Identification of micro-RNAs in cotton
Identification of micro-RNAs in cotton
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DOI：
10.1016/j.plaphy.2008.05.009
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发表时间：
2008-08-01
影响因子：
6.5
通讯作者：
Riazuddin, Sheikh
中科院分区：
文献类型：
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作者：
Barozai, Muhammad Younas Khan;Irfan, Muhammad;Riazuddin, Sheikh
植物基因组具有约20-24个核苷酸长的保守的小的非编码microRNA（miRNAs）基因。它们在植物生命的各个阶段的基因调控中起着至关重要的作用。它们在各种生物中的保守性不仅表明它们在真核生物中的早期进化，而且使它们成为利用生物信息学工具进行同源性搜索发现新的miRNA的良好来源。从GenBank中的棉属已知序列中系统检索了miRNA前体的种间直向同源物。该研究产生了属于13个家族的22种miRNAs。我们在棉花中首次发现了7个miRNA家族（miR 160、164、827、829、836、845和865）。所有22种miRNA前体都形成稳定的最小自由能（mfe）茎环结构，因为它们的直向同源物在拟南芥中形成，并且成熟的miRNA驻留在茎环结构的茎部分中。15个miRNA属于世界上最商业化的纤维生产高地棉（陆地棉），5个来自雷蒙棉，并且草本棉和亚洲棉各一个。其作用靶点包括转录因子、细胞分裂调节蛋白和病毒应答基因。这22个miRNAs的发现将有助于进一步研究每种miRNAs在棉花生命周期特定阶段的功能。(C)2008年，Elsevier Masson SAS。All rights reserved.
The plant genome has conserved small non-coding microRNAs (miRNAs) genes about 20-24 nucleotides long. They play a vital role in the gene regulation at various stages of plant life. Their conserved nature among the various organisms not only suggests their early evolution in eukaryotes but also makes them a good source of new miRNA discovery by homology search using bioinformatics tools. A systematic search approach was used for interspecies orthologues of miRNA precursors, from known sequences of Gossypium in GenBank. The study resulted in 22 miRNAs belonging to 13 families. We found 7 miRNA families (miR160, 164, 827, 829, 836, 845 and 865) for the first time in cotton. All 22 miRNA precursors form stable minimum free energy (mfe) stem loop structure as their orthologues form in Arabidopsis and the mature miRNAs reside in the stem portion of the stem loop structure. Fifteen miRNAs belong to the world's most commercial fiber producing upland cotton (Gossypium hirsutum), five are from Gossypium raimondii and one each is from Gossypium herbaceum and Gossypium arboreum. Their targets consist of transcription factors, cell division regulating proteins and virus response gene. The discovery of 22 miRNAs will be helpful in future for detection of precise function of each miRNA at a particular stage in life cycle of cotton. (C) 2008 Elsevier Masson SAS. All rights reserved.