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

Sherstyuk, Vladimir V., Medvedev, Sergey P., Elisaphenko, Evgeniy A., Vaskova, Evgeniya A., Ri, Maxim T., Vyatkin, Yuri V., Saik, Olga V., Shtokalo, Dmitry N. +2 more·2017·Scientific Reports
DOI 10.1038/s41598-017-02632-0PMC PMC5459850
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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.

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  • Some small ncRNAs are expressed in a tissue-, cell type-, or cell state-specific manner.

    “with some being shown to be expressed in a tissue- (16), cell type- (17), or even cell state-specific manner (18)”

    From A mouse tissue atlas of small noncoding RNA (2020) · cites this paper as [18]

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Cited by

Sorted by citations

Authors
Sherstyuk, V. V., Medvedev, S. P., Elisaphenko, E. A., Vaskova, E. A., Ri, M. T., Vyatkin, Y. V., Saik, O. V., Shtokalo, D. N., Pokushalov, E. A., & Zakian, S. M.
ORCID
Ri, Maxim T.
Venue
Scientific Reports
Publisher
Springer Science and Business Media LLC
Published
2017-06-05
Volume
7
Issue
1
ISSN
2045-2322
DOI
10.1038/s41598-017-02632-0
PMC
PMC5459850
Cited by
15
References
2
Language
en
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