Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations

Handle URI:
http://hdl.handle.net/10754/581771
Title:
Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations
Authors:
Abdallah, Abdallah; Hill-Cawthorne, Grant A. ( 0000-0002-3828-5473 ) ; Otto, Thomas D.; Coll, Francesc; Guerra-Assunção, José Afonso; Gao, Ge; Naeem, Raeece ( 0000-0003-1734-1007 ) ; Ansari, Hifzur Rahman ( 0000-0002-0646-1743 ) ; Malas, Tareq B.; Adroub, Sabir A.; Verboom, Theo; Ummels, Roy; Zhang, Huoming ( 0000-0001-5416-0358 ) ; Panigrahi, Aswini Kumar; McNerney, Ruth; Brosch, Roland; Clark, Taane G.; Behr, Marcel A.; Bitter, Wilbert; Pain, Arnab ( 0000-0002-1755-2819 )
Abstract:
Although Bacillus Calmette-Guérin (BCG) vaccines against tuberculosis have been available for more than 90 years, their effectiveness has been hindered by variable protective efficacy and a lack of lasting memory responses. One factor contributing to this variability may be the diversity of the BCG strains that are used around the world, in part from genomic changes accumulated during vaccine production and their resulting differences in gene expression. We have compared the genomes and transcriptomes of a global collection of fourteen of the most widely used BCG strains at single base-pair resolution. We have also used quantitative proteomics to identify key differences in expression of proteins across five representative BCG strains of the four tandem duplication (DU) groups. We provide a comprehensive map of single nucleotide polymorphisms (SNPs), copy number variation and insertions and deletions (indels) across fourteen BCG strains. Genome-wide SNP characterization allowed the construction of a new and robust phylogenic genealogy of BCG strains. Transcriptional and proteomic profiling revealed a metabolic remodeling in BCG strains that may be reflected by altered immunogenicity and possibly vaccine efficacy. Together, these integrated-omic data represent the most comprehensive catalogue of genetic variation across a global collection of BCG strains.
KAUST Department:
Pathogen Genomics Group; Biological and Environmental Sciences and Engineering (BESE) Division; Computational Bioscience Research Center (CBRC)
Citation:
Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations 2015, 5:15443 Scientific Reports
Publisher:
Nature Publishing Group
Journal:
Scientific Reports
Issue Date:
21-Oct-2015
DOI:
10.1038/srep15443
Type:
Article
ISSN:
2045-2322
Additional Links:
http://www.nature.com/articles/srep15443
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorAbdallah, Abdallahen
dc.contributor.authorHill-Cawthorne, Grant A.en
dc.contributor.authorOtto, Thomas D.en
dc.contributor.authorColl, Francescen
dc.contributor.authorGuerra-Assunção, José Afonsoen
dc.contributor.authorGao, Geen
dc.contributor.authorNaeem, Raeeceen
dc.contributor.authorAnsari, Hifzur Rahmanen
dc.contributor.authorMalas, Tareq B.en
dc.contributor.authorAdroub, Sabir A.en
dc.contributor.authorVerboom, Theoen
dc.contributor.authorUmmels, Royen
dc.contributor.authorZhang, Huomingen
dc.contributor.authorPanigrahi, Aswini Kumaren
dc.contributor.authorMcNerney, Ruthen
dc.contributor.authorBrosch, Rolanden
dc.contributor.authorClark, Taane G.en
dc.contributor.authorBehr, Marcel A.en
dc.contributor.authorBitter, Wilberten
dc.contributor.authorPain, Arnaben
dc.date.accessioned2015-11-05T06:30:39Zen
dc.date.available2015-11-05T06:30:39Zen
dc.date.issued2015-10-21en
dc.identifier.citationGenomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations 2015, 5:15443 Scientific Reportsen
dc.identifier.issn2045-2322en
dc.identifier.doi10.1038/srep15443en
dc.identifier.urihttp://hdl.handle.net/10754/581771en
dc.description.abstractAlthough Bacillus Calmette-Guérin (BCG) vaccines against tuberculosis have been available for more than 90 years, their effectiveness has been hindered by variable protective efficacy and a lack of lasting memory responses. One factor contributing to this variability may be the diversity of the BCG strains that are used around the world, in part from genomic changes accumulated during vaccine production and their resulting differences in gene expression. We have compared the genomes and transcriptomes of a global collection of fourteen of the most widely used BCG strains at single base-pair resolution. We have also used quantitative proteomics to identify key differences in expression of proteins across five representative BCG strains of the four tandem duplication (DU) groups. We provide a comprehensive map of single nucleotide polymorphisms (SNPs), copy number variation and insertions and deletions (indels) across fourteen BCG strains. Genome-wide SNP characterization allowed the construction of a new and robust phylogenic genealogy of BCG strains. Transcriptional and proteomic profiling revealed a metabolic remodeling in BCG strains that may be reflected by altered immunogenicity and possibly vaccine efficacy. Together, these integrated-omic data represent the most comprehensive catalogue of genetic variation across a global collection of BCG strains.en
dc.language.isoenen
dc.publisherNature Publishing Groupen
dc.relation.urlhttp://www.nature.com/articles/srep15443en
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.titleGenomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptationsen
dc.typeArticleen
dc.contributor.departmentPathogen Genomics Groupen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.identifier.journalScientific Reportsen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionMarie Bashir Institute for Infectious Diseases and Biosecurity and School and Public Health, University of Sydney, NSW 2006, Australiaen
dc.contributor.institutionPathogen Genomics, The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, United Kingdomen
dc.contributor.institutionFaculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, United Kingdomen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorAbdallah, Abdallahen
kaust.authorHill-Cawthorne, Grant A.en
kaust.authorGao, Geen
kaust.authorNaeem, Raeeceen
kaust.authorAnsari, Hifzuren
kaust.authorMalas, Tareq B.en
kaust.authorAdroub, Sabir A.en
kaust.authorZhang, Huomingen
kaust.authorPanigrahi, Aswini Kumaren
kaust.authorPain, Arnaben
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