Isolation of novel gut bifidobacteria using a combination of metagenomic and cultivation approaches

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dc.contributor.author Lugli, Gabriele Andrea
dc.contributor.author Milani, Christian
dc.contributor.author Duranti, Sabrina
dc.contributor.author Alessandri, Giulia
dc.contributor.author Turroni, Francesca
dc.contributor.author Mancabelli, Leonardo
dc.contributor.author Tatoni, Danilo
dc.contributor.author Ossiprandi, Maria Cristina
dc.contributor.author van Sinderen, Douwe
dc.contributor.author Ventura, Marco
dc.date.accessioned 2019-11-20T05:31:13Z
dc.date.available 2019-11-20T05:31:13Z
dc.date.issued 2019-05-16
dc.identifier.citation Lugli, G.A., Milani, C., Duranti, S., Alessandri, G., Turroni, F., Mancabelli, L., Tatoni, D., Ossiprandi, M.C., van Sinderen, D. and Ventura, M. (2019). 'Isolation of novel gut bifidobacteria using a combination of metagenomic and cultivation approaches'. Genome biology, 20(1), 96. (6pp.) DOI:10.1186/s13059-019-1711-6 en
dc.identifier.volume 20 en
dc.identifier.issued 1 en
dc.identifier.startpage 1 en
dc.identifier.endpage 6 en
dc.identifier.issn 1474-760X
dc.identifier.uri http://hdl.handle.net/10468/9129
dc.identifier.doi 10.1186/s13059-019-1711-6 en
dc.description.abstract Whole metagenome shotgun (WMGS) sequencing is a method that provides insights into the genomic composition and arrangement of complex microbial consortia. Here, we report how WMGS coupled with a cultivation approach allows the isolation of novel bifidobacteria from animal fecal samples. A combination of in silico analyses based on nucleotide and protein sequences facilitate the identification of genetic material belonging to putative novel species. Consequently, the prediction of metabolic properties by in silico analyses permits the identification of specific substrates that are then employed to isolate these species through a cultivation method. en
dc.description.sponsorship Science Foundation Ireland (15/JP-HDHL/3280) en
dc.format.mimetype application/pdf en
dc.language.iso en en
dc.publisher BioMed Central Ltd. en
dc.relation.uri https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1711-6
dc.rights © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. en
dc.rights.uri https://creativecommons.org/licenses/by/4.0/ en
dc.subject Genomics en
dc.subject Metagenomics en
dc.subject Microbiota en
dc.subject Human gut commensals en
dc.title Isolation of novel gut bifidobacteria using a combination of metagenomic and cultivation approaches en
dc.type Article (peer-reviewed) en
dc.internal.authorcontactother Douwe van Sinderen, School of Microbiology, University College Cork, Cork, Ireland. +353-21-490-3000 Email: d.vansinderen@ucc.ie en
dc.internal.availability Full text available en
dc.description.version Published Version en
dc.contributor.funder Science Foundation Ireland en
dc.contributor.funder European Commission en
dc.description.status Peer reviewed en
dc.identifier.journaltitle Genome Biology en
dc.internal.IRISemailaddress d.vansinderen@ucc.ie en
dc.identifier.articleid 96 en
dc.relation.project info:eu-repo/grantAgreement/EC/H2020::CSA/696300/EU/The second coordination and support action for the JPI Healthy Diet for a Healthy Life/CSA JPI HDHL 2.0 en
dc.identifier.eissn 1465-6906


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© The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Except where otherwise noted, this item's license is described as © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided 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 Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
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