Cotton Genes, Genetics, and Genomics—2nd Edition

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: 20 January 2025 | Viewed by 1485

Special Issue Editors


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Guest Editor
1. State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China
2. Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
Interests: cotton; polyploidy; domestication; multi-omics; gene regulatory network; duplicated gene expression; abiotic stress

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Co-Guest Editor
Shenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture and Rural Affairs, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
Interests: cotton; verticillium; transcriptome; genes; genome

Special Issue Information

Dear Colleagues, 

Cotton is the most important fiber crop worldwide. Cotton fibers (unicellular seed trichomes) provide an excellent model for studying cell differentiation, polarity, and expansion. The evolutionary history of the cotton genus (Gossypium) also presents an ideal model for investigating the genome evolution of speciation, allopolyploidization, and domestication. However, the allopolyploid nature of tetraploid cotton species still hinders genetic dissection and a mechanistic understanding of phenotypic traits of interest, especially in cultivated upland cotton (G. hirsutum) and sea-island cotton (G. barbadense). In recent years, high-quality genomic resources and the development of emerging technologies (i.e., genome editing, multi-omics technology, and bioinformatics) have facilitated insight into the complicated gene regulatory networks underlying cotton biology and evolution.

In light of these advances, this Special Issue aims to showcase how cotton researchers have leveraged up-to-date resources and new technologies to gain new knowledge of the molecular and functional genomics of cotton. We welcome original research and review manuscripts on diverse topics and scales across cotton genetics and genomics. Submissions on (but not limited to) the following topics are invited: (1) cotton germplasm and genomic resources in terms of evolutionary characterization and genetic dissection, (2) the molecular basis and biological networks of key cotton traits under static and stressed conditions, and (3) biotechnology, bioinformatics, and databases.

Dr. Guanjing Hu
Guest Editor

Dr. Xianpeng Xiong
Co-Guest Editor

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Keywords

  • cotton
  • gene identification and functional validation
  • functional genomics
  • multi-omics
  • gene networks
  • stress tolerance

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Published Papers (1 paper)

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Research

20 pages, 8535 KiB  
Article
RNA-Seq and WGCNA Analyses Reveal Key Regulatory Modules and Genes for Salt Tolerance in Cotton
by Bo Pang, Jing Li, Ru Zhang, Ping Luo, Zhengrui Wang, Shunyu Shi, Wenwei Gao and Shengmei Li
Genes 2024, 15(9), 1176; https://doi.org/10.3390/genes15091176 - 7 Sep 2024
Viewed by 1181
Abstract
The problem of soil salinization has seriously hindered agricultural development. Cotton is a pioneering salinity-tolerant crop, so harvesting its key salinity-tolerant genes is important for improving crop salt tolerance. In this study, we analyzed changes in the transcriptome expression profiles of the salt-tolerant [...] Read more.
The problem of soil salinization has seriously hindered agricultural development. Cotton is a pioneering salinity-tolerant crop, so harvesting its key salinity-tolerant genes is important for improving crop salt tolerance. In this study, we analyzed changes in the transcriptome expression profiles of the salt-tolerant cultivar Lu Mian 28 (LM) and the salt-sensitive cultivar Zhong Mian Suo 12 (ZMS) after applying salt stress, and we constructed weighted gene co-expression networks (WGCNA). The results indicated that photosynthesis, amino acid biosynthesis, membrane lipid remodeling, autophagy, and ROS scavenging are key pathways in the salt stress response. Plant–pathogen interactions, plant hormone signal transduction, the mitogen-activated protein kinase (MAPK) signaling pathway, and carotenoid biosynthesis are the regulatory networks associated with these metabolic pathways that confer cotton salt tolerance. The gene-weighted co-expression network was used to screen four modules closely related to traits, identifying 114 transcription factors, including WRKYs, ERFs, NACs, bHLHs, bZIPs, and MYBs, and 11 hub genes. This study provides a reference for acquiring salt-tolerant cotton and abundant genetic resources for molecular breeding. Full article
(This article belongs to the Special Issue Cotton Genes, Genetics, and Genomics—2nd Edition)
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