Co-expression network and comparative transcriptome analysis for fiber initiation and elongation reveal genetic differences in two lines from upland cotton CCRI70 RIL population

PeerJ

article

Xiao Jiang¹  Liqiang Fan¹  Pengtao Li³  Xianyan Zou¹  Zhen Zhang¹  Senmiao Fan¹  Juwu Gong¹  Youlu Yuan¹  Haihong Shang¹ 

[1] State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences;School of Agricultural Sciences, Zhengzhou University;School of Biotechnology and Food Engineering, Anyang Institute of Technology

关键词: G. hirsutum;    Fiber initiation;    Fiber elongation;    DEGs;    RNA-seq;    WGCNA;   

DOI  :  10.7717/peerj.11812

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

Upland cotton is the most widely planted for natural fiber around the world, and either lint percentage (LP) or fiber length (FL) is the crucial component tremendously affecting cotton yield and fiber quality, respectively. In this study, two lines MBZ70-053 and MBZ70-236 derived from G. hirsutum CCRI70 recombinant inbred line (RIL) population presenting different phenotypes in LP and FL traits were chosen to conduct RNA sequencing on ovule and fiber samples, aiming at exploring the differences of molecular and genetic mechanisms during cotton fiber initiation and elongation stages. As a result, 249/128, 369/206, 4296/1198 and 3547/2129 up-/down- regulated differentially expressed genes (DGEs) in L2 were obtained at −3, 0, 5 and 10 days post-anthesis (DPA), respectively. Seven gene expression profiles were discriminated using Short Time-series Expression Miner (STEM) analysis; seven modules and hub genes were identified using weighted gene co-expression network analysis. The DEGs were mainly enriched into energetic metabolism and accumulating as well as auxin signaling pathway in initiation and elongation stages, respectively. Meanwhile, 29 hub genes were identified as 14-3-3ω, TBL35, GhACS, PME3, GAMMA-TIP, PUM-7, etc., where the DEGs and hub genes revealed the genetic and molecular mechanisms and differences during cotton fiber development.

【 授权许可】

CC BY