In silico Detection of Novel MicroRNAs Genes in Soybean Genome

LIU Yong-xin; CHANG We; HAN Ying-peng; ZOU Quan; GUO Mao-zu; LI Wen-bin

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In silico Detection of Novel MicroRNAs Genes in Soybean Genome

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The importance of microRNAs (miRNAs) at the post-transcriptional regulation level has recently been recognized in both animals and plants. In this study, the simple and most effective method of comparative genomic approach was used. First known plants miRNAs BLAST against the soybean genome, and then the located candidates were searched for novel miRNAs by RNA folding method in the vicinity (±400 nt) of the candidates. The results showed that a total of 521 novel soybean miRNA genes, including 236 mature miRNAs, were identified. All these mature miRNAs were grouped into 58 families, of which 21 of them were novel family in soybean. The upstream 2 000 nt of potential pre-miRNAs was used for promoter prediction, in order to investigate prediction of miRNAs and detect transcript unit and clustering. In this study, miRNA genes less tend to be present as clusters in soybean. Only 9 clusters, containing 21 miRNA genes (accounted for 4.0% of the total), were observed as part of polycistronic transcripts. Detailed analysis of sequence characteristics of novel miRNAs in soybean and all previous known plants miRNAs, were carried out. These results of this study provide a reference point for further study on miRNAs identification in plants, and improve the understanding of genome in soybean.

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《农业科学学报（英文版）》 |2011年第9期|1336-1345|共10页
作者
LIU Yong-xin; CHANG We; HAN Ying-peng; ZOU Quan; GUO Mao-zu; LI Wen-bin;
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Key Laboratory of Soybean Biology Chinese Ministry of Education/Soybean Research Institute Northeast Agricultural University Harbin 150030 P.R.China;

School of Information Science and Technology Xiamen University Xiamen 361005 P..R.China;

Department of Computer Science and Technology Harbin Institute of Technology Harbin 150001 P.R. China;

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In silico Detection of Novel MicroRNAs Genes in Soybean Genome

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