Dynamics of microRNA expression during mouse prenatal development

MicroRNAs (miRNAs) play a critical role as posttranscriptional regulators of gene expression. The ENCODE Project profiled the expression of miRNAs in an extensive set of organs during a time-course of mouse embryonic development and captured the expression dynamics of 785 miRNAs. We found distinct o...

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Published inGenome research Vol. 29; no. 11; pp. 1900 - 1909
Main Authors Rahmanian, Sorena, Murad, Rabi, Breschi, Alessandra, Zeng, Weihua, Mackiewicz, Mark, Williams, Brian, Davis, Carrie A, Roberts, Brian, Meadows, Sarah, Moore, Dianna, Trout, Diane, Zaleski, Chris, Dobin, Alex, Sei, Lei-Hoon, Drenkow, Jorg, Scavelli, Alex, Gingeras, Thomas R, Wold, Barbara J, Myers, Richard M, Guigó, Roderic, Mortazavi, Ali
Format Journal Article
LanguageEnglish
Published United States Cold Spring Harbor Laboratory Press 01.11.2019
Cold Spring Harbor Laboratory Press (CSHL Press)
Subjects
Animals
Comparative analysis
Embryogenesis
Embryonic Development - genetics
Female
Gene expression
Gene Expression Regulation, Developmental
Mice
MicroRNAs
MicroRNAs - genetics
miRNA
Post-transcription
Pregnancy
Prenatal development
Resource
RNA, Messenger - genetics
Zebrafish
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Summary:MicroRNAs (miRNAs) play a critical role as posttranscriptional regulators of gene expression. The ENCODE Project profiled the expression of miRNAs in an extensive set of organs during a time-course of mouse embryonic development and captured the expression dynamics of 785 miRNAs. We found distinct organ-specific and developmental stage-specific miRNA expression clusters, with an overall pattern of increasing organ-specific expression as embryonic development proceeds. Comparative analysis of conserved miRNAs in mouse and human revealed stronger clustering of expression patterns by organ type rather than by species. An analysis of messenger RNA expression clusters compared with miRNA expression clusters identifies the potential role of specific miRNA expression clusters in suppressing the expression of mRNAs specific to other developmental programs in the organ in which these miRNAs are expressed during embryonic development. Our results provide the most comprehensive time-course of miRNA expression as part of an integrated ENCODE reference data set for mouse embryonic development.
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These authors contributed equally to this work.
ISSN:1088-9051
1549-5469
1549-5469
DOI:10.1101/gr.248997.119