title: Pyrosequencing of 16S rRNA gene amplicons to study the microbiota in the gastrointestinal tract of carp (Cyprinus carpio L.).
abstract: The microbes in the gastrointestinal (GI) tract are of high importance for the health of the host. In this study, Roche 454 pyrosequencing was applied to a pooled set of different 16S rRNA gene amplicons obtained from GI content of common carp (Cyprinus carpio) to make an inventory of the diversity of the microbiota in the GI tract. Compared to other studies, our culture-independent investigation reveals an impressive diversity of the microbial flora of the carp GI tract. The major group of obtained sequences belonged to the phylum Fusobacteria. Bacteroidetes, Planctomycetes and Gammaproteobacteria were other well represented groups of micro-organisms. Verrucomicrobiae, Clostridia and Bacilli (the latter two belonging to the phylum Firmicutes) had fewer representatives among the analyzed sequences. Many of these bacteria might be of high physiological relevance for carp as these groups have been implicated in vitamin production, nitrogen cycling and (cellulose) fermentation.
authors.affiliation: Department of Microbiology, IWWR, Radboud University Nijmegen, Heyendaalseweg 135, NL-6525 AJ Nijmegen, the Netherlands. m.jetten@science.ru.nl.
authors.forename: Maartje Ahj
authors.initials: MA
authors.lastname: van Kessel
authors.forename: Bas E
authors.initials: BE
authors.lastname: Dutilh
authors.forename: Kornelia
authors.initials: K
authors.lastname: Neveling
authors.forename: Michael P
authors.initials: MP
authors.lastname: Kwint
authors.forename: Joris A
authors.initials: JA
authors.lastname: Veltman
authors.forename: Gert
authors.initials: G
authors.lastname: Flik
authors.forename: Mike Sm
authors.initials: MS
authors.lastname: Jetten
authors.forename: Peter Hm
authors.initials: PH
authors.lastname: Klaren
authors.forename: Huub Jm
authors.initials: HJ
authors.lastname: Op den Camp
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