Roseobacter clade bacteria are abundant in coastal sediments and encode a novel combination of sulfur oxidation genes

Roseobacter clade bacteria (RCB) are abundant in marine bacterioplankton worldwide and central to pelagic sulfur cycling. Very little is known about their abundance and function in marine sediments. We investigated the abundance, diversity and sulfur oxidation potential of RCB in surface sediments o...

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Vydáno v:The ISME Journal Ročník 6; číslo 12; s. 2178 - 2187
Hlavní autoři: Lenk, Sabine, Moraru, Cristina, Hahnke, Sarah, Arnds, Julia, Richter, Michael, Kube, Michael, Reinhardt, Richard, Brinkhoff, Thorsten, Harder, Jens, Amann, Rudolf, Mußmann, Marc
Médium: Journal Article
Jazyk:angličtina
Vydáno: London Nature Publishing Group UK 01.12.2012
Oxford University Press
Nature Publishing Group
Témata:
631/158/2446/2447
631/326/41/1969
631/326/41/2142
Biofilms
Biomedical and Life Sciences
Dehydrogenase
DNA, Bacterial - genetics
Ecology
Evolutionary Biology
Fluorescence
Geologic Sediments - microbiology
Hybridization
Hydrogensulfite Reductase - genetics
Hydrogensulfite Reductase - metabolism
In Situ Hybridization, Fluorescence
Life Sciences
Marine sediments
Metagenomics
Microbial Ecology
Microbial Genetics and Genomics
Microbiology
Original
original-article
Oxidation
Oxidation-Reduction
Phylogeny
RNA, Ribosomal, 16S - genetics
Roseobacter
Roseobacter - classification
Roseobacter - genetics
Roseobacter - metabolism
Seawater - microbiology
Sequence Analysis, DNA
Sulfates
Sulfite Dehydrogenase - genetics
Sulfur
Sulfur - metabolism
Tidal flats
Water Microbiology
sulfur oxidation
geneFISH
sediment
ISSN:1751-7362, 1751-7370, 1751-7370
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Shrnutí:Roseobacter clade bacteria (RCB) are abundant in marine bacterioplankton worldwide and central to pelagic sulfur cycling. Very little is known about their abundance and function in marine sediments. We investigated the abundance, diversity and sulfur oxidation potential of RCB in surface sediments of two tidal flats. Here, RCB accounted for up to 9.6% of all cells and exceeded abundances commonly known for pelagic RCB by 1000-fold as revealed by fluorescence in situ hybridization (FISH). Phylogenetic analysis of 16S rRNA and sulfate thiohydrolase (SoxB) genes indicated diverse, possibly sulfur-oxidizing RCB related to sequences known from bacterioplankton and marine biofilms. To investigate the sulfur oxidation potential of RCB in sediments in more detail, we analyzed a metagenomic fragment from a RCB. This fragment encoded the reverse dissimilatory sulfite reductase (rDSR) pathway, which was not yet found in RCB, a novel type of sulfite dehydrogenase (SoeABC) and the Sox multi-enzyme complex including the SoxCD subunits. This was unexpected as soxCD and dsr genes were presumed to be mutually exclusive in sulfur-oxidizing prokaryotes. This unique gene arrangement would allow a metabolic flexibility beyond known sulfur-oxidizing pathways. We confirmed the presence of dsrA by geneFISH in closely related RCB from an enrichment culture. Our results show that RCB are an integral part of the microbial community in marine sediments, where they possibly oxidize inorganic and organic sulfur compounds in oxic and suboxic sediment layers.
Bibliografie:ObjectType-Article-1
SourceType-Scholarly Journals-1
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Current address: Humboldt-University of Berlin, Faculty of Agriculture and Horticulture, Berlin, Germany.
Current address: Max Planck Institute for Plant Breeding Research, Max Planck Genome Centre, Cologne, Germany.
Current address: Leibniz Institute for Agricultural Engineering, Potsdam, Germany.
ISSN:1751-7362
1751-7370
1751-7370
DOI:10.1038/ismej.2012.66