Occurrence and diversity of CRISPR-Cas systems in the genus Bifidobacterium

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dc.contributor.author Briner, Alexandra E.
dc.contributor.author Lugli, Gabriele A.
dc.contributor.author Milani, Christian
dc.contributor.author Duranti, Sabrina
dc.contributor.author Turroni, Francesca
dc.contributor.author Gueimonde, Miguel
dc.contributor.author Margolles, Abelardo
dc.contributor.author van Sinderen, Douwe
dc.contributor.author Ventura, Marco
dc.contributor.author Barrangou, Rodolphe
dc.date.accessioned 2016-02-17T10:07:56Z
dc.date.available 2016-02-17T10:07:56Z
dc.date.issued 2015
dc.identifier.citation Briner AE, Lugli GA, Milani C, Duranti S, Turroni F, Gueimonde M, et al. (2015) Occurrence and Diversity of CRISPR-Cas Systems in the Genus Bifidobacterium. PLoS ONE 10(7): e0133661. doi:10.1371/journal.pone.0133661
dc.identifier.volume 10 en
dc.identifier.issued 7 en
dc.identifier.issn 1932-6203
dc.identifier.uri http://hdl.handle.net/10468/2300
dc.identifier.doi 10.1371/journal.pone.0133661
dc.description.abstract CRISPR-Cas systems constitute adaptive immune systems for antiviral defense in bacteria. We investigated the occurrence and diversity of CRISPR-Cas systems in 48 Bifidobacterium genomes to gain insights into the diversity and co-evolution of CRISPR-Cas systems within the genus and investigate CRISPR spacer content. We identified the elements necessary for the successful targeting and inference of foreign DNA in select Type II CRISPR-Cas systems, including the tracrRNA and target PAM sequence. Bifidobacterium species have a very high frequency of CRISPR-Cas occurrence (77%, 37 of 48). We found that many Bifidobacterium species have unusually large and diverse CRISPR-Cas systems that contain spacer sequences showing homology to foreign genetic elements like prophages. A large number of CRISPR spacers in bifidobacteria show perfect homology to prophage sequences harbored in the chromosomes of other species of Bifidobacterium, including some spacers that self-target the chromosome. A correlation was observed between strains that lacked CRISPR-Cas systems and the number of times prophages in that chromosome were targeted by other CRISPR spacers. The presence of prophage-targeting CRISPR spacers and prophage content may shed light on evolutionary processes and strain divergence. Finally, elements of Type II CRISPR-Cas systems, including the tracrRNA and crRNAs, set the stage for the development of genome editing and genetic engineering tools. en
dc.description.sponsorship North Carolina State University; GenProbio srl; Science Foundation Ireland (SFI), through the Irish Government's National Development Plan (SFI/12/RC/2273) en
dc.format.mimetype application/pdf en
dc.language.iso en en
dc.publisher Public Library of Science en
dc.rights © 2015 Briner et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited en
dc.rights.uri http://creativecommons.org/licenses/by/4.0/ en
dc.subject Comparative genomics en
dc.subject Adaptive immunity en
dc.subject Streptococcus thermophilus en
dc.subject Acquired resistance en
dc.subject Rna en
dc.subject Dna en
dc.subject Evolution en
dc.subject Bacteria en
dc.subject Classification en
dc.subject Endonuclease en
dc.title Occurrence and diversity of CRISPR-Cas systems in the genus Bifidobacterium en
dc.type Article (peer-reviewed) en
dc.internal.authorcontactother Douwe van Sinderen, Biosciences Institute, 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.internal.wokid WOS:000358838400048
dc.description.status Peer reviewed en
dc.identifier.journaltitle PLOS ONE en
dc.internal.IRISemailaddress d.vansinderen@ucc.ie en
dc.identifier.articleid e0133661


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© 2015 Briner et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Except where otherwise noted, this item's license is described as © 2015 Briner et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
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