A comparison of random sequence reads versus 16S rDNA sequences for estimating the biodiversity of a metagenomic library

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• dc.contributor.author Guigó Serra, Rodericca
• dc.contributor.author Manichanh, Chaysavanhca
• dc.contributor.author Chapple, Charles E.ca
• dc.contributor.author Frangeul, Lionelca
• dc.contributor.author Gloux, Karineca
• dc.contributor.author Dore, Joelca
• dc.date.accessioned 2010-06-10T14:41:23Z
• dc.date.available 2010-06-10T14:41:23Z
• dc.date.issued 2008ca
• dc.description.abstract The construction of metagenomic libraries has permitted the study of microorganisms resistant to isolation and the analysis of 16S rDNA sequences has been used for over two decades to examine bacterial biodiversity. Here, we show that the analysis of random sequence reads (RSRs) instead of 16S is a suitable shortcut to estimate the biodiversity of a bacterial community from metagenomic libraries. We generated 10,010 RSRs from a metagenomic library of microorganisms found in human faecal samples. Then searched them using the program BLASTN against a prokaryotic sequence database to assign a taxon to each RSR. The results were compared with those obtained by screening and analysing the clones containing 16S rDNA sequences in the whole library. We found that the biodiversity observed by RSR analysis is consistent with that obtained by 16S rDNA. We also show that RSRs are suitable to compare the biodiversity between different metagenomic libraries. RSRs can thus provide a good estimate of the biodiversity of a metagenomic library and, as an alternative to 16S, this approach is both faster and cheaper.
• dc.format.mimetype application/pdfca
• dc.identifier.citation Manichanh C, Chapple CE, Frangeul L, Gloux K, Guigo R, Dore J. A comparison of random sequence reads versus 16S rDNA sequences for estimating the biodiversity of a metagenomic library. Nucleic Acids Res. 2008;36(16):5180-5188./n. DOI: 10.1093/nar/gkn496
• dc.identifier.doi http://dx.doi.org/10.1093/nar/gkn496
• dc.identifier.issn 0305-1048
• dc.identifier.uri http://hdl.handle.net/10230/6242
• dc.language.iso engca
• dc.publisher Oxford University Pressca
• dc.relation.ispartof Nucleic Acids Research 2008;36(16):e5180
• dc.rights © 2008 Roderic Guigó et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by-nc/2.0/uk/
• dc.subject.other ADN
• dc.subject.other Interaccions ADN -- Proteïnes
• dc.title A comparison of random sequence reads versus 16S rDNA sequences for estimating the biodiversity of a metagenomic libraryca
• dc.type info:eu-repo/semantics/articleca
• dc.type.version info:eu-repo/semantics/publishedVersion