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Methanobrevibacter smithii (Methanobrevibacter smithii ATCC 35061) Genome Browser Gateway
 
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About the Methanobrevibacter smithii 06/04/2007 (methSmit1) assembly (sequences)
 

Species Information

The Methanobrevibacter smithii ATCC 35061 genome is 1.85 Million bp long and contains approximately 1837 predicted genes.

Taxonomy: Archaea; Euryarchaeota; Methanobacteria; Methanobacteriales; Methanobacteriaceae; Methanobrevibacter.

Sequencing: The sequence was released Jun 6 2007 by the Washington University (WashU), and was described in Proc Natl Acad Sci U S A 104:10643-8 (2007) Samuel BS, Hansen EE, Manchester JK, Coutinho PM, Henrissat B, et al. "Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut."

Abstract: The human gut is home to trillions of microbes, thousands of bacterial phylotypes, as well as hydrogen-consuming methanogenic archaea. Studies in gnotobiotic mice indicate that Methanobrevibacter smithii, the dominant archaeon in the human gut ecosystem, affects the specificity and efficiency of bacterial digestion of dietary polysaccharides, thereby influencing host calorie harvest and adiposity. Metagenomic studies of the gut microbial communities of genetically obese mice and their lean littermates have shown that the former contain an enhanced representation of genes involved in polysaccharide degradation, possess more archaea, and exhibit a greater capacity to promote adiposity when transplanted into germ-free recipients. These findings have led to the hypothesis that M. smithii may b... [Click above reference link for full abstract]

Isolation: Appl Environ Microbiol 43:227-32 (1982) Miller TL, Wolin MJ, Conway de Macario E, Macario AJ, "Isolation of Methanobrevibacter smithii from human feces."

Abstract: Fecal specimens from nine adults were examined for the presence of methanogenic bacteria. Enrichment cultures of five specimens produced methane in 5 days. Of these five specimens, three were tested and produced methane during a short-term incubation. Four specimens did not produce methane in either short-term incubation or in enrichment culture. Each methanogenic culture contained methanogens similar in morphology to organisms of the genus Methanobrevibacter and showed factor-420 fluorescence by fluorescence microscopy. Pure cultures were obtained from four of the five methanogenic enrichment cultures. Each isolate grew and formed methane from either H2-CO2 or formate, but growth obtained with formate was poor. None of the isolates used acetate, methanol, or trimethylamine. All isolates g... [Click above reference link for full abstract]

Sequenced related species/strains: Methanobacterium AL, Methanobacterium SWAN, Methanothermus fervidus, Methanothermobacter marburgensis, Methanobrevibacter ruminantium, Methanosphaera stadtmanae, Methanothermobacter thermautotrophicus

Browse Specific Gene/Feature Sets

Sample position queries

A genome position can be specified by chromosomal coordinate range, COGID, or keywords from the GenBank or TIGR description of a gene. The available chromosome/plasmid names are:

Browser Chrom/Plasmid NameLength (bp)GC Content (%)Gene CountNCBI RefSeq Accession
chr185316031.031837NC_009515

The following list shows examples of valid position queries for thisgenome: 

Request:Genome Browser Response:
chrDisplays the entire sequence "chr" in the browser window
chr:1-10000    Displays first ten thousand bases of the sequence "chr"
transporter    Lists all genes with "transporter" in the name or description
Msm_0010Display genome at position of gene Msm_0010

Phylogenetic tree of related species based on multiple-genome alignment in browser:

Phylogeny tree

Credits

The Archaeal Genome Browsers at UCSC were developed by members of theLowe Lab (Kevin Schneider,Katherine Pollard, Andy Pohl, Todd Lowe) and Robert Baertsch, with significant support fromthe UCSC Human GenomeBrowser group.The Archaeal Browsers are run by a slightly modifiedversion of the UCSC Human GenomeBrowser system. All queries, bug reports, content corrections, suggested improvements,and new track data submissions should be sent to Todd Lowe (lowe@soe.ucsc.edu).

If you use the browser in your published research, please cite ourpublication in the Nucleic Acids Research DatabaseIssue. Citations and positive feedback will help us obtain fundingto continue development of this community resource.