U.S. Department of Energy

Pacific Northwest National Laboratory

Fermentation, hydrogen, and sulfur metabolism in multiple uncultivated bacterial phyla.

TitleFermentation, hydrogen, and sulfur metabolism in multiple uncultivated bacterial phyla.
Publication TypeJournal Article
Year of Publication2012
AuthorsWrighton KC, Thomas BC, Sharon I, Miller CS, Castelle CJ, VerBerkmoes NC, Wilkins MJ, Hettich RL, Lipton MS, Williams KH, Long PE, Banfield JF
JournalScience
KeywordsAmino Acid Sequence, Archaeal Proteins, Bacteria, Anaerobic, Codon, Terminator, DNA, Bacterial, Fermentation, Genome, Bacterial, Hydrogen, Hydrogenase, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, Ribulose-Bisphosphate Carboxylase, Sulfur, Tryptophan
Abstract

BD1-5, OP11, and OD1 bacteria have been widely detected in anaerobic environments, but their metabolisms remain unclear owing to lack of cultivated representatives and minimal genomic sampling. We uncovered metabolic characteristics for members of these phyla, and a new lineage, PER, via cultivation-independent recovery of 49 partial to near-complete genomes from an acetate-amended aquifer. All organisms were nonrespiring anaerobes predicted to ferment. Three augment fermentation with archaeal-like hybrid type II/III ribulose-1,5-bisphosphate carboxylase-oxygenase (RuBisCO) that couples adenosine monophosphate salvage with CO(2) fixation, a pathway not previously described in Bacteria. Members of OD1 reduce sulfur and may pump protons using archaeal-type hydrogenases. For six organisms, the UGA stop codon is translated as tryptophan. All bacteria studied here may play previously unrecognized roles in hydrogen production, sulfur cycling, and fermentation of refractory sedimentary carbon.

DOI10.1126/science.1224041
PubMed ID23019650
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