Cargando…

Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation

Transcription factor nuclear factor kappa B (NF-κB) regulates cellular responses to environmental cues. Many stimuli induce NF-κB transiently, making time-dependent transcriptional outputs a fundamental feature of NF-κB activation. Here we show that NF-κB target genes have distinct kinetic patterns...

Descripción completa

Detalles Bibliográficos
Autores principales: Zhao, Mingming, Joy, Jaimy, Zhou, Weiqiang, De, Supriyo, Wood, William H., Becker, Kevin G., Ji, Hongkai, Sen, Ranjan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6147668/
https://www.ncbi.nlm.nih.gov/pubmed/30199532
http://dx.doi.org/10.1371/journal.pbio.2006347
_version_ 1783356600273076224
author Zhao, Mingming
Joy, Jaimy
Zhou, Weiqiang
De, Supriyo
Wood, William H.
Becker, Kevin G.
Ji, Hongkai
Sen, Ranjan
author_facet Zhao, Mingming
Joy, Jaimy
Zhou, Weiqiang
De, Supriyo
Wood, William H.
Becker, Kevin G.
Ji, Hongkai
Sen, Ranjan
author_sort Zhao, Mingming
collection PubMed
description Transcription factor nuclear factor kappa B (NF-κB) regulates cellular responses to environmental cues. Many stimuli induce NF-κB transiently, making time-dependent transcriptional outputs a fundamental feature of NF-κB activation. Here we show that NF-κB target genes have distinct kinetic patterns in activated B lymphoma cells. By combining RELA binding, RNA polymerase II (Pol II) recruitment, and perturbation of NF-κB activation, we demonstrate that kinetic differences amongst early- and late-activated RELA target genes can be understood based on chromatin configuration prior to cell activation and RELA-dependent priming, respectively. We also identified genes that were repressed by RELA activation and others that responded to RELA-activated transcription factors. Cumulatively, our studies define an NF-κB-responsive inducible gene cascade in activated B cells.
format Online
Article
Text
id pubmed-6147668
institution National Center for Biotechnology Information
language English
publishDate 2018
publisher Public Library of Science
record_format MEDLINE/PubMed
spelling pubmed-61476682018-10-08 Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation Zhao, Mingming Joy, Jaimy Zhou, Weiqiang De, Supriyo Wood, William H. Becker, Kevin G. Ji, Hongkai Sen, Ranjan PLoS Biol Research Article Transcription factor nuclear factor kappa B (NF-κB) regulates cellular responses to environmental cues. Many stimuli induce NF-κB transiently, making time-dependent transcriptional outputs a fundamental feature of NF-κB activation. Here we show that NF-κB target genes have distinct kinetic patterns in activated B lymphoma cells. By combining RELA binding, RNA polymerase II (Pol II) recruitment, and perturbation of NF-κB activation, we demonstrate that kinetic differences amongst early- and late-activated RELA target genes can be understood based on chromatin configuration prior to cell activation and RELA-dependent priming, respectively. We also identified genes that were repressed by RELA activation and others that responded to RELA-activated transcription factors. Cumulatively, our studies define an NF-κB-responsive inducible gene cascade in activated B cells. Public Library of Science 2018-09-10 /pmc/articles/PMC6147668/ /pubmed/30199532 http://dx.doi.org/10.1371/journal.pbio.2006347 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication.
spellingShingle Research Article
Zhao, Mingming
Joy, Jaimy
Zhou, Weiqiang
De, Supriyo
Wood, William H.
Becker, Kevin G.
Ji, Hongkai
Sen, Ranjan
Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title_full Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title_fullStr Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title_full_unstemmed Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title_short Transcriptional outcomes and kinetic patterning of gene expression in response to NF-κB activation
title_sort transcriptional outcomes and kinetic patterning of gene expression in response to nf-κb activation
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6147668/
https://www.ncbi.nlm.nih.gov/pubmed/30199532
http://dx.doi.org/10.1371/journal.pbio.2006347
work_keys_str_mv AT zhaomingming transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT joyjaimy transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT zhouweiqiang transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT desupriyo transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT woodwilliamh transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT beckerkeving transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT jihongkai transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation
AT senranjan transcriptionaloutcomesandkineticpatterningofgeneexpressioninresponsetonfkbactivation