Exp Mol Med.  2009 Sep;41(9):638-647. 10.3858/emm.2009.41.9.070.

Comprehensive analysis of microRNA-mRNA co-expression in circadian rhythm

• Na YJ
• Sung JH
• Lee SC
• Lee YJ
• Choi YJ
• Park WY
• Shin HS
• Kim JH

• KMID: 756207
• DOI: http://doi.org/10.3858/emm.2009.41.9.070

Abstract

To investigate the potential role of microRNA (miRNA) in the regulation of circadian rhythm, we performed microarray-based expression profiling study of both miRNA and mRNA in mouse liver for 48 h at 4-hour intervals. Circadian miRNA-mRNA target pair is defined as the pair both elements of which show circadian expression patterns and the sequence-based target relationship of which can be predicted. Circadian initiators, Clock and Bmal1, showed inversely correlated circadian expression patterns against their corresponding miRNAs, miR-181d and miR-191, targeting them. In contrast, circadian suppressors, Per, Cry, CKIe and Rev-erba, exhibited positively correlated circadian expression patterns to their corresponding miRNAs. Genomic location analysis revealed that intronic region showed higher abundance of cyclic than non-cyclic miRNAs targeting circadian genes while other (i.e., 3'-UTR, exon and intergenic) regions showed no difference. It is suggested that miRNAs are involved in the regulation of peripheral circadian rhythm in mouse liver by modulating Clock:Bmal1 complex. Identifying specific miRNAs and their targets that are critically involved in circadian rhythm will provide a better understanding of the regulation of circadian-clock system.

Keyword

circadian rhythm; gene expression profiling; gene expression regulation; liver; mice; micro-RNA

MeSH Terms

Animals
*Circadian Rhythm
Gene Expression Profiling
Gene Expression Regulation
Liver/metabolism
Male
Mice
Mice, Inbred C57BL
MicroRNAs/*genetics
RNA, Messenger/*genetics