Candidate Essential Genes in Burkholderia cenocepacia J2315 Identified by Genome-Wide TraDIS
Abd El Ghany, Moataz
KAUST DepartmentBiological and Environmental Sciences and Engineering (BESE) Division
Computational Bioscience Research Center (CBRC)
Permanent link to this recordhttp://hdl.handle.net/10754/622029
MetadataShow full item record
AbstractBurkholderia cenocepacia infection often leads to fatal cepacia syndrome in cystic fibrosis patients. However, antibiotic therapy rarely results in complete eradication of the pathogen due to its intrinsic resistance to many clinically available antibiotics. Recent attention has turned to the identification of essential genes as the proteins encoded by these genes may serve as potential targets for development of novel antimicrobials. In this study, we utilized TraDIS (Transposon Directed Insertion-site Sequencing) as a genome-wide screening tool to facilitate the identification of B. cenocepacia genes essential for its growth and viability. A transposon mutant pool consisting of approximately 500,000 mutants was successfully constructed, with more than 400,000 unique transposon insertion sites identified by computational analysis of TraDIS datasets. The saturated library allowed for the identification of 383 genes that were predicted to be essential in B. cenocepacia. We extended the application of TraDIS to identify conditionally essential genes required for in vitro growth and revealed an additional repertoire of 439 genes to be crucial for B. cenocepacia growth under nutrient-depleted conditions. The library of B. cenocepacia mutants can subsequently be subjected to various biologically related conditions to facilitate the discovery of genes involved in niche adaptation as well as pathogenicity and virulence.
CitationWong Y-C, Abd El Ghany M, Naeem R, Lee K-W, Tan Y-C, et al. (2016) Candidate Essential Genes in Burkholderia cenocepacia J2315 Identified by Genome-Wide TraDIS. Frontiers in Microbiology 7. Available: http://dx.doi.org/10.3389/fmicb.2016.01288.
SponsorsThis study was supported by the grants 06-05-16-MB003 and Ap-004-2014 awarded to SN by the Ministry of Science, Technology and Innovation Malaysia and Universiti Kcbangsaan Malaysia. Y-CW was supported by a MyBrain15 Scholarship from the Ministry of Higher Education Malaysia. Part of this work was conducted in KAUST funded by faculty baseline funding from KAUST to AP.
PublisherFrontiers Media SA
JournalFrontiers in Microbiology
Except where otherwise noted, this item's license is described as This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
- Genetic Determinants Associated With <i>in Vivo</i> Survival of <i>Burkholderia cenocepacia</i> in the <i>Caenorhabditis elegans</i> Model.
- Authors: Wong YC, Abd El Ghany M, Ghazzali RNM, Yap SJ, Hoh CC, Pain A, Nathan S
- Issue date: 2018
- Comparative analysis of the Burkholderia cenocepacia K56-2 essential genome reveals cell envelope functions that are uniquely required for survival in species of the genus Burkholderia.
- Authors: Gislason AS, Turner K, Domaratzki M, Cardona ST
- Issue date: 2017 Nov
- Spontaneous and evolutionary changes in the antibiotic resistance of Burkholderia cenocepacia observed by global gene expression analysis.
- Authors: Sass A, Marchbank A, Tullis E, Lipuma JJ, Mahenthiralingam E
- Issue date: 2011 Jul 22
- Exploring the metabolic network of the epidemic pathogen Burkholderia cenocepacia J2315 via genome-scale reconstruction.
- Authors: Fang K, Zhao H, Sun C, Lam CM, Chang S, Zhang K, Panda G, Godinho M, Martins dos Santos VA, Wang J
- Issue date: 2011 May 25
- The Small RNA ncS35 Regulates Growth in <i>Burkholderia cenocepacia</i> J2315.
- Authors: Kiekens S, Sass A, Van Nieuwerburgh F, Deforce D, Coenye T
- Issue date: 2018 Jan-Feb