Methylosinus trichosporium OB3b

♦ Strain informa​tion

Methylosinus trichosporium OB3b (for 'oddball' strain 3b) is an obligate aerobic methane-oxidizing alpha proteobacterium that was originally isolated in 1970 by Roger Whittenbury and colleagues. This strain has since been used extensively to elucidate the structure and function of several key enzymes of methane oxidation, including both particulate and soluble methane monooxygenase (sMMO) and the extracellular copper chelator methanobactin. In particular, the catalytic properties of soluble methane monooxygenase from M. trichosporium OB3b have been well characterized in context with biodegradation of recalcitrant hydrocarbons, such as trichloroethylene. The sequence of the M. trichosporium OB3b genome is the first reported from a member of the Methylocystaceae family in the order Rhizobiales [Stein 2010]

 

♦ Genome information

- Lineage: Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylocystaceae; Methylosinus; Methylosinus trichosporium (NCBI taxonomy ID: 595536)
- NCBI RefSeq accession: NZ_ADVE02000000 (chromosome; 4,962,262 bp)
   Assembly level: 3 contigs [ADVE02000001 (4,496,051 bp), ADVE02000002 (285,905 bp), ADVE02000003 (180,306 bp)]
- Genome paper:
Stein LY, Yoon S, Semrau JD, Dispirito AA, Crombie A, Murrell JC, Vuilleumier S, Kalyuzhnaya MG, Op den Camp HJ, Bringel F, Bruce D, Cheng JF, Copeland A, Goodwin L, Han S, Hauser L, Jetten MS, Lajus A, Land ML, Lapidus A, Lucas S, Médigue C, Pitluck S, Woyke T, Zeytun A, Klotz MG “Genome sequence of the obligate methanotroph Methylosinus trichosporium strain OB3b” Journal of Bacteriology 192(24):6497-6498 (2010)
 

♦ Genome browser

- ADVE02000001 (4,496,051 bp)
            - Circular genome viewer (CGView)
 
- ADVE02000002 (285,905 bp)
            - Circular genome viewer (CGView)
 
- ADVE02000003 (180,306 bp)
            - Circular genome viewer (CGView)
 

♦ Antibiotics & secondary metabolites

- ADVE02000003 (contig3, 180,306 bp)             

 

♦ Transcriptome structure

- Visualization of high-density data (e.g. RNAseq, ChIP-chip, tiling microarray) against coordinates on the genome

- Following data set can be visualized by Gaggle Genome Browser (Note: this link downloads large data files (~60-190MB)  at initial access) (Java need to be installed on your computer.)   

 

♦ Conditional regulons

 

♦ Metabolic network model

 

♦ Gene regulatory network model

 

♦ Phenotype Microarrays

- Phenotype Microarrays testing nearly 2000 cellular phenotypes simultaneously (Biolog PM Technology)