Methane assimilation and trophic interactions with marine Methylomicrobium in deep-water coral reef sediment off the coast of Norway.
Deep-water coral reefs are seafloor environments with diverse biological communities surrounded by cold permanent darkness. Sources of energy and carbon for the nourishment of these reefs are presently unclear. We investigated one aspect of the food web using DNA stable-isotope probing (DNA-SIP). Sediment from beneath a Lophelia pertusa reef off the coast of Norway was incubated until assimilation of 5 micromol 13CH4 g(-1) wet weight occurred. Extracted DNA was separated into 'light' and 'heavy' fractions for analysis of labelling. Bacterial community fingerprinting of PCR-amplified 16S rRNA gene fragments revealed two predominant 13C-specific bands. Sequencing of these bands indicated that carbon from 13CH4 had been assimilated by a Methylomicrobium and an uncultivated member of the Gammaproteobacteria. Cloning and sequencing of 16S rRNA genes from the heavy DNA, in addition to genes encoding particulate methane monooxygenase and methanol dehydrogenase, all linked Methylomicrobium with methane metabolism. Putative cross-feeders were affiliated with Methylophaga (Gammaproteobacteria), Hyphomicrobium (Alphaproteobacteria) and previously unrecognized methylotrophs of the Gammaproteobacteria, Alphaproteobacteria, Deferribacteres and Bacteroidetes. This first marine methane SIP study provides evidence for the presence of methylotrophs that participate in sediment food webs associated with deep-water coral reefs.
Jensen
Sigmund
S
Department of Biology, University of Bergen, Bergen, Norway. sigmund.jensen@bio.uib.no
Neufeld
Josh D
JD
Birkeland
Nils-Kåre
NK
Hovland
Martin
M
Murrell
John Colin
JC
D000429:Alcohol Oxidoreductases / Q000235:genetics; D000818:Animals; D037421:Anthozoa / Q000254:growth & development*; D002247:Carbon Isotopes / Q000378:metabolism; D016172:DNA Fingerprinting / Q000379:methods; D017753:Ecosystem; D020387:Food Chain; D019015:Geologic Sediments / Q000382:microbiology*; D008697:Methane / Q000378:metabolism*; D008772:Methylococcaceae / Q000145:classification / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D008969:Molecular Sequence Data; D009664:Norway; D010105:Oxygenases / Q000235:genetics; D010802:Phylogeny; D016133:Polymerase Chain Reaction / Q000379:methods; D020560:Proteobacteria / Q000235:genetics / Q000254:growth & development* / Q000378:metabolism; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012623:Seawater / Q000382:microbiology*; D017422:Sequence Analysis, DNA
D002247:Carbon Isotopes; D012336:RNA, Ribosomal, 16S; D000429:Alcohol Oxidoreductases; C019641:alcohol dehydrogenase (acceptor); D010105:Oxygenases; C021555:methane monooxygenase; D008697:Methane