Genome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress response

Handle URI:
http://hdl.handle.net/10754/583875
Title:
Genome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress response
Authors:
Khraiwesh, Basel; Qudeimat, Enas; Thimma, Manjula; Chaiboonchoe, Amphun; Jijakli, Kenan; Alzahmi, Amnah; Arnoux, Marc; Salehi-Ashtiani, Kourosh
Abstract:
Changes in the environment, such as those caused by climate change, can exert stress on plant growth, diversity and ultimately global food security. Thus, focused efforts to fully understand plant response to stress are urgently needed in order to develop strategies to cope with the effects of climate change. Because Physcomitrella patens holds a key evolutionary position bridging the gap between green algae and higher plants, and because it exhibits a well-developed stress tolerance, it is an excellent model for such exploration. Here, we have used Physcomitrella patens to study genome-wide responses to abiotic stress through transcriptomic analysis by a high-throughput sequencing platform. We report a comprehensive analysis of transcriptome dynamics, defining profiles of elicited gene regulation responses to abiotic stress-associated hormone Abscisic Acid (ABA), cold, drought, and salt treatments. We identified more than 20,000 genes expressed under each aforementioned stress treatments, of which 9,668 display differential expression in response to stress. The comparison of Physcomitrella patens stress regulated genes with unicellular algae, vascular and flowering plants revealed genomic delineation concomitant with the evolutionary movement to land, including a general gene family complexity and loss of genes associated with different functional groups.
KAUST Department:
Biological and Environmental Sciences and Engineering (BESE) Division
Citation:
Genome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress response 2015, 5:17434 Scientific Reports
Publisher:
Nature Publishing Group
Journal:
Scientific Reports
Issue Date:
30-Nov-2015
DOI:
10.1038/srep17434
Type:
Article
ISSN:
2045-2322
Additional Links:
http://www.nature.com/articles/srep17434
Appears in Collections:
Articles; Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorKhraiwesh, Baselen
dc.contributor.authorQudeimat, Enasen
dc.contributor.authorThimma, Manjulaen
dc.contributor.authorChaiboonchoe, Amphunen
dc.contributor.authorJijakli, Kenanen
dc.contributor.authorAlzahmi, Amnahen
dc.contributor.authorArnoux, Marcen
dc.contributor.authorSalehi-Ashtiani, Kouroshen
dc.date.accessioned2015-12-14T09:52:48Zen
dc.date.available2015-12-14T09:52:48Zen
dc.date.issued2015-11-30en
dc.identifier.citationGenome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress response 2015, 5:17434 Scientific Reportsen
dc.identifier.issn2045-2322en
dc.identifier.doi10.1038/srep17434en
dc.identifier.urihttp://hdl.handle.net/10754/583875en
dc.description.abstractChanges in the environment, such as those caused by climate change, can exert stress on plant growth, diversity and ultimately global food security. Thus, focused efforts to fully understand plant response to stress are urgently needed in order to develop strategies to cope with the effects of climate change. Because Physcomitrella patens holds a key evolutionary position bridging the gap between green algae and higher plants, and because it exhibits a well-developed stress tolerance, it is an excellent model for such exploration. Here, we have used Physcomitrella patens to study genome-wide responses to abiotic stress through transcriptomic analysis by a high-throughput sequencing platform. We report a comprehensive analysis of transcriptome dynamics, defining profiles of elicited gene regulation responses to abiotic stress-associated hormone Abscisic Acid (ABA), cold, drought, and salt treatments. We identified more than 20,000 genes expressed under each aforementioned stress treatments, of which 9,668 display differential expression in response to stress. The comparison of Physcomitrella patens stress regulated genes with unicellular algae, vascular and flowering plants revealed genomic delineation concomitant with the evolutionary movement to land, including a general gene family complexity and loss of genes associated with different functional groups.en
dc.language.isoenen
dc.publisherNature Publishing Groupen
dc.relation.urlhttp://www.nature.com/articles/srep17434en
dc.rightsThis work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/en
dc.titleGenome-wide expression analysis offers new insights into the origin and evolution of Physcomitrella patens stress responseen
dc.typeArticleen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.identifier.journalScientific Reportsen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionLaboratory of Algal, Systems, and Synthetic Biology, Division of Science and Math, New York University Abu Dhabi, Abu Dhabi, UAEen
dc.contributor.institutionCenter for Genomics and Systems Biology, New York University Abu Dhabi, Abu Dhabi, UAEen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorKhraiwesh, Baselen
kaust.authorQudeimat, Enasen
kaust.authorThimma, Manjulaen
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