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作物学报 ›› 2010, Vol. 36 ›› Issue (08): 1324-1335.doi: 10.3724/SP.J.1006.2010.01324

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

用生物信息学挖掘玉米中的microRNAs及其靶基因

张志明,宋锐,彭华,罗茂,沈亚欧,刘丽,赵茂俊,潘光堂*   

  1. 四川农业大学玉米研究所,四川雅安625014
  • 收稿日期:2009-12-30 修回日期:2010-04-16 出版日期:2010-08-12 网络出版日期:2010-05-20
  • 通讯作者: 潘光堂, E-mail: pangt1956@yahoo.com.cn; Tel: 0835-2882714
  • 基金资助:

    本研究由国家自然科学基金项目(30900901)和教育部高等学校博士学科点专项科研基金项目(20095103120002)资助.

Bioinformatic Prediction of MicroRNAs and Their Target Genes in Maize

ZHANG Zhi-Ming,SONG Rui,PENG Hua,LUO Mao,SHEN Ya-Ou,LIU Li,ZHAO Mao-Jun,PAN Guang-Tang*   

  1. Maize Research Institute,Sichuan Agricultural University,Ya'an 625014,China
  • Received:2009-12-30 Revised:2010-04-16 Published:2010-08-12 Published online:2010-05-20
  • Contact: PAN Guang-Tang, E-mail: pangt1956@yahoo.com.cn; Tel: 0835-2882714

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5584

被引次数

24

摘要： microRNA (miRNA)是一类内源性的、19~24碱基长度的小分子非编码RNA，通过碱基互补调控靶基因的表达，在多细胞生物的基因表达调控过程中扮演着十分重要的角色。植物中的miRNAs具有高度的保守性，这为通过同源比对发现保守的miRNAs提供了思路和途径。本研究通过对拟南芥、水稻等植物已知的miRNAs与玉米EST和GSS数据库的比对，并设置一系列严格的筛选标准，共筛选到23条新的玉米miRNAs；利用WMD 3在线植物miRNAs靶基因预测软件，对新发现的玉米miRNAs进行靶基因预测，总共预测到89个靶基因，进一步功能分析发现这些靶基因参与玉米的生长发育、信号转导、转录调节、新陈代谢及逆境胁迫响应等调控过程。

关键词: microRNA(miRNA), 生物信息学, 预测, 靶基因, 玉米

Abstract: microRNAs (miRNAs) are an extensive class of endogenous, non-coding, short (19–24 nt) RNA molecules directly involved in regulating gene expression at the post-transcriptional level and played an important role in gene expression regulation. Previous reports have noted that plant miRNAs are highly conserved, which provides the foundation for identification of miRNAs in plant species through homology alignment. With the method of bioinformatic computation, all previously known miRNAs in Arabidopsis, rice, and other plant species were blasted against maize EST (expressed sequence tags) and GSS (genomic survey sequence) sequences to select novel miRNAs in maize by a series of filtering criteria. A total of 23 conserved miRNAs were identified and predicted the target genes by a web-based integrated computing system, WMD 3. Total of 89 miRNA targets were predicted and verified to be involved in maize growth and development, signal transduction, transcriptional regulation, metabolism, and stress responses.

Key words: microRNA, Bioinformatics, Prediction Target genes, Maize

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