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Open Access Highly Accessed Methodology article

Simultaneous miRNA and mRNA transcriptome profiling of human myoblasts reveals a novel set of myogenic differentiation-associated miRNAs and their target genes

Petr Dmitriev12, Ana Barat1, Anna Polesskaya5, Mary J O’Connell4, Thomas Robert3, Philippe Dessen3, Thomas A Walsh4, Vladimir Lazar1, Ahmed Turki2, Gilles Carnac2, Dalila Laoudj-Chenivesse2, Marc Lipinski1 and Yegor S Vassetzky1*

Author Affiliations

1 UMR 8126, Univ. Paris-Sud 11, CNRS, Institut de Cancérologie Gustave-Roussy, 39, rue Camille-Desmoulins, Villejuif 94805, France

2 INSERM U-1046, 371 Avenue du Doyen Gaston Giraud, Montpellier, F-34295, France

3 Institut de Cancérologie Gustave-Roussy, Villejuif, F-94805, France

4 Bioinformatics and Molecular Evolution Group, School of Biotechnology, Dublin City University, Glasnevin, Dublin 9, Ireland

5 CNRS FRE 3377, CEA Saclay, Gif-sur-Yvette, F-91191, France

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BMC Genomics 2013, 14:265  doi:10.1186/1471-2164-14-265

Published: 18 April 2013

Abstract

Background

miRNA profiling performed in myogenic cells and biopsies from skeletal muscles has previously identified miRNAs involved in myogenesis.

Results

Here, we have performed miRNA transcriptome profiling in human affinity-purified CD56+ myoblasts induced to differentiate in vitro. In total, we have identified 60 miRNAs differentially expressed during myogenic differentiation. Many were not known for being differentially expressed during myogenic differentiation. Of these, 14 (miR-23b, miR-28, miR-98, miR-103, miR-107, miR-193a, miR-210, miR-324-5p, miR-324-3p, miR-331, miR-374, miR-432, miR-502, and miR-660) were upregulated and 6 (miR-31, miR-451, miR-452, miR-565, miR-594 and miR-659) were downregulated. mRNA transcriptome profiling performed in parallel resulted in identification of 6,616 genes differentially expressed during myogenic differentiation.

Conclusions

This simultaneous miRNA/mRNA transcriptome profiling allowed us to predict with high accuracy target genes of myogenesis-related microRNAs and to deduce their functions.

Keywords:
microRNA; Skeletal muscle; Myogenesis; Myoblast