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...
| Main Authors: | , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS Genetics |
| Online Access: | http://europepmc.org/articles/PMC3772027?pdf=render |
| _version_ | 1818357972935376896 |
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| 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_facet | 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 |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-12-13T20:21:36Z |
| format | Article |
| id | doaj.art-750cbe90010841df8ef26b9d09eadfd4 |
| institution | Directory Open Access Journal |
| issn | 1553-7390 1553-7404 |
| language | English |
| last_indexed | 2024-12-13T20:21:36Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Genetics |
| spelling | doaj.art-750cbe90010841df8ef26b9d09eadfd42022-12-21T23:32:41ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042013-01-0199e100379510.1371/journal.pgen.1003795The condition-dependent transcriptional landscape of Burkholderia pseudomallei.Wen Fong OoiCatherine OngTannistha NandiJason F KreisbergHui Hoon ChuaGuangwen SunYahua ChenClaudia MuellerLaura ConejeroMajid EshaghiRoy Moh Lik AngJianhua LiuBruno W SobralSunee KorbsrisateYunn Hwen GanRichard W TitballGregory J BancroftEric ValadePatrick TanBurkholderia 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.http://europepmc.org/articles/PMC3772027?pdf=render |
| spellingShingle | 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. PLoS Genetics |
| title | 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_short | The condition-dependent transcriptional landscape of Burkholderia pseudomallei. |
| title_sort | condition dependent transcriptional landscape of burkholderia pseudomallei |
| url | http://europepmc.org/articles/PMC3772027?pdf=render |
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