Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells

Vladimir V. Sherstyuk, Sergey P. Medvedev, Evgeniy A. Elisaphenko, Evgeniya A. Vaskova, Maxim T. Ri, Yuri V. Vyatkin, Olga V. Saik, Dmitry N. Shtokalo, Evgeniy A. Pokushalov, Suren M. Zakian

Research output: Contribution to journalArticlepeer-review

7 Citations (Scopus)

Abstract

MicroRNAs (miRNAs) constitute a class of small noncoding RNAs that plays an important role in the post-transcriptional regulation of gene expression. Much evidence has demonstrated that miRNAs are involved in regulating the human and mouse pluripotency. Nevertheless, to our knowledge, miRNAs in the pluripotent stem cells of one of the most commonly used model organisms - the Rattus norvegicus have not been studied. In the present study, we performed deep sequencing of small RNA molecules in the embryonic fibroblasts, embryonic stem cells, and induced pluripotent stem cells of laboratory rats. Bioinformatics analysis revealed 674 known miRNAs and 394 novel miRNA candidates in all of the samples. Expression of known pluripotency-associated miRNAs, such as the miR-290-295 and miR-183-96-182 clusters as well as members of the miR-200 family, was detected in rat pluripotent stem cells. Analysis of the targets of differentially expressed known and novel miRNAs showed their involvement in the regulation of pluripotency and the reprogramming process in rats. Bioinformatics and systems biology approaches identified potential pathways that are regulated by these miRNAs. This study contributes to our understanding of miRNAs in the regulation of pluripotency and cell reprogramming in the laboratory rat.

Original languageEnglish
Article number2787
Pages (from-to)2787
Number of pages12
JournalScientific Reports
Volume7
Issue number1
DOIs
Publication statusPublished - 5 Jun 2017

Keywords

  • Animals
  • Cell Line
  • Computational Biology/methods
  • Gene Expression Profiling
  • Gene Expression Regulation, Developmental
  • Genome-Wide Association Study
  • MicroRNAs/genetics
  • Molecular Sequence Annotation
  • Pluripotent Stem Cells/cytology
  • Rats
  • Transcriptome
  • MOUSE EMBRYOS
  • SELF-RENEWAL
  • MIR-200 FAMILY
  • REPRESSORS ZEB1
  • MURINE
  • EPITHELIAL-MESENCHYMAL TRANSITION
  • PATHWAY
  • TARGETS
  • BLASTOCYSTS
  • HUMAN SOMATIC-CELLS

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