Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell DifferentiationCitation formats

  • External authors:
  • Muhammad Ahmad Maqbool
  • Léo Pioger
  • Amal Zine El Aabidine
  • Nezih Karasu
  • Anne Marie Molitor
  • Lan T M Dao
  • Guillaume Charbonnier
  • Francois van Laethem
  • Romain Fenouil
  • Frederic Koch
  • Ivo Gut
  • Marta Gut
  • Sebastian Amigorena
  • Olivier Joffre
  • Thomas Sexton
  • Salvatore Spicuglia
  • Jean-Christophe Andrau

Standard

Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation. / Maqbool, Muhammad Ahmad; Pioger, Léo; El Aabidine, Amal Zine; Karasu, Nezih; Molitor, Anne Marie; Dao, Lan T M; Charbonnier, Guillaume; van Laethem, Francois; Fenouil, Romain; Koch, Frederic; Lacaud, Georges; Gut, Ivo; Gut, Marta; Amigorena, Sebastian; Joffre, Olivier; Sexton, Thomas; Spicuglia, Salvatore; Andrau, Jean-Christophe.

In: Cell Reports, Vol. 32, No. 7, 18.08.2020, p. 108048.

Research output: Contribution to journalArticlepeer-review

Harvard

Maqbool, MA, Pioger, L, El Aabidine, AZ, Karasu, N, Molitor, AM, Dao, LTM, Charbonnier, G, van Laethem, F, Fenouil, R, Koch, F, Lacaud, G, Gut, I, Gut, M, Amigorena, S, Joffre, O, Sexton, T, Spicuglia, S & Andrau, J-C 2020, 'Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation', Cell Reports, vol. 32, no. 7, pp. 108048. https://doi.org/10.1016/j.celrep.2020.108048

APA

Maqbool, M. A., Pioger, L., El Aabidine, A. Z., Karasu, N., Molitor, A. M., Dao, L. T. M., Charbonnier, G., van Laethem, F., Fenouil, R., Koch, F., Lacaud, G., Gut, I., Gut, M., Amigorena, S., Joffre, O., Sexton, T., Spicuglia, S., & Andrau, J-C. (2020). Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation. Cell Reports, 32(7), 108048. https://doi.org/10.1016/j.celrep.2020.108048

Vancouver

Maqbool MA, Pioger L, El Aabidine AZ, Karasu N, Molitor AM, Dao LTM et al. Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation. Cell Reports. 2020 Aug 18;32(7):108048. https://doi.org/10.1016/j.celrep.2020.108048

Author

Maqbool, Muhammad Ahmad ; Pioger, Léo ; El Aabidine, Amal Zine ; Karasu, Nezih ; Molitor, Anne Marie ; Dao, Lan T M ; Charbonnier, Guillaume ; van Laethem, Francois ; Fenouil, Romain ; Koch, Frederic ; Lacaud, Georges ; Gut, Ivo ; Gut, Marta ; Amigorena, Sebastian ; Joffre, Olivier ; Sexton, Thomas ; Spicuglia, Salvatore ; Andrau, Jean-Christophe. / Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation. In: Cell Reports. 2020 ; Vol. 32, No. 7. pp. 108048.

Bibtex

@article{1beaedc3fb544abc8c8f880dd2f6c67e,
title = "Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation",
abstract = "During thymic development and upon peripheral activation, T cells undergo extensive phenotypic and functional changes coordinated by lineage-specific developmental programs. To characterize the regulatory landscape controlling T cell identity, we perform a wide epigenomic and transcriptional analysis of mouse thymocytes and naive CD4 differentiated T helper cells. Our investigations reveal a dynamic putative enhancer landscape, and we could validate many of the enhancers using the high-throughput CapStarr sequencing (CapStarr-seq) approach. We find that genes using multiple promoters display increased enhancer usage, suggesting that apparent {"}enhancer redundancy{"} might relate to isoform selection. Furthermore, we can show that two Runx3 promoters display long-range interactions with specific enhancers. Finally, our analyses suggest a novel function for the PRC2 complex in the control of alternative promoter usage. Altogether, our study has allowed for the mapping of an exhaustive set of active enhancers and provides new insights into their function and that of PRC2 in controlling promoter choice during T cell differentiation.",
author = "Maqbool, {Muhammad Ahmad} and L{\'e}o Pioger and {El Aabidine}, {Amal Zine} and Nezih Karasu and Molitor, {Anne Marie} and Dao, {Lan T M} and Guillaume Charbonnier and {van Laethem}, Francois and Romain Fenouil and Frederic Koch and Georges Lacaud and Ivo Gut and Marta Gut and Sebastian Amigorena and Olivier Joffre and Thomas Sexton and Salvatore Spicuglia and Jean-Christophe Andrau",
note = "Copyright {\textcopyright} 2020 The Authors. Published by Elsevier Inc. All rights reserved.",
year = "2020",
month = aug,
day = "18",
doi = "10.1016/j.celrep.2020.108048",
language = "English",
volume = "32",
pages = "108048",
journal = "Cell Reports",
issn = "2211-1247",
publisher = "Cell Press",
number = "7",

}

RIS

TY - JOUR

T1 - Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation

AU - Maqbool, Muhammad Ahmad

AU - Pioger, Léo

AU - El Aabidine, Amal Zine

AU - Karasu, Nezih

AU - Molitor, Anne Marie

AU - Dao, Lan T M

AU - Charbonnier, Guillaume

AU - van Laethem, Francois

AU - Fenouil, Romain

AU - Koch, Frederic

AU - Lacaud, Georges

AU - Gut, Ivo

AU - Gut, Marta

AU - Amigorena, Sebastian

AU - Joffre, Olivier

AU - Sexton, Thomas

AU - Spicuglia, Salvatore

AU - Andrau, Jean-Christophe

N1 - Copyright © 2020 The Authors. Published by Elsevier Inc. All rights reserved.

PY - 2020/8/18

Y1 - 2020/8/18

N2 - During thymic development and upon peripheral activation, T cells undergo extensive phenotypic and functional changes coordinated by lineage-specific developmental programs. To characterize the regulatory landscape controlling T cell identity, we perform a wide epigenomic and transcriptional analysis of mouse thymocytes and naive CD4 differentiated T helper cells. Our investigations reveal a dynamic putative enhancer landscape, and we could validate many of the enhancers using the high-throughput CapStarr sequencing (CapStarr-seq) approach. We find that genes using multiple promoters display increased enhancer usage, suggesting that apparent "enhancer redundancy" might relate to isoform selection. Furthermore, we can show that two Runx3 promoters display long-range interactions with specific enhancers. Finally, our analyses suggest a novel function for the PRC2 complex in the control of alternative promoter usage. Altogether, our study has allowed for the mapping of an exhaustive set of active enhancers and provides new insights into their function and that of PRC2 in controlling promoter choice during T cell differentiation.

AB - During thymic development and upon peripheral activation, T cells undergo extensive phenotypic and functional changes coordinated by lineage-specific developmental programs. To characterize the regulatory landscape controlling T cell identity, we perform a wide epigenomic and transcriptional analysis of mouse thymocytes and naive CD4 differentiated T helper cells. Our investigations reveal a dynamic putative enhancer landscape, and we could validate many of the enhancers using the high-throughput CapStarr sequencing (CapStarr-seq) approach. We find that genes using multiple promoters display increased enhancer usage, suggesting that apparent "enhancer redundancy" might relate to isoform selection. Furthermore, we can show that two Runx3 promoters display long-range interactions with specific enhancers. Finally, our analyses suggest a novel function for the PRC2 complex in the control of alternative promoter usage. Altogether, our study has allowed for the mapping of an exhaustive set of active enhancers and provides new insights into their function and that of PRC2 in controlling promoter choice during T cell differentiation.

U2 - 10.1016/j.celrep.2020.108048

DO - 10.1016/j.celrep.2020.108048

M3 - Article

C2 - 32814051

VL - 32

SP - 108048

JO - Cell Reports

JF - Cell Reports

SN - 2211-1247

IS - 7

ER -