Enrichment of a set of microRNAs during the cotton fiber development.
Enrichment of a set of microRNAs during the cotton fiber development.
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DOI：
10.1186/1471-2164-10-457
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发表时间：
2009-09-29
期刊：
影响因子：
4.4
通讯作者：
Yang ZM
中科院分区：
文献类型：
--
作者：
Kwak PB;Wang QQ;Chen XS;Qiu CX;Yang ZM
棉花是重要的经济作物之一，为纺织工业提供了优良的纤维。除了在工业和农业上的重要性外，纤维细胞（植物毛状体）也是探索基因表达和调控的生物模型系统。小RNA调控植物生长和发育的许多方面。然而，小RNA是否参与纤维细胞发育的调控尚不清楚。我们采用了由Solexa（Illumina Inc.）研究棉纤维发生和发育过程中小分子RNA的整体表达和复杂性。我们构建了两个小RNA文库，分别从野生型（WT）和绒毛/无绒（WT背景中的fl突变体）棉花胚珠制备。每个文库被单独测序，并产生超过6-7百万个短序列，导致总共超过13百万个序列读段。至少鉴定出22个保守的候选miRNA家族，包括111个成员。7个家族构成了棉花胚珠发育过程中表达的绝大多数miRNAs。预测了大多数保守miRNA的120个独特靶基因。此外，我们在棉花胚珠中鉴定了2种细胞类型特异性的新型miRNA候选物。我们的研究已经证明了野生型和突变体之间的miRNAs表达丰度的显着差异，并表明这些差异表达的miRNAs可能调控明显参与棉花纤维发育的转录本。本研究首次对G.棉花纤维起源和发育的地方。检测到数百万个长度在18~28 nt之间的独特miRNA序列。我们的研究结果支持了miRNAs在调节不同细胞类型发育中的重要性，并表明在棉纤维细胞中鉴定一组全面的miRNAs将有助于我们理解纤维细胞起始和伸长的调控机制。
Cotton (Gossypium hirsutum) is one of the most important economic crops and provides excellent fibers for textile manufacture. In addition to its industrial and agricultural importance, the fiber cell (plant trichome) also is a biological model system for exploring gene expression and regulation. Small RNAs regulate many aspects of plant growth and development. However, whether small RNAs are involved in regulation of fiber cell development is unknown. We adopted a deep sequencing approach developed by Solexa (Illumina Inc.) to investigate global expression and complexity of small RNAs during cotton fiber initiation and development. We constructed two small RNA libraries prepared from wild type (WT) and fuzz/lintless (fl Mutant in the WT background) cotton ovules, respectively. Each library was sequenced individually and generated more than 6-7 million short sequences, resulting in a total of over 13 million sequence reads. At least 22 conserved candidate miRNA families including 111 members were identified. Seven families make up the vast majority of expressed miRNAs in developing cotton ovules. In total 120 unique target genes were predicted for most of conserved miRNAs. In addition, we identified 2 cell-type-specific novel miRNA candidates in cotton ovules. Our study has demonstrated significant differences in expression abundance of miRNAs between the wild-type and mutant, and suggests that these differentially expressed miRNAs potentially regulate transcripts distinctly involved in cotton fiber development. The present study is the first to deep sequence the small RNA population of G. hirsutum ovules where cotton fibers initiate and develop. Millions of unique miRNA sequences ranging from 18~28 nt in length were detected. Our results support the importance of miRNAs in regulating the development of different cell types and indicate that identification of a comprehensive set of miRNAs in cotton fiber cells would facilitate our understanding of the regulatory mechanisms for fiber cell initiation and elongation.
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