Elsevier

Genomics

Volume 109, Issues 3–4, July 2017, Pages 320-329
Genomics

Genome-wide analysis of gene expression of EMS-induced short fiber mutant Ligon lintless-y (liy) in cotton (Gossypium hirsutum L.)

https://doi.org/10.1016/j.ygeno.2017.05.007Get rights and content
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Highlights

  • We describe a new EMS-induced short fiber recessive mutant, Ligon-lintless-y (liy).

  • RNAseq analysis of wild type and liy fiber cells at 3, 8 and 16 DPA was performed.

  • Many metabolic pathways, including carbohydrate, cell wall, hormone metabolism and transport were altered in liy.

Abstract

In this work we describe a chemically-induced short fiber mutant cotton line, Ligon-lintless-y (liy), which is controlled by a single recessive locus and affects multiple traits, including height of the plant, and length and maturity of fiber. An RNAseq analysis was used to evaluate global transcriptional changes during cotton fiber development at 3, 8 and 16 days post anthesis. We found that 613, 2629 and 3397 genes were significantly down-regulated, while 2700, 477 and 3260 were significantly up-regulated in liy at 3, 8 and 16 DPA. Gene set enrichment analysis revealed that many metabolic pathways, including carbohydrate, cell wall, hormone metabolism and transport were substantially altered in liy developing fibers. We discuss perturbed expression of genes involved in signal transduction and biosynthesis of phytohormones, such as auxin, abscisic acid, gibberellin and ethylene. The results of this study provide new insights into transcriptional regulation of cotton fiber development.

Keywords

Cotton
Fiber
Elongation
RNAseq
liy Mutation

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