Genome-wide characterization of the Rho family in cotton provides insights into fiber development

Abstract

Abstract Background Cotton is the source of natural fibers globally, fulfilling 90% of the textile industry's requirements. However, fiber development is a complex biological process comprising four stages. Fiber develops from a single cell, and cell elongation is a vital process in fiber development. Therefore, it is pertinent to understand and exploit mechanisms underlying cell elongation during fiber development. A previous report about cell division control protein 42 (CDC-42) with its key role in cell elongation in eukaryotes inspired us to explore its homologs Rho GTPases for understanding of cell elongation during cotton fiber development. Result We classified 2 066 Rho proteins from 8 Gossypium species into 5 and 8 groups within A and D sub-genomes, respectively. Asymmetric evolution of Rho members was observed among five tetraploids. Population fixation statistics between two short and long fiber genotypes identified highly diverged regions encompassing 34 Rho genes in G. hirustum, and 31 of them were retained through further validation by genome wide association analysis (GWAS). Moreover, a weighted gene co-expression network characterized genome-wide expression patteren of Rho genes based on previously published transcriptome data. Twenty Rho genes from five modules were identified as hub genes which were potentially related to fiber development. Interaction networks of 5 Rho genes based on transcriptional abundance and gene ontology (GO) enrichment emphasized the involvement of Rho in cell wall biosynthesis, fatty acid elongation, and other biological processes. Conclusion Our study characterized the Rho proteins in cotton, provided insights into the cell elongation of cotton fiber and potential application in cotton fiber improvement.

Keywords

• Cotton fiber
• Cell polarity
• Rho family
• Association analysis
• WGCNA