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Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells

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Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells. / Samudyata; Amaral, Paulo P.; Engström, Pär G.; Robson, Samuel C.; Nielsen, Michael L.; Kouzarides, Tony; Castelo-Branco, Gonçalo.

In: Experimental Cell Research, Vol. 381, No. 1, 01.08.2019, p. 129-138.

Research output: Contribution to journalArticle

Harvard

Samudyata, Amaral, PP, Engström, PG, Robson, SC, Nielsen, ML, Kouzarides, T & Castelo-Branco, G 2019, 'Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells', Experimental Cell Research, vol. 381, no. 1, pp. 129-138. https://doi.org/10.1016/j.yexcr.2019.05.006

APA

Samudyata, Amaral, P. P., Engström, P. G., Robson, S. C., Nielsen, M. L., Kouzarides, T., & Castelo-Branco, G. (2019). Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells. Experimental Cell Research, 381(1), 129-138. https://doi.org/10.1016/j.yexcr.2019.05.006

Vancouver

Samudyata, Amaral PP, Engström PG, Robson SC, Nielsen ML, Kouzarides T et al. Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells. Experimental Cell Research. 2019 Aug 1;381(1):129-138. https://doi.org/10.1016/j.yexcr.2019.05.006

Author

Samudyata ; Amaral, Paulo P. ; Engström, Pär G. ; Robson, Samuel C. ; Nielsen, Michael L. ; Kouzarides, Tony ; Castelo-Branco, Gonçalo. / Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells. In: Experimental Cell Research. 2019 ; Vol. 381, No. 1. pp. 129-138.

Bibtex

@article{1edf044511644a04bd62c80f15bb61b5,
title = "Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells",
abstract = "Sox2 is a master transcriptional regulator of embryonic development. In this study, we determined the protein interactome of Sox2 in the chromatin and nucleoplasm of mouse embryonic stem (mES) cells. Apart from canonical interactions with pluripotency-regulating transcription factors, we identified interactions with several chromatin modulators, including members of the heterochromatin protein 1 (HP1) family, suggesting a role of Sox2 in chromatin-mediated transcriptional repression. Sox2 was also found to interact with RNA binding proteins (RBPs), including proteins involved in RNA processing. RNA immunoprecipitation followed by sequencing revealed that Sox2 associates with different messenger RNAs, as well as small nucleolar RNA Snord34 and the non-coding RNA 7SK. 7SK has been shown to regulate transcription at regulatory regions, which could suggest a functional interaction with Sox2 for chromatin recruitment. Nevertheless, we found no evidence of Sox2 modulating recruitment of 7SK to chromatin when examining 7SK chromatin occupancy by Chromatin Isolation by RNA Purification (ChIRP) in Sox2 depleted mES cells. In addition, knockdown of 7SK in mES cells did not lead to any change in Sox2 occupancy at 7SK-regulated genes. Thus, our results show that Sox2 extensively interact with RBPs, and suggest that Sox2 and 7SK co-exist in a ribonucleoprotein complex whose function is not to regulate chromatin recruitment, but might rather regulate other processes in the nucleoplasm.",
keywords = "Sox2, 7SK, non-coding, RNA, pluripotency, RNA binding protein, chromatin, SILAC, quantative proteomics, ChIRP, RNA immunoprecipitation",
author = "Samudyata and Amaral, {Paulo P.} and Engstr{\"o}m, {P{\"a}r G.} and Robson, {Samuel C.} and Nielsen, {Michael L.} and Tony Kouzarides and Gon{\c c}alo Castelo-Branco",
year = "2019",
month = aug,
day = "1",
doi = "10.1016/j.yexcr.2019.05.006",
language = "English",
volume = "381",
pages = "129--138",
journal = "Experimental Cell Research",
issn = "0014-4827",
publisher = "Elsevier Inc.",
number = "1",

}

RIS

TY - JOUR

T1 - Interaction of Sox2 with RNA binding proteins in mouse embryonic stem cells

AU - Samudyata, null

AU - Amaral, Paulo P.

AU - Engström, Pär G.

AU - Robson, Samuel C.

AU - Nielsen, Michael L.

AU - Kouzarides, Tony

AU - Castelo-Branco, Gonçalo

PY - 2019/8/1

Y1 - 2019/8/1

N2 - Sox2 is a master transcriptional regulator of embryonic development. In this study, we determined the protein interactome of Sox2 in the chromatin and nucleoplasm of mouse embryonic stem (mES) cells. Apart from canonical interactions with pluripotency-regulating transcription factors, we identified interactions with several chromatin modulators, including members of the heterochromatin protein 1 (HP1) family, suggesting a role of Sox2 in chromatin-mediated transcriptional repression. Sox2 was also found to interact with RNA binding proteins (RBPs), including proteins involved in RNA processing. RNA immunoprecipitation followed by sequencing revealed that Sox2 associates with different messenger RNAs, as well as small nucleolar RNA Snord34 and the non-coding RNA 7SK. 7SK has been shown to regulate transcription at regulatory regions, which could suggest a functional interaction with Sox2 for chromatin recruitment. Nevertheless, we found no evidence of Sox2 modulating recruitment of 7SK to chromatin when examining 7SK chromatin occupancy by Chromatin Isolation by RNA Purification (ChIRP) in Sox2 depleted mES cells. In addition, knockdown of 7SK in mES cells did not lead to any change in Sox2 occupancy at 7SK-regulated genes. Thus, our results show that Sox2 extensively interact with RBPs, and suggest that Sox2 and 7SK co-exist in a ribonucleoprotein complex whose function is not to regulate chromatin recruitment, but might rather regulate other processes in the nucleoplasm.

AB - Sox2 is a master transcriptional regulator of embryonic development. In this study, we determined the protein interactome of Sox2 in the chromatin and nucleoplasm of mouse embryonic stem (mES) cells. Apart from canonical interactions with pluripotency-regulating transcription factors, we identified interactions with several chromatin modulators, including members of the heterochromatin protein 1 (HP1) family, suggesting a role of Sox2 in chromatin-mediated transcriptional repression. Sox2 was also found to interact with RNA binding proteins (RBPs), including proteins involved in RNA processing. RNA immunoprecipitation followed by sequencing revealed that Sox2 associates with different messenger RNAs, as well as small nucleolar RNA Snord34 and the non-coding RNA 7SK. 7SK has been shown to regulate transcription at regulatory regions, which could suggest a functional interaction with Sox2 for chromatin recruitment. Nevertheless, we found no evidence of Sox2 modulating recruitment of 7SK to chromatin when examining 7SK chromatin occupancy by Chromatin Isolation by RNA Purification (ChIRP) in Sox2 depleted mES cells. In addition, knockdown of 7SK in mES cells did not lead to any change in Sox2 occupancy at 7SK-regulated genes. Thus, our results show that Sox2 extensively interact with RBPs, and suggest that Sox2 and 7SK co-exist in a ribonucleoprotein complex whose function is not to regulate chromatin recruitment, but might rather regulate other processes in the nucleoplasm.

KW - Sox2

KW - 7SK

KW - non-coding

KW - RNA

KW - pluripotency

KW - RNA binding protein

KW - chromatin

KW - SILAC

KW - quantative proteomics

KW - ChIRP

KW - RNA immunoprecipitation

U2 - 10.1016/j.yexcr.2019.05.006

DO - 10.1016/j.yexcr.2019.05.006

M3 - Article

VL - 381

SP - 129

EP - 138

JO - Experimental Cell Research

JF - Experimental Cell Research

SN - 0014-4827

IS - 1

ER -

ID: 13960131