The rapid assignment of ruminal fungi to presumptive genera using ITS1 and ITS2 RNA secondary structures to produce group-specific fingerprints

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dc.contributor.author Nicholson, Matthew J.
dc.contributor.author Theodorou, Michael K.
dc.contributor.author Brookman, Jayne L.
dc.contributor.author Tuckwell, Danny S.
dc.contributor.author McSweeney, Christopher S.
dc.date.accessioned 2008-12-11T11:30:56Z
dc.date.available 2008-12-11T11:30:56Z
dc.date.issued 2005-05-05
dc.identifier.citation Nicholson , M J , Theodorou , M K , Brookman , J L , Tuckwell , D S & McSweeney , C S 2005 , ' The rapid assignment of ruminal fungi to presumptive genera using ITS1 and ITS2 RNA secondary structures to produce group-specific fingerprints ' Microbiology , pp. 1557-1567 . , 10.1099/mic.0.27689-0 en
dc.identifier.issn 1465-2080
dc.identifier.other PURE: 91866
dc.identifier.other dspace: 2160/1521
dc.identifier.uri http://hdl.handle.net/2160/1521
dc.identifier.uri http://mic.sgmjournals.org/cgi/content/full/151/5/1557 en
dc.description Danny S. Tuckwell, Matthew J. Nicholson, Christopher S. McSweeney, Michael K. Theodorou and Jayne L. Brookman (2005). The rapid assignment of ruminal fungi to presumptive genera using ITS1 and ITS2 RNA secondary structures to produce group-specific fingerprints. Microbiology, 151 (5) pp.1557-1567 Sponsorship: BBSRC / Stapledon Memorial Trust RAE2008 en
dc.description.abstract Identification of microbial community members in complex environmental samples is time consuming and repetitive. Here, ribosomal sequences and hidden Markov models are used in a novel approach to rapidly assign fungi to their presumptive genera. The ITS1 and ITS2 fragments from a range of axenic, anaerobic gut fungal cultures, including several type strains, were isolated and the RNA secondary structures predicted for these sequences were used to generate a fingerprinting program. The methodology was then tested and the algorithms improved using a collection of environmentally derived sequences, providing a rapid indicator of the fungal diversity and numbers of novel sequence groups within the environmental sample from which they were derived. While the methodology was developed to assist in investigations involving the rumen ecosystem, it has potential generic application in studying diversity and population dynamics in other microbial ecosystems. en
dc.format.extent 11 en
dc.language.iso eng
dc.relation.ispartof Microbiology en
dc.title The rapid assignment of ruminal fungi to presumptive genera using ITS1 and ITS2 RNA secondary structures to produce group-specific fingerprints en
dc.type Text en
dc.type.publicationtype Article (Journal) en
dc.identifier.doi http://dx.doi.org/10.1099/mic.0.27689-0
dc.contributor.institution Institute of Biological, Environmental and Rural Sciences en
dc.description.status Peer reviewed en


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