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dc.contributor.authorAbdallah, Abdallah
dc.contributor.authorWeerdenburg, Eveline
dc.contributor.authorGuan, Qingtian
dc.contributor.authorUmmels, Roy
dc.contributor.authorBorggreve, S
dc.contributor.authorAdroub, Sabir
dc.contributor.authorNaeem, Raeece
dc.contributor.authorZhang, Huoming
dc.contributor.authorOtto, Thomas
dc.contributor.authorBitter, Wilbert
dc.contributor.authorPain, Arnab
dc.contributor.authorMalas, Tareq Majed Yasin
dc.date.accessioned2020-12-17T11:41:02Z
dc.date.available2020-12-17T11:41:02Z
dc.date.issued2015-09-01
dc.identifier.urihttp://hdl.handle.net/10754/666454
dc.description.abstractAlthough the 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 in this variability may be the diversity of the BCG strains that are used around the world, particularly the changes in the genomic material and the 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 at the protein level across five representative BCG strains of the four tandem duplication groups. We provide a comprehensive map of single nucleotide polymorphisms (SNPs), copy number variation and indels across fourteen BCG strains. The distribution of SNPs across the BCG lineages allowed clustering of these strains to generate a linear phylogeny and refining the previous genealogies of BCG strains. Transcriptional and proteomic profiling revealed a metabolic remodeling in BCG strains that may reflect in altered immunogenicity and possibly vaccine efficacy. Together, the presented datasets represent the most comprehensive catalogue of genomic variation across a global collection of BCG strains.
dc.publisherNCBI
dc.relation.haspartbiosample:GCA_001287325
dc.relation.haspartbiosample:GCA_001287125
dc.relation.haspartbiosample:GCA_001287165
dc.relation.haspartbiosample:GCA_001287365
dc.relation.haspartbiosample:GCA_001287485
dc.relation.haspartbiosample:GCA_001287425
dc.relation.haspartbiosample:GCA_001287005
dc.relation.haspartbiosample:GCA_001287225
dc.relation.haspartbiosample:GCA_001287105
dc.relation.haspartbiosample:GCA_001287045
dc.relation.haspartbiosample:GCA_001287205
dc.relation.haspartbiosample:GCA_001287185
dc.relation.haspartbiosample:GCA_001287245
dc.relation.haspartbiosample:GCA_001287065
dc.relation.urlhttps://www.ncbi.nlm.nih.gov/bioproject/?term=PRJEB8560
dc.titleA genomic sequence and expression diversity catalogue of BCG
dc.typeBioproject
dc.typeDataset
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentBioscience Core Lab
dc.contributor.departmentComputer Science Program
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.contributor.institutionDepartment of Medical Microbiology and Infection Control, VU University Medical Center, Amsterdam, The Netherlands
dc.contributor.institutionPathogen Genomics, The Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom
kaust.personAbdallah, Abdallah
kaust.personGuan, Qingtian
kaust.personAdroub, Sabir
kaust.personNaeem, Raeece
kaust.personZhang, Huoming
kaust.personPain, Arnab
kaust.personMalas, Tareq Majed Yasin
dc.relation.issupplementtoDOI:10.1101/297440
dc.relation.issupplementtoDOI:10.1371/journal.pone.0211003
display.relations<b>Is Supplement To:</b><br/> <ul><li><i>[Preprint]</i> <br/> Abdallah AM, Weerdenburg E, Guan Q, Ummels R, Borggreve S, et al. (2018) WhiB6 is required for the secretion-dependent regulation of ESX-1 substrates in pathogenic mycobacteria. Available: http://dx.doi.org/10.1101/297440.. DOI: <a href="https://doi.org/10.1101/297440" >10.1101/297440</a> Handle: <a href="http://hdl.handle.net/10754/628004" >10754/628004</a></a></li><li><i>[Article]</i> <br/> Abdallah AM, Weerdenburg EM, Guan Q, Ummels R, Borggreve S, et al. (2019) Integrated transcriptomic and proteomic analysis of pathogenic mycobacteria and their esx-1 mutants reveal secretion-dependent regulation of ESX-1 substrates and WhiB6 as a transcriptional regulator. PLOS ONE 14: e0211003. Available: http://dx.doi.org/10.1371/journal.pone.0211003.. DOI: <a href="https://doi.org/10.1371/journal.pone.0211003" >10.1371/journal.pone.0211003</a> Handle: <a href="http://hdl.handle.net/10754/631047" >10754/631047</a></a></li></ul>
dc.identifier.bioprojectPRJEB8560


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