu;Junling Sun;Gengyun Zhang;Yinhua Jia;Zhaoe Pan;Haitao Xiang;Shoupu He;Qiuju Xia;Songhua Xiao;Weijun Shi;Zhiwu Quan;Jianguang Liu;Jun Ma;Baoyin Pang;Liru Wang;Gaofei Sun;Wenfang Gong;Johnie N. Jenkins;Xiangyang Lou;Jun Zhu;Haiming Xu

作者机构：

关键词： Complex traits; Cottonseed traits; Association mapping; GWAS; Gene by environment interaction; Epistasis; Mixed linear model; Molecular breeding by design

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2018 年 19 卷

页码：

收录情况： SCI

摘要： Background: Cottonseed is one of the most important raw materials for plant protein, oil and alternative biofuel for diesel engines. Understanding the complex genetic basis of cottonseed traits is requisite for achieving efficient genetic improvement of the traits. However, it is not yet clear about their genetic architecture in genomic level. GWAS has been an effective way to explore genetic basis of quantitative traits in human and many crops. This study aims to dissect genetic mechanism seven cottonseed traits by a GWAS for genetic improvement. Results: A genome-wide association study ( GWAS) based on a full gene model with gene effects as fixed and gene-environment interaction as random, was conducted for protein, oil and 5 fatty acids using 316 accessions and similar to 390 K SNPs. Totally, 124 significant quantitative trait SNPs (QTSs), consisting of 16, 21, 87 for protein, oil and fatty acids ( palmitic, linoleic, oleic, myristic, stearic), respectively, were identified and the broad-sense heritability was estimated from 71.62 to 93.43%; no QTS-environment interaction was detected for the protein, the palmitic and the oleic contents; the protein content was predominantly controlled by epistatic effects accounting for 65.18% of the total variation, but the oil content and the fatty acids except the palmitic were mainly determined by gene main effects and no epistasis was detected for the myristic and the stearic. Prediction of superior pure line and hybrid revealed the potential of the QTSs in the improvement of cottonseed traits, and the hybrid could achieve higher or lower genetic values compared with pure lines. Conclusions: This study revealed complex genetic architecture of seven cottonseed traits at whole genome-wide by mixed linear model approach; the identified genetic variants and estimated genetic component effects of gene, gene-gene and gene-environment interaction provide cotton geneticist or breeders new knowledge on the genetic mechanism of the traits and the potential molecular breeding design strategy.

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