Transcriptome analysis reveals long noncoding RNAs involved in fiber development in cotton (Gossypium arboreum)

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• 作者：Changsong Zou ; Qiaolian Wang ; Cairui Lu ; Wencui Yang…
• 关键词：long noncoding RNAs ; strand specific RNA sequencing ; fiber ; transcriptome ; expression
• 刊名：Science China Life Sciences
• 出版年：2016
• 出版时间：February 2016
• 年：2016
• 卷：59
• 期：2
• 页码：164-171
• 全文大小：1,089 KB
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• 作者单位：Changsong Zou (1)
  Qiaolian Wang (1)
  Cairui Lu (1)
  Wencui Yang (1)
  Youping Zhang (1)
  Hailiang Cheng (1)
  Xiaoxu Feng (1)
  Mtawa Andrew Prosper (1)
  Guoli Song (1)
  
  1. State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, China
  
• 刊物主题：Life Sciences, general;
• 出版者：Springer Berlin Heidelberg
• ISSN：1869-1889

文摘

Long noncoding RNAs (lncRNAs) play important roles in various biological regulatory processes in yeast, mammals, and plants. However, no systematic identification of lncRNAs has been reported in Gossypium arboreum. In this study, the strand-specific RNA sequencing (ssRNA-seq) of samples from cotton fibers and leaves was performed, and lncRNAs involved in fiber initiation and elongation processes were systematically identified and analyzed. We identified 5,996 lncRNAs, of which 3,510 and 2,486 can be classified as long intergenic noncoding RNAs (lincRNAs) and natural antisense transcripts (lncNAT), respectively. LincRNAs and lncNATs are similar in many aspects, but have some differences in exon number, exon length, and transcript length. Expression analysis revealed that 51.9% of lincRNAs and 54.5% of lncNATs transcripts were preferentially expressed at one stage of fiber development, and were significantly highly expressed than protein-coding transcripts (21.7%). During the fiber and rapid elongation stages, rapid and dynamic changes in lncRNAs may contribute to fiber development in cotton. This work describes a set of lncRNAs that are involved in fiber development. The characterization and expression analysis of lncRNAs will facilitate future studies on their roles in fiber development in cotton. Keywords long noncoding RNAs strand specific RNA sequencing fiber transcriptome expression