Comparative genomics and genotype-phenotype associations in Bifidobacterium breve

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dc.contributor.authorBottacini, Francesca
dc.contributor.authorMorrissey, Ruth
dc.contributor.authorEsteban-Torres, María
dc.contributor.authorJames, Kieran
dc.contributor.authorvan Breen, Justin
dc.contributor.authorDikareva, Evgenia
dc.contributor.authorEgan, Muireann
dc.contributor.authorLambert, Jolanda
dc.contributor.authorvan Limpt, Kees
dc.contributor.authorKnol, Jan
dc.contributor.authorMotherway, Mary O'Connell
dc.contributor.authorvan Sinderen, Douwe
dc.contributor.funderNutricia Research Foundation
dc.contributor.funderScience Foundation Ireland
dc.contributor.funderFederation of European Microbiological Societies
dc.contributor.funderIrish Research Council
dc.contributor.funderHealth Research Board
dc.contributor.funderDepartment of Agriculture, Food and the Marine
dc.date.accessioned2018-08-29T15:47:22Z
dc.date.available2018-08-29T15:47:22Z
dc.date.issued2018
dc.description.abstractBifidobacteria are common members of the gastro-intestinal microbiota of a broad range of animal hosts. Their successful adaptation to this particular niche is linked to their saccharolytic metabolism, which is supported by a wide range of glycosyl hydrolases. In the current study a large-scale genetrait matching (GTM) effort was performed to explore glycan degradation capabilities in B. breve. By correlating the presence/absence of genes and associated genomic clusters with growth/no-growth patterns across a dataset of 20 Bifidobacterium breve strains and nearly 80 different potential growth substrates, we not only validated the approach for a number of previously characterized carbohydrate utilization clusters, but we were also able to discover novel genetic clusters linked to the metabolism of salicin and sucrose. Using GTM, genetic associations were also established for antibiotic resistance and exopolysaccharide production, thereby identifying (novel) bifidobacterial antibiotic resistance markers and showing that the GTM approach is applicable to a variety of phenotypes. Overall, the GTM findings clearly expand our knowledge on members of the B. breve species, in particular how their variable genetic features can be linked to specific phenotypes.en
dc.description.sponsorshipFederation of European Microbiological Societies (FEMS-RG-2016-0103); Irish Research Council (GOIPD/2017/1302); Health Research Board (PDTM/2011/9)en
dc.description.statusPeer revieweden
dc.description.versionPublished Versionen
dc.format.mimetypeapplication/pdfen
dc.identifier.articleid10633
dc.identifier.citationBottacini, F., Morrissey, R., Esteban-Torres, M., James, K., van Breen, J., Dikareva, E., Egan, M., Lambert, J., van Limpt, K., Knol, J., O’Connell Motherway, M. and van Sinderen, D. (2018) 'Comparative genomics and genotype-phenotype associations in Bifidobacterium breve', Scientific Reports, 8(1), 10633 (14pp). doi:10.1038/s41598-018-28919-4en
dc.identifier.doi10.1038/s41598-018-28919-4
dc.identifier.endpage14
dc.identifier.issn2045-2322
dc.identifier.journaltitleScientific Reportsen
dc.identifier.startpage1
dc.identifier.urihttps://hdl.handle.net/10468/6665
dc.identifier.volume8
dc.language.isoenen
dc.publisherSpringer Natureen
dc.relation.projectinfo:eu-repo/grantAgreement/SFI/SFI Research Centres/12/RC/2273/IE/Alimentary Pharmabiotic Centre (APC) - Interfacing Food & Medicine/
dc.relation.urihttps://www.nature.com/articles/s41598-018-28919-4
dc.rights© 2018, the Author(s). Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.subjectAnimalis subsp lactisen
dc.subjectIntestinal microbiotaen
dc.subjectGut microbiotaen
dc.subjectEncoding geneen
dc.subjectUCC2003en
dc.subjectMetabolismen
dc.subjectInfantsen
dc.subjectHealthen
dc.subjectOligosaccharidesen
dc.subjectIdentificationen
dc.titleComparative genomics and genotype-phenotype associations in Bifidobacterium breveen
dc.typeArticle (peer-reviewed)en
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