Regulatory networks of coresident subgenomes during rapid fiber cell elongation in upland cotton  

作　　者：Lan Yang Wenqiang Qin Xi Wei Rui Liu Jiaxiang Yang Zhi Wang Qingdi Yan Yihao Zhang Wei Hu Xiao Han Chenxu Gao Jingjing Zhan Baibai Gao Xiaoyang Ge Fuguang Li Zhaoen Yang 

机构地区：[1]National Key Laboratory of Cotton Bio-breeding and Integrated Utilization,Institute of Cotton Research Chinese Academy of Agricultural Sciences,Anyang 455000,China [2]National Key Laboratory of Cotton Bio‑breeding and Integrated Utilization,School of Agricultural Sciences,Zhengzhou Univeristy,Zhengzhou 450000,China

出　　处：《Plant Communications》2024年第12期178-194,共17页植物通讯(英文)

基　　金：National Key Research and Development Program of China(2021YFF1000102-1 and 2023YFD2301201);Innovation Program of the Chinese Academy of Agricultural Sciences(CAASASTIP-IVFCAAS);Fundamental Research Funds of State Key Laboratory of Cotton Biology(CB2021E03);Key Research and Development Project of Henan Province(231111110400).

摘　　要：Cotton, an intriguing plant species shaped by polyploidization, evolution, and domestication, holds particular interest due to the complex mechanisms governing fiber traits across its two subgenomes. However, the regulatory elements or transcriptional networks between subgenomes during fiber elongation remain to be fully clarified. Here, we analyzed 1462 cotton fiber samples to reconstruct the gene-expression regulatory networks that influence fiber cell elongation. Inter-subgenome expression quantitative trait loci (eQTLs) largely dictate gene transcription, with a notable tendency for the D subgenome to regulate A-subgenome eGenes. This regulation reveals synchronized homoeologous gene expression driven by co-localized eQTLs and divergent patterns that diminish genetic correlations, thus leading to preferential expression in the A and D subgenomes. Hotspot456 emerged as a key regulator of fiber initiation and elongation, and artificial selection of trans-eQTLs in hotspot456 that positively regulate KCS1 has facilitated cell elongation. Experiments designed to clarify the roles of trans-eQTLs in improved fiber breeding confirmed the inhibition of GhTOL9 by a specific trans-eQTL via GhWRKY28, which negatively affects fiber elongation. We propose a model in which the GhWRKY28–GhTOL9 module regulates this process through the ESCRT (endosomal sorting complex required for transport) pathway. This research significantly advances our understanding of cotton’s evolutionary and domestication processes and the intricate regulatory mechanisms that underlie significant plant traits.

关 键 词：cottonfiber EQTL regulatory network DOMESTICATION 

分 类 号：S562[农业科学—作物学]