Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells

Aydan Bulut-Karslioglu; Inti A. DeLaRosa-Velázquez; Fidel Ramirez; Maxim Barenboim; Megumi Onishi-Seebacher; Julia Arand; Carmen Galán; Georg E. Winter; Bettina Engist; Borbala Gerle; Roderick J. O'Sullivan; Joost H.A. Martens; Jörn Walter; Thomas Manke; Monika Lachner; Thomas Jenuwein

doi:10.1016/j.molcel.2014.05.029

Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells

Aydan Bulut-Karslioglu, Inti A. DeLaRosa-Velázquez, Fidel Ramirez, Maxim Barenboim, Megumi Onishi-Seebacher, Julia Arand, Carmen Galán, Georg E. Winter, Bettina Engist, Borbala Gerle, Roderick J. O'Sullivan, Joost H.A. Martens, Jörn Walter, Thomas Manke, Monika Lachner, Thomas Jenuwein^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

244 Citations (Scopus)

Abstract

Heterochromatin is required to restrict aberrant expression of retrotransposons, but it remains poorly defined due to the underlying repeat-rich sequences. We dissected Suv39h-dependent histone H3 lysine 9 trimethylation (H3K9me3) by genome-wide ChIP sequencing in mouse embryonic stem cells (ESCs). Refined bioinformatic analyses of repeat subfamilies indicated selective accumulation of Suv39h-dependent H3K9me3 at interspersed repetitive elements that cover ~5% of the ESC epigenome. The majority of the ~8,150 intact long interspersed nuclear elements (LINEs) and endogenous retroviruses (ERVs), but only a minor fraction of the >1.8 million degenerate and truncated LINEs/ERVs, are enriched for Suv39h-dependent H3K9me3. Transcriptional repression of intact LINEs and ERVs is differentially regulated by Suv39h and other chromatin modifiers in ESCs but governed by DNA methylation in committed cells. These data provide a function for Suv39h-dependent H3K9me3 chromatin to specifically repress intact LINE elements in the ESC epigenome.

Original language	English
Pages (from-to)	277-290
Number of pages	14
Journal	Molecular Cell
Volume	55
Issue number	2
DOIs	https://doi.org/10.1016/j.molcel.2014.05.029
Publication status	Published - 17 Jul 2014
Externally published	Yes

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Bulut-Karslioglu, A., DeLaRosa-Velázquez, I. A., Ramirez, F., Barenboim, M., Onishi-Seebacher, M., Arand, J., Galán, C., Winter, G. E., Engist, B., Gerle, B., O'Sullivan, R. J., Martens, J. H. A., Walter, J., Manke, T., Lachner, M., & Jenuwein, T. (2014). Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells. Molecular Cell, 55(2), 277-290. https://doi.org/10.1016/j.molcel.2014.05.029

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title = "Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells",

abstract = "Heterochromatin is required to restrict aberrant expression of retrotransposons, but it remains poorly defined due to the underlying repeat-rich sequences. We dissected Suv39h-dependent histone H3 lysine 9 trimethylation (H3K9me3) by genome-wide ChIP sequencing in mouse embryonic stem cells (ESCs). Refined bioinformatic analyses of repeat subfamilies indicated selective accumulation of Suv39h-dependent H3K9me3 at interspersed repetitive elements that cover ~5% of the ESC epigenome. The majority of the ~8,150 intact long interspersed nuclear elements (LINEs) and endogenous retroviruses (ERVs), but only a minor fraction of the >1.8 million degenerate and truncated LINEs/ERVs, are enriched for Suv39h-dependent H3K9me3. Transcriptional repression of intact LINEs and ERVs is differentially regulated by Suv39h and other chromatin modifiers in ESCs but governed by DNA methylation in committed cells. These data provide a function for Suv39h-dependent H3K9me3 chromatin to specifically repress intact LINE elements in the ESC epigenome.",

author = "Aydan Bulut-Karslioglu and DeLaRosa-Vel{\'a}zquez, {Inti A.} and Fidel Ramirez and Maxim Barenboim and Megumi Onishi-Seebacher and Julia Arand and Carmen Gal{\'a}n and Winter, {Georg E.} and Bettina Engist and Borbala Gerle and O'Sullivan, {Roderick J.} and Martens, {Joost H.A.} and J{\"o}rn Walter and Thomas Manke and Monika Lachner and Thomas Jenuwein",

year = "2014",

month = jul,

day = "17",

doi = "10.1016/j.molcel.2014.05.029",

language = "English",

volume = "55",

pages = "277--290",

journal = "Molecular Cell",

issn = "1097-2765",

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Bulut-Karslioglu, A, DeLaRosa-Velázquez, IA, Ramirez, F, Barenboim, M, Onishi-Seebacher, M, Arand, J, Galán, C, Winter, GE, Engist, B, Gerle, B, O'Sullivan, RJ, Martens, JHA, Walter, J, Manke, T, Lachner, M & Jenuwein, T 2014, 'Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells', Molecular Cell, vol. 55, no. 2, pp. 277-290. https://doi.org/10.1016/j.molcel.2014.05.029

TY - JOUR

T1 - Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells

AU - Bulut-Karslioglu, Aydan

AU - DeLaRosa-Velázquez, Inti A.

AU - Ramirez, Fidel

AU - Barenboim, Maxim

AU - Onishi-Seebacher, Megumi

AU - Arand, Julia

AU - Galán, Carmen

AU - Winter, Georg E.

AU - Engist, Bettina

AU - Gerle, Borbala

AU - O'Sullivan, Roderick J.

AU - Martens, Joost H.A.

AU - Walter, Jörn

AU - Manke, Thomas

AU - Lachner, Monika

AU - Jenuwein, Thomas

PY - 2014/7/17

Y1 - 2014/7/17

N2 - Heterochromatin is required to restrict aberrant expression of retrotransposons, but it remains poorly defined due to the underlying repeat-rich sequences. We dissected Suv39h-dependent histone H3 lysine 9 trimethylation (H3K9me3) by genome-wide ChIP sequencing in mouse embryonic stem cells (ESCs). Refined bioinformatic analyses of repeat subfamilies indicated selective accumulation of Suv39h-dependent H3K9me3 at interspersed repetitive elements that cover ~5% of the ESC epigenome. The majority of the ~8,150 intact long interspersed nuclear elements (LINEs) and endogenous retroviruses (ERVs), but only a minor fraction of the >1.8 million degenerate and truncated LINEs/ERVs, are enriched for Suv39h-dependent H3K9me3. Transcriptional repression of intact LINEs and ERVs is differentially regulated by Suv39h and other chromatin modifiers in ESCs but governed by DNA methylation in committed cells. These data provide a function for Suv39h-dependent H3K9me3 chromatin to specifically repress intact LINE elements in the ESC epigenome.

AB - Heterochromatin is required to restrict aberrant expression of retrotransposons, but it remains poorly defined due to the underlying repeat-rich sequences. We dissected Suv39h-dependent histone H3 lysine 9 trimethylation (H3K9me3) by genome-wide ChIP sequencing in mouse embryonic stem cells (ESCs). Refined bioinformatic analyses of repeat subfamilies indicated selective accumulation of Suv39h-dependent H3K9me3 at interspersed repetitive elements that cover ~5% of the ESC epigenome. The majority of the ~8,150 intact long interspersed nuclear elements (LINEs) and endogenous retroviruses (ERVs), but only a minor fraction of the >1.8 million degenerate and truncated LINEs/ERVs, are enriched for Suv39h-dependent H3K9me3. Transcriptional repression of intact LINEs and ERVs is differentially regulated by Suv39h and other chromatin modifiers in ESCs but governed by DNA methylation in committed cells. These data provide a function for Suv39h-dependent H3K9me3 chromatin to specifically repress intact LINE elements in the ESC epigenome.

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U2 - 10.1016/j.molcel.2014.05.029

DO - 10.1016/j.molcel.2014.05.029

M3 - Article

C2 - 24981170

AN - SCOPUS:84904537943

SN - 1097-2765

VL - 55

SP - 277

EP - 290

JO - Molecular Cell

JF - Molecular Cell

IS - 2

ER -

Suv39h-Dependent H3K9me3 Marks Intact Retrotransposons and Silences LINE Elements in Mouse Embryonic Stem Cells

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