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Weighted Gene Co-Expression Network Analysis Reveals Hub Genes for Fuzz Development in Gossypium hirsutum

文献类型： 外文期刊

作者： Jiao, Yang 1 ; Long, Yilei 2 ; Xu, Kaixiang 1 ; Zhao, Fuxiang 3 ; Zhao, Jieyin 1 ; Li, Shengmei 1 ; Geng, Shiwei 1 ; Gao, Wenju 1 ; Sun, Peng 4 ; Deng, Xiaojuan 1 ; Chen, Quanjia 1 ; Li, Chunpin 2 ; Qu, Yanying 1 ;

作者机构： 1.Xinjiang Agr Univ, Coll Agr, Urumqi 830052, Peoples R China

2.Xinjiang Acad Agr Sci, Inst Cash Crops, Urumqi 830091, Peoples R China

3.Xinjiang Acad Agr Reclamat, Shihezi 832000, Peoples R China

4.Xinjiang Kuitun Agr & Rural Bur, KuiTun 833200, Peoples R China

关键词： WGCNA; fuzz; hub genes; RNA-Seq; Gossypium hirsutum

期刊名称：GENES （ 影响因子：3.5； 五年影响因子：3.9 ）

ISSN：

年卷期： 2023 年 14 卷 1 期

页码：

收录情况： SCI

摘要： Fuzzless Gossypium hirsutum mutants are ideal materials for investigating cotton fiber initiation and development. In this study, we used the fuzzless G. hirsutum mutant Xinluzao 50 FLM as the research material and combined it with other fuzzless materials for verification by RNA sequencing to explore the gene expression patterns and differences between genes in upland cotton during the fuzz period. A gene ontology (GO) enrichment analysis showed that differentially expressed genes (DEGs) were mainly enriched in the metabolic process, microtubule binding, and other pathways. A weighted gene co-expression network analysis (WGCNA) showed that two modules of Xinluzao 50 and Xinluzao 50 FLM and four modules of CSS386 and Sicala V-2 were highly correlated with fuzz. We selected the hub gene with the highest KME value among the six modules and constructed an interaction network. In addition, we selected some genes with high KME values from the six modules that were highly associated with fuzz in the four materials and found 19 common differential genes produced by the four materials. These 19 genes are likely involved in the formation of fuzz in upland cotton. Several hub genes belong to the arabinogalactan protein and GDSL lipase, which play important roles in fiber development. According to the differences in expression level, 4 genes were selected from the 19 genes and tested for their expression level in some fuzzless materials. The modules, hub genes, and common genes identified in this study can provide new insights into the formation of fiber and fuzz, and provide a reference for molecular design breeding for the genetic improvement of cotton fiber.

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