计算识别水稻基因组中microRNA基因

一些低丰度的m iRNA和组织特异性m iRNA往往很难发现,利用生物信息学方法,根据已知水稻m iRNA的各种属性,设计m iRNA前体预测程序——P reM iRF ind,从全基因组范围中预测出1 375条m iRNA前体,然后利用已知拟南芥的m iRNA对这1 375条前体进行同源检索,找出166条m iRNA前体,再用水稻已知的m iRNA对这166条序列进行检索,发现其中153条与已知的水稻m icroRNA完全相同,对剩余的13条m iRNA前体预测序列用m Fo ld作进一步结构分析,最后得到10条新的候选m iRNA基因序列。

Computational identification of novel family members of microRNA genes in Oryza sativa genome

MicroRNAs(miRNA) are about 21 nt long non-coding RNAs derived from larger hairpin RNA precursors and play important regulatory roles in both animals and plants.The low abundance of some miRNAs and their time-and tissue-specific expression patterns make experimental miRNA identification difficult.Here a program-PreMiRFind for genome-wide prediction of Oryza microRNAs was presented.This method used characteristic features of known Oryza miRNAs as criteria to search for miRNAs.Our prediction identified 1 375 pre-miRNA candidates.The 166 premiRNAs were reservation as criteria to search for miRNAs conserved between Arabidopsis and Oryza sativa.153 pre-miRNAs were the same as known miRNAs and then the structures of the 13 pre-miRNAs were analyzed further.Finally 10 new miRNAs were obtained.