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

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, miRNA...

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Autores principales:	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
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4290a1fa61c244d4b5bfea8034b6f997
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spelling	oai:doaj.org-article:4290a1fa61c244d4b5bfea8034b6f9972021-12-02T15:05:22ZGenome-wide profiling and differential expression of microRNA in rat pluripotent stem cells10.1038/s41598-017-02632-02045-2322https://doaj.org/article/4290a1fa61c244d4b5bfea8034b6f9972017-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-02632-0https://doaj.org/toc/2045-2322Abstract 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.Vladimir V. SherstyukSergey P. MedvedevEvgeniy A. ElisaphenkoEvgeniya A. VaskovaMaxim T. RiYuri V. VyatkinOlga V. SaikDmitry N. ShtokaloEvgeniy A. PokushalovSuren M. ZakianNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-12 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q 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 Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
description	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.
format	article
author	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
author_facet	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
author_sort	Vladimir V. Sherstyuk
title	Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
title_short	Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
title_full	Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
title_fullStr	Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
title_full_unstemmed	Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells
title_sort	genome-wide profiling and differential expression of microrna in rat pluripotent stem cells
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/4290a1fa61c244d4b5bfea8034b6f997
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Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells

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