Comparative and functional genomics of the Lactococcus lactis taxon; insights into evolution and niche adaptation

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dc.contributor.author Kelleher, Philip
dc.contributor.author Bottacini, Francesca
dc.contributor.author Mahony, Jennifer
dc.contributor.author Kilcawley, Kieran N.
dc.contributor.author van Sinderen, Douwe
dc.date.accessioned 2017-05-03T11:19:55Z
dc.date.available 2017-05-03T11:19:55Z
dc.date.issued 2017-03-29
dc.identifier.citation Kelleher, P., Bottacini, F., Mahony, J., Kilcawley, K. N. and van Sinderen, D. (2017) 'Comparative and functional genomics of the Lactococcus lactis taxon; insights into evolution and niche adaptation', BMC Genomics, 18, 267 (20pp). doi: 10.1186/s12864-017-3650-5 en
dc.identifier.volume 18 en
dc.identifier.startpage 1 en
dc.identifier.endpage 20 en
dc.identifier.issn 1471-2164
dc.identifier.uri http://hdl.handle.net/10468/3911
dc.identifier.doi 10.1186/s12864-017-3650-5
dc.description.abstract Background: Lactococcus lactis is among the most widely studied lactic acid bacterial species due to its long history of safe use and economic importance to the dairy industry, where it is exploited as a starter culture in cheese production. Results: In the current study, we report on the complete sequencing of 16 L. lactis subsp. lactis and L. lactis subsp. cremoris genomes. The chromosomal features of these 16 L. lactis strains in conjunction with 14 completely sequenced, publicly available lactococcal chromosomes were assessed with particular emphasis on discerning the L. lactis subspecies division, evolution and niche adaptation. The deduced pan-genome of L. lactis was found to be closed, indicating that the representative data sets employed for this analysis are sufficient to fully describe the genetic diversity of the taxon. Conclusions: Niche adaptation appears to play a significant role in governing the genetic content of each L. lactis subspecies, while (differential) genome decay and redundancy in the dairy niche is also highlighted. en
dc.format.mimetype application/pdf en
dc.language.iso en en
dc.publisher BioMed Central en
dc.rights © 2017, the Authors. Open Access. 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 http://creativecommons.org/licenses/by/4.0/ en
dc.subject Lactococcus lactis en
dc.subject Genomics en
dc.subject SMRT sequencing en
dc.subject Pan-genome en
dc.subject Niche adaptation en
dc.title Comparative and functional genomics of the Lactococcus lactis taxon; insights into evolution and niche adaptation en
dc.type Article (peer-reviewed) en
dc.internal.authorcontactother Douwe Van Sinderen, Microbiology, University College Cork, Cork, Ireland. +353-21-490-3000 Email: d.vansinderen@ucc.ie en
dc.internal.availability Full text available en
dc.date.updated 2017-05-03T11:07:56Z
dc.description.version Published Version en
dc.internal.rssid 393598361
dc.internal.wokid WOS:000397755800003
dc.contributor.funder Department of Agriculture, Food and the Marine en
dc.contributor.funder Science Foundation Ireland en
dc.description.status Peer reviewed en
dc.identifier.journaltitle BMC Genomics en
dc.internal.copyrightchecked Yes en
dc.internal.licenseacceptance Yes en
dc.internal.IRISemailaddress d.vansinderen@ucc.ie en
dc.identifier.articleid 267
dc.relation.project Department of Agriculture, Food and the Marine (FIRM Ref: 10/RD/TMFRC/704–‘CheeseBoard 2015’ project); Science Foundation Ireland (Principal Investigator Award Ref. No. 13/IA/1953; TIDA Ref. No. 14/TIDA/2287; Starting Investigator Research Grant 15/SIRG/3430) en


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© 2017, the Authors. Open Access. 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 © 2017, the Authors. Open Access. 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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