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dc.contributor.authorde la Fuente Oliver, Gabriel
dc.contributor.authorBelanche, A.
dc.contributor.authorGirwood, Susan E.
dc.contributor.authorPinloche, Eric
dc.contributor.authorWilkinson, Toby
dc.contributor.authorNewbold, C. Jamie
dc.date.accessioned2015-11-27T18:30:05Z
dc.date.available2015-11-27T18:30:05Z
dc.date.issued2014-07-22
dc.identifier.issn1932-6203
dc.identifier.urihttp://hdl.handle.net/10459.1/49183
dc.description.abstractThe development of next generation sequencing has challenged the use of other molecular fingerprinting methods used to study microbial diversity. We analysed the bacterial diversity in the rumen of defaunated sheep following the introduction of different protozoal populations, using both next generation sequencing (NGS: Ion Torrent PGM) and terminal restriction fragment length polymorphism (T-RFLP). Although absolute number differed, there was a high correlation between NGS and T-RFLP in terms of richness and diversity with R values of 0.836 and 0.781 for richness and Shannon-Wiener index, respectively. Dendrograms for both datasets were also highly correlated (Mantel test = 0.742). Eighteen OTUs and ten genera were significantly impacted by the addition of rumen protozoa, with an increase in the relative abundance of Prevotella, Bacteroides and Ruminobacter, related to an increase in free ammonia levels in the rumen. Our findings suggest that classic fingerprinting methods are still valuable tools to study microbial diversity and structure in complex environments but that NGS techniques now provide cost effect alternatives that provide a far greater level of information on the individual members of the microbial population.
dc.description.sponsorshipThis work was supported by the Commission of the European Communities (Rednex project FP7-KBBE-2007-1) and the Welsh Government.
dc.format.mimetypeapplication/pdf
dc.language.isoeng
dc.publisherPublic Library of Science
dc.relation.isformatofReproducció del document publicat a: https://doi.org/10.1371/journal.pone.0101435
dc.relation.ispartofPlos One, 2014, vol. 9, núm. 7
dc.rightscc-by (c) de la Fuente Oliver, Gabriel et al., 2014
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/es
dc.subject.classificationRemugants
dc.subject.classificationBestiar oví
dc.subject.classificationProtozous
dc.subject.otherRuminants
dc.subject.otherSheep
dc.subject.otherProtozoa
dc.titlePros and cons of ion-torrent next generation sequencing versus terminal restriction fragment length polymorphism T-RFLP for studying the rumen bacterial community
dc.typeinfo:eu-repo/semantics/article
dc.date.updated2015-11-27T18:30:05Z
dc.identifier.idgrec023067
dc.type.versioninfo:eu-repo/semantics/publishedVersion
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.identifier.doihttps://doi.org/10.1371/journal.pone.0101435
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/FP7/211606


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