Transcriptome Characteristics and X-Chromosome Inactivation Status in Cultured Rat Pluripotent Stem Cells

Тип публикации: статья из журнала

Год издания: 2015

Идентификатор DOI: 10.1089/scd.2015.0204

Ключевые слова: dppa3 protein, eras protein, octamer transcription factor 4, rex1 protein, transcription factor NANOG, transcription factor Sox2, transcriptome, unclassified drug, animal cell, animal experiment, Article, Brattleboro rat, cell differentiation, cell renewal, cell structure, cell viability, chromosome aberration, chromosome rearrangement, controlled study, embryonic stem cell, female, genomic instability, hematopoietic stem cell, heterochromatin, histone modification, karyotype 46,XX, male, mouse, nonhuman, nuclear reprogramming, pluripotent stem cell, pluripotent stem cell line, priority journal, promoter region, protein expression, rat, RNA sequence, Robertsonian chromosome translocation, somatic cell, Wistar albino Glaxo rat, X chromosome, X chromosome inactivation

Аннотация: Rat pluripotent stem cells, embryonic stem cells (ESCs), and induced pluripotent stem cells (iPSCs) as mouse and human ones have a great potential for studying mammalian early development, disease modeling, and evaluation of regenerative medicine approaches. However, data on pluripotency realization and self-renewal maintenance in rat cells are still very limited, and differentiation protocols of rat ESCs (rESCs) and iPSCs to study development and obtain specific cell types for biomedical applications are poorly developed. In this study, the RNA-Seq technique was first used for detailed transcriptome characterization in rat pluripotent cells. The rESC and iPSC transcriptomes demonstrated a high similarity and were significantly different from those in differentiated cells. Additionally, we have shown that reprogramming of rat somatic cells to a pluripotent state was accompanied by X-chromosome reactivation. There were two active X chromosomes in XX rESCs and iPSCs, which is one of the key attributes of the pluripotent state. Differentiation of both rESCs and iPSCs led to X-chromosome inactivation (XCI). The dynamics of XCI in differentiating rat cells was very similar to that in mice. Two types of facultative heterochromatin described in various mammalian species were revealed on the rat inactive X chromosome. To explore XCI dynamics, we established a new monolayer differentiation protocol for rESCs and iPSCs that may be applied to study different biological processes and optimized for directed derivation of specific cell types. © 2015 Mary Ann Liebert, Inc.

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Издание

Журнал: Stem Cells and Development

Выпуск журнала: Vol. 24, Is. 24

Номера страниц: 2912-2924

Авторы

  • Vaskova E.A. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Fed)
  • Medvedev S.P. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Fe)
  • Sorokina A.E. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Fe)
  • Nemudryy A.A. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Fe)
  • Elisaphenko E.A. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian)
  • Zakharova I.S. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian F)
  • Shevchenko A.I. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian )
  • Kizilova E.A. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation)
  • Zhelezova A.I. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation)
  • Evshin I.S. (Institute of Systems Biology Ltd., Novosibirsk, Russian Federation, Design Technological Institute of Digital Techniques, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russian Federation)
  • Sharipov R.N. (Novosibirsk State University, Novosibirsk, Russian Federation, Institute of Systems Biology Ltd., Novosibirsk, Russian Federation, Design Technological Institute of Digital Techniques, Siberian Branch, Russian Academy of Sciences, Novosibi)
  • Minina J.M. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation)
  • Zhdanova N.S. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation)
  • Khegay I.I. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation)
  • Kolpakov F.A. (Institute of Systems Biology Ltd., Novosibirsk, Russian Federation, Design Technological Institute of Digital Techniques, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russian Federation)
  • Sukhikh G.T. (Research Center for Obstetrics, Gynecology and Perinatology, Ministry of Healthcare of the Russian Federation, Moscow, Russian Federation)
  • Pokushalov E.A. (State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Federation, Novosibirsk, Russian Federation)
  • Karaskov A.M. (State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Federation, Novosibirsk, Russian Federation)
  • Vlasov V.V. (Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russian Federation, Novosibirsk State University, Novosibirsk, Russian Federation)
  • Ivanova L.N. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, Novosibirsk State University, Novosibirsk, Russian Federation)
  • Zakian S.M. (Federal Research Center, Institute of Cytology and Genetics, Russian Academy of Sciences, Prospekt Lavrentyeva 10, Novosibirsk, Russian Federation, State Research Institute of Circulation Pathology, Ministry of Healthcare of the Russian Fede)

Вхождение в базы данных

  • Scopus (цитирований 11)

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