Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis
The gaseous plant hormone ethylene regulates a multitude of growth and developmental processes. How the numerous growth control pathways are coordinated by the ethylene transcriptional response remains elusive. We characterized the dynamic ethylene transcriptional response by identifying targets of...
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Format: | Article |
Language: | English |
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eLife Sciences Publications Ltd
2013-06-01
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Series: | eLife |
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Online Access: | https://elifesciences.org/articles/00675 |
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record_format |
Article |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Katherine Noelani Chang Shan Zhong Matthew T Weirauch Gary Hon Mattia Pelizzola Hai Li Shao-shan Carol Huang Robert J Schmitz Mark A Urich Dwight Kuo Joseph R Nery Hong Qiao Ally Yang Abdullah Jamali Huaming Chen Trey Ideker Bing Ren Ziv Bar-Joseph Timothy R Hughes Joseph R Ecker |
spellingShingle |
Katherine Noelani Chang Shan Zhong Matthew T Weirauch Gary Hon Mattia Pelizzola Hai Li Shao-shan Carol Huang Robert J Schmitz Mark A Urich Dwight Kuo Joseph R Nery Hong Qiao Ally Yang Abdullah Jamali Huaming Chen Trey Ideker Bing Ren Ziv Bar-Joseph Timothy R Hughes Joseph R Ecker Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis eLife transcriptional regulation temporal modulation network ethylene hormone Physcomitrella patens |
author_facet |
Katherine Noelani Chang Shan Zhong Matthew T Weirauch Gary Hon Mattia Pelizzola Hai Li Shao-shan Carol Huang Robert J Schmitz Mark A Urich Dwight Kuo Joseph R Nery Hong Qiao Ally Yang Abdullah Jamali Huaming Chen Trey Ideker Bing Ren Ziv Bar-Joseph Timothy R Hughes Joseph R Ecker |
author_sort |
Katherine Noelani Chang |
title |
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis |
title_short |
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis |
title_full |
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis |
title_fullStr |
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis |
title_full_unstemmed |
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis |
title_sort |
temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in arabidopsis |
publisher |
eLife Sciences Publications Ltd |
series |
eLife |
issn |
2050-084X |
publishDate |
2013-06-01 |
description |
The gaseous plant hormone ethylene regulates a multitude of growth and developmental processes. How the numerous growth control pathways are coordinated by the ethylene transcriptional response remains elusive. We characterized the dynamic ethylene transcriptional response by identifying targets of the master regulator of the ethylene signaling pathway, ETHYLENE INSENSITIVE3 (EIN3), using chromatin immunoprecipitation sequencing and transcript sequencing during a timecourse of ethylene treatment. Ethylene-induced transcription occurs in temporal waves regulated by EIN3, suggesting distinct layers of transcriptional control. EIN3 binding was found to modulate a multitude of downstream transcriptional cascades, including a major feedback regulatory circuitry of the ethylene signaling pathway, as well as integrating numerous connections between most of the hormone mediated growth response pathways. These findings provide direct evidence linking each of the major plant growth and development networks in novel ways. |
topic |
transcriptional regulation temporal modulation network ethylene hormone Physcomitrella patens |
url |
https://elifesciences.org/articles/00675 |
work_keys_str_mv |
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doaj-2f8d90b66fe34e9986fca844b5b2952f2021-05-04T22:27:37ZengeLife Sciences Publications LtdeLife2050-084X2013-06-01210.7554/eLife.00675Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in ArabidopsisKatherine Noelani Chang0Shan Zhong1Matthew T Weirauch2Gary Hon3Mattia Pelizzola4Hai Li5Shao-shan Carol Huang6Robert J Schmitz7Mark A Urich8Dwight Kuo9Joseph R Nery10Hong Qiao11Ally Yang12Abdullah Jamali13Huaming Chen14Trey Ideker15Bing Ren16Ziv Bar-Joseph17Timothy R Hughes18Joseph R Ecker19Plant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesLane Center for Computational Biology, School of Computer Science, Carnegie Mellon University, Pittsburgh, United StatesDepartment of Molecular Genetics and Banting and Best Department of Medical Research, University of Toronto, Ontario, CanadaLudwig Institute for Cancer Research, University of California, San Diego, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United States; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesDepartment of Bioengineering, Department of Medicine, The Institute for Genomic Medicine, University of California, San Diego, La Jolla, United StatesGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesDepartment of Molecular Genetics and Banting and Best Department of Medical Research, University of Toronto, Ontario, CanadaPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesGenomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United StatesDepartments of Medicine and Bioengineering, University of California, San Diego, San Diego, United StatesLudwig Institute for Cancer Research, University of California, San Diego, La Jolla, United States; Department of Cellular and Molecular Medicine, University of California, San Diego School of Medicine, San Diego, United StatesLane Center for Computational Biology, School of Computer Science, Carnegie Mellon University, Pittsburgh, United States; Machine Learning Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, United StatesDepartment of Molecular Genetics and Banting and Best Department of Medical Research, University of Toronto, Ontario, CanadaPlant Biology Laboratory, and Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, United States; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, United StatesThe gaseous plant hormone ethylene regulates a multitude of growth and developmental processes. How the numerous growth control pathways are coordinated by the ethylene transcriptional response remains elusive. We characterized the dynamic ethylene transcriptional response by identifying targets of the master regulator of the ethylene signaling pathway, ETHYLENE INSENSITIVE3 (EIN3), using chromatin immunoprecipitation sequencing and transcript sequencing during a timecourse of ethylene treatment. Ethylene-induced transcription occurs in temporal waves regulated by EIN3, suggesting distinct layers of transcriptional control. EIN3 binding was found to modulate a multitude of downstream transcriptional cascades, including a major feedback regulatory circuitry of the ethylene signaling pathway, as well as integrating numerous connections between most of the hormone mediated growth response pathways. These findings provide direct evidence linking each of the major plant growth and development networks in novel ways.https://elifesciences.org/articles/00675transcriptional regulationtemporal modulationnetworkethylenehormonePhyscomitrella patens |