The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei
Burkholderia pseudomallei (Bp), the causative agent of the often-deadly infectious disease melioidosis, contains one of the largest prokaryotic genomes sequenced to date, at 7.2 Mb with two large circular chromosomes (1 and 2). To comprehensively delineate the Bp transcriptome, we integrated whole-g...
Saved in:
Main Authors: | , , , , , , , , , , , , , , , , , , |
---|---|
Other Authors: | |
Format: | Article |
Published: |
2018
|
Subjects: | |
Online Access: | https://repository.li.mahidol.ac.th/handle/123456789/30986 |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Institution: | Mahidol University |
id |
th-mahidol.30986 |
---|---|
record_format |
dspace |
spelling |
th-mahidol.309862018-10-19T12:17:59Z The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei Wen Fong Ooi Catherine Ong Tannistha Nandi Jason F. Kreisberg Hui Hoon Chua Guangwen Sun Yahua Chen Claudia Mueller Laura Conejero Majid Eshaghi Roy Moh Lik Ang Jianhua Liu Bruno W. Sobral Sunee Korbsrisate Yunn Hwen Gan Richard W. Titball Gregory J. Bancroft Eric Valade Patrick Tan Genome Institute of Singapore DSO National Laboratories Temasek Applied Science School Yong Loo Lin School of Medicine University of Exeter London School of Hygiene & Tropical Medicine Biocomplexity Institute of Virginia Tech Mahidol University Institut de recherche biomedicale des armees Ecole du Val-de-Grâce Duke-NUS Graduate Medical School Singapore Cancer Science Institute of Singapore Nestlé Institute of Health Sciences Agricultural and Biological Sciences Biochemistry, Genetics and Molecular Biology Medicine Burkholderia pseudomallei (Bp), the causative agent of the often-deadly infectious disease melioidosis, contains one of the largest prokaryotic genomes sequenced to date, at 7.2 Mb with two large circular chromosomes (1 and 2). To comprehensively delineate the Bp transcriptome, we integrated whole-genome tiling array expression data of Bp exposed to >80 diverse physical, chemical, and biological conditions. Our results provide direct experimental support for the strand-specific expression of 5,467 Sanger protein-coding genes, 1,041 operons, and 766 non-coding RNAs. A large proportion of these transcripts displayed condition-dependent expression, consistent with them playing functional roles. The two Bp chromosomes exhibited dramatically different transcriptional landscapes - Chr 1 genes were highly and constitutively expressed, while Chr 2 genes exhibited mosaic expression where distinct subsets were expressed in a strongly condition-dependent manner. We identified dozens of cis-regulatory motifs associated with specific condition-dependent expression programs, and used the condition compendium to elucidate key biological processes associated with two complex pathogen phenotypes - quorum sensing and in vivo infection. Our results demonstrate the utility of a Bp condition-compendium as a community resource for biological discovery. Moreover, the observation that significant portions of the Bp virulence machinery can be activated by specific in vitro cues provides insights into Bp's capacity as an "accidental pathogen", where genetic pathways used by the bacterium to survive in environmental niches may have also facilitated its ability to colonize human hosts. © 2013 Ooi et al. 2018-10-19T04:29:31Z 2018-10-19T04:29:31Z 2013-09-01 Article PLoS Genetics. Vol.9, No.9 (2013) 10.1371/journal.pgen.1003795 15537404 15537390 2-s2.0-84884686614 https://repository.li.mahidol.ac.th/handle/123456789/30986 Mahidol University SCOPUS https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84884686614&origin=inward |
institution |
Mahidol University |
building |
Mahidol University Library |
continent |
Asia |
country |
Thailand Thailand |
content_provider |
Mahidol University Library |
collection |
Mahidol University Institutional Repository |
topic |
Agricultural and Biological Sciences Biochemistry, Genetics and Molecular Biology Medicine |
spellingShingle |
Agricultural and Biological Sciences Biochemistry, Genetics and Molecular Biology Medicine Wen Fong Ooi Catherine Ong Tannistha Nandi Jason F. Kreisberg Hui Hoon Chua Guangwen Sun Yahua Chen Claudia Mueller Laura Conejero Majid Eshaghi Roy Moh Lik Ang Jianhua Liu Bruno W. Sobral Sunee Korbsrisate Yunn Hwen Gan Richard W. Titball Gregory J. Bancroft Eric Valade Patrick Tan The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
description |
Burkholderia pseudomallei (Bp), the causative agent of the often-deadly infectious disease melioidosis, contains one of the largest prokaryotic genomes sequenced to date, at 7.2 Mb with two large circular chromosomes (1 and 2). To comprehensively delineate the Bp transcriptome, we integrated whole-genome tiling array expression data of Bp exposed to >80 diverse physical, chemical, and biological conditions. Our results provide direct experimental support for the strand-specific expression of 5,467 Sanger protein-coding genes, 1,041 operons, and 766 non-coding RNAs. A large proportion of these transcripts displayed condition-dependent expression, consistent with them playing functional roles. The two Bp chromosomes exhibited dramatically different transcriptional landscapes - Chr 1 genes were highly and constitutively expressed, while Chr 2 genes exhibited mosaic expression where distinct subsets were expressed in a strongly condition-dependent manner. We identified dozens of cis-regulatory motifs associated with specific condition-dependent expression programs, and used the condition compendium to elucidate key biological processes associated with two complex pathogen phenotypes - quorum sensing and in vivo infection. Our results demonstrate the utility of a Bp condition-compendium as a community resource for biological discovery. Moreover, the observation that significant portions of the Bp virulence machinery can be activated by specific in vitro cues provides insights into Bp's capacity as an "accidental pathogen", where genetic pathways used by the bacterium to survive in environmental niches may have also facilitated its ability to colonize human hosts. © 2013 Ooi et al. |
author2 |
Genome Institute of Singapore |
author_facet |
Genome Institute of Singapore Wen Fong Ooi Catherine Ong Tannistha Nandi Jason F. Kreisberg Hui Hoon Chua Guangwen Sun Yahua Chen Claudia Mueller Laura Conejero Majid Eshaghi Roy Moh Lik Ang Jianhua Liu Bruno W. Sobral Sunee Korbsrisate Yunn Hwen Gan Richard W. Titball Gregory J. Bancroft Eric Valade Patrick Tan |
format |
Article |
author |
Wen Fong Ooi Catherine Ong Tannistha Nandi Jason F. Kreisberg Hui Hoon Chua Guangwen Sun Yahua Chen Claudia Mueller Laura Conejero Majid Eshaghi Roy Moh Lik Ang Jianhua Liu Bruno W. Sobral Sunee Korbsrisate Yunn Hwen Gan Richard W. Titball Gregory J. Bancroft Eric Valade Patrick Tan |
author_sort |
Wen Fong Ooi |
title |
The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
title_short |
The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
title_full |
The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
title_fullStr |
The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
title_full_unstemmed |
The Condition-Dependent Transcriptional Landscape of Burkholderia pseudomallei |
title_sort |
condition-dependent transcriptional landscape of burkholderia pseudomallei |
publishDate |
2018 |
url |
https://repository.li.mahidol.ac.th/handle/123456789/30986 |
_version_ |
1763492953773309952 |