Unknown,Transcriptomics,Genomics,Proteomics

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Expression data from an in vitro growth of Methanobrevibacter smithii PS


ABSTRACT: RNA-sequencing is a powerful tool for exploring expression profiles of microbial species that does not require the production of a custom genechip. We used microarrays to compare our quantitative RNA-sequencing method to the standard expression quantification methods Methanobrevibacter smithii PS cultures were grown to stationary phase under 80% hydrogen, 20% CO2, with varying amounts of formate. RNA was extracted and purified, then divided into two aliquots per sample. One aliquot was prepared for hybridization on Affymetrix gene chips, the other was prepared for microbial RNA-sequencing.

ORGANISM(S): Methanobrevibacter smithii ATCC 35061

SUBMITTER: Federico Rey 

PROVIDER: E-GEOD-25535 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins.

Hansen Elizabeth E EE   Lozupone Catherine A CA   Rey Federico E FE   Wu Meng M   Guruge Janaki L JL   Narra Aneesha A   Goodfellow Jonathan J   Zaneveld Jesse R JR   McDonald Daniel T DT   Goodrich Julia A JA   Heath Andrew C AC   Knight Rob R   Gordon Jeffrey I JI  

Proceedings of the National Academy of Sciences of the United States of America 20110211


The human gut microbiota harbors three main groups of H(2)-consuming microbes: methanogens including the dominant archaeon, Methanobrevibacter smithii, a polyphyletic group of acetogens, and sulfate-reducing bacteria. Defining their roles in the gut is important for understanding how hydrogen metabolism affects the efficiency of fermentation of dietary components. We quantified methanogens in fecal samples from 40 healthy adult female monozygotic (MZ) and 28 dizygotic (DZ) twin pairs, analyzed b  ...[more]

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