hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells

Peter J. Thompson, Vered Dulberg, Kyung Mee Moon, Leonard J. Foster, Carol Chen, Mohammad M. Karimi, Matthew C. Lorincz

Research output: Contribution to journalArticle

27 Citations (Scopus)

Abstract

Retrotransposition of endogenous retroviruses (ERVs) poses a substantial threat to genome stability. Transcriptional silencing of a subset of these parasitic elements in early mouse embryonic and germ cell development is dependent upon the lysine methyltransferase SETDB1, which deposits H3K9 trimethylation (H3K9me3) and the co-repressor KAP1, which binds SETDB1 when SUMOylated. Here we identified the transcription co-factor hnRNP K as a novel binding partner of the SETDB1/KAP1 complex in mouse embryonic stem cells (mESCs) and show that hnRNP K is required for ERV silencing. RNAi-mediated knockdown of hnRNP K led to depletion of H3K9me3 at ERVs, concomitant with de-repression of proviral reporter constructs and specific ERV subfamilies, as well as a cohort of germline-specific genes directly targeted by SETDB1. While hnRNP K recruitment to ERVs is dependent upon KAP1, SETDB1 binding at these elements requires hnRNP K. Furthermore, an intact SUMO conjugation pathway is necessary for SETDB1 recruitment to proviral chromatin and depletion of hnRNP K resulted in reduced SUMOylation at ERVs. Taken together, these findings reveal a novel regulatory hierarchy governing SETDB1 recruitment and in turn, transcriptional silencing in mESCs.

Original languageEnglish
Article numbere1004933
JournalPLoS Genetics
Volume11
Issue number1
DOIs
Publication statusPublished - 2015
Externally publishedYes

Fingerprint

Heterogeneous-Nuclear Ribonucleoprotein K
Retroviridae
Endogenous Retroviruses
embryonic stem cells
Embryonic Stem Cells
stem
Sumoylation
germ cell
germ cells
mice
genome
Co-Repressor Proteins
gene
Genomic Instability
methyltransferases
Methyltransferases
RNA Interference
Lysine
Chromatin
chromatin

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology
  • Ecology, Evolution, Behavior and Systematics
  • Cancer Research
  • Genetics(clinical)
  • Medicine(all)

Cite this

Thompson, P. J., Dulberg, V., Moon, K. M., Foster, L. J., Chen, C., Karimi, M. M., & Lorincz, M. C. (2015). hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells. PLoS Genetics, 11(1), [e1004933]. https://doi.org/10.1371/journal.pgen.1004933

hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells. / Thompson, Peter J.; Dulberg, Vered; Moon, Kyung Mee; Foster, Leonard J.; Chen, Carol; Karimi, Mohammad M.; Lorincz, Matthew C.

In: PLoS Genetics, Vol. 11, No. 1, e1004933, 2015.

Research output: Contribution to journalArticle

Thompson, PJ, Dulberg, V, Moon, KM, Foster, LJ, Chen, C, Karimi, MM & Lorincz, MC 2015, 'hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells', PLoS Genetics, vol. 11, no. 1, e1004933. https://doi.org/10.1371/journal.pgen.1004933
Thompson, Peter J. ; Dulberg, Vered ; Moon, Kyung Mee ; Foster, Leonard J. ; Chen, Carol ; Karimi, Mohammad M. ; Lorincz, Matthew C. / hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells. In: PLoS Genetics. 2015 ; Vol. 11, No. 1.
@article{21d274ceacb847d08ead7119edb26b15,
title = "hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells",
abstract = "Retrotransposition of endogenous retroviruses (ERVs) poses a substantial threat to genome stability. Transcriptional silencing of a subset of these parasitic elements in early mouse embryonic and germ cell development is dependent upon the lysine methyltransferase SETDB1, which deposits H3K9 trimethylation (H3K9me3) and the co-repressor KAP1, which binds SETDB1 when SUMOylated. Here we identified the transcription co-factor hnRNP K as a novel binding partner of the SETDB1/KAP1 complex in mouse embryonic stem cells (mESCs) and show that hnRNP K is required for ERV silencing. RNAi-mediated knockdown of hnRNP K led to depletion of H3K9me3 at ERVs, concomitant with de-repression of proviral reporter constructs and specific ERV subfamilies, as well as a cohort of germline-specific genes directly targeted by SETDB1. While hnRNP K recruitment to ERVs is dependent upon KAP1, SETDB1 binding at these elements requires hnRNP K. Furthermore, an intact SUMO conjugation pathway is necessary for SETDB1 recruitment to proviral chromatin and depletion of hnRNP K resulted in reduced SUMOylation at ERVs. Taken together, these findings reveal a novel regulatory hierarchy governing SETDB1 recruitment and in turn, transcriptional silencing in mESCs.",
author = "Thompson, {Peter J.} and Vered Dulberg and Moon, {Kyung Mee} and Foster, {Leonard J.} and Carol Chen and Karimi, {Mohammad M.} and Lorincz, {Matthew C.}",
year = "2015",
doi = "10.1371/journal.pgen.1004933",
language = "English",
volume = "11",
journal = "PLoS Genetics",
issn = "1553-7390",
publisher = "Public Library of Science",
number = "1",

}

TY - JOUR

T1 - hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells

AU - Thompson, Peter J.

AU - Dulberg, Vered

AU - Moon, Kyung Mee

AU - Foster, Leonard J.

AU - Chen, Carol

AU - Karimi, Mohammad M.

AU - Lorincz, Matthew C.

PY - 2015

Y1 - 2015

N2 - Retrotransposition of endogenous retroviruses (ERVs) poses a substantial threat to genome stability. Transcriptional silencing of a subset of these parasitic elements in early mouse embryonic and germ cell development is dependent upon the lysine methyltransferase SETDB1, which deposits H3K9 trimethylation (H3K9me3) and the co-repressor KAP1, which binds SETDB1 when SUMOylated. Here we identified the transcription co-factor hnRNP K as a novel binding partner of the SETDB1/KAP1 complex in mouse embryonic stem cells (mESCs) and show that hnRNP K is required for ERV silencing. RNAi-mediated knockdown of hnRNP K led to depletion of H3K9me3 at ERVs, concomitant with de-repression of proviral reporter constructs and specific ERV subfamilies, as well as a cohort of germline-specific genes directly targeted by SETDB1. While hnRNP K recruitment to ERVs is dependent upon KAP1, SETDB1 binding at these elements requires hnRNP K. Furthermore, an intact SUMO conjugation pathway is necessary for SETDB1 recruitment to proviral chromatin and depletion of hnRNP K resulted in reduced SUMOylation at ERVs. Taken together, these findings reveal a novel regulatory hierarchy governing SETDB1 recruitment and in turn, transcriptional silencing in mESCs.

AB - Retrotransposition of endogenous retroviruses (ERVs) poses a substantial threat to genome stability. Transcriptional silencing of a subset of these parasitic elements in early mouse embryonic and germ cell development is dependent upon the lysine methyltransferase SETDB1, which deposits H3K9 trimethylation (H3K9me3) and the co-repressor KAP1, which binds SETDB1 when SUMOylated. Here we identified the transcription co-factor hnRNP K as a novel binding partner of the SETDB1/KAP1 complex in mouse embryonic stem cells (mESCs) and show that hnRNP K is required for ERV silencing. RNAi-mediated knockdown of hnRNP K led to depletion of H3K9me3 at ERVs, concomitant with de-repression of proviral reporter constructs and specific ERV subfamilies, as well as a cohort of germline-specific genes directly targeted by SETDB1. While hnRNP K recruitment to ERVs is dependent upon KAP1, SETDB1 binding at these elements requires hnRNP K. Furthermore, an intact SUMO conjugation pathway is necessary for SETDB1 recruitment to proviral chromatin and depletion of hnRNP K resulted in reduced SUMOylation at ERVs. Taken together, these findings reveal a novel regulatory hierarchy governing SETDB1 recruitment and in turn, transcriptional silencing in mESCs.

UR - http://www.scopus.com/inward/record.url?scp=84924359019&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84924359019&partnerID=8YFLogxK

U2 - 10.1371/journal.pgen.1004933

DO - 10.1371/journal.pgen.1004933

M3 - Article

C2 - 25611934

AN - SCOPUS:84924359019

VL - 11

JO - PLoS Genetics

JF - PLoS Genetics

SN - 1553-7390

IS - 1

M1 - e1004933

ER -