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HAMAP: Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) complete proteome
General information

Species:  Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5)
Species code: OLICO
Taxonomy: Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Oligotropha (TaxID: 504832) [NEWT/ NCBI]
Description: Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) is a chemolithoautotrophic bacterium with the capability to utilize carbon monoxide, carbon dioxide, and hydrogen as an energy source. It was originally isolated from wastewater by enrichment culture studies that were conducted to isolate CO-utilizing bacteria. Originally identified as Pseudomonas carboxidovorans, it was reclassified later as Oligotropha carboxidovorans. No plasmids were found except the megaplasmid pHCG3. The gene for carbon monoxide dehydrogenase, a key enzyme in the utilization of carbon monoxide, is carried on the low-copy-number megaplasmid, which contains also the genes required for chemolithoautotrophic utilization of CO and CO2 (carboxidotrophy), H2 and CO2 (hydrogenotrophy), and CO2 fixation under aerobic conditions. It is also capable of heterotrophic growth under appropriate environmental conditions. O. carboxidovorans is capable of utilizing syngas, a mixture of CO, CO2, and H2 that results from gasification of organic wastes for chemolithoautotrophic growth. Microbial fermentation of this gas mixture could serve as a source for biofuels. The O. carboxidovorans genome sequence will allow future investigations into how it is able to assimilate carbon that is fixed by chemolithoautotrophy into its metabolism, which could benefit the future use of syngas for biofuel production (adapted from PMID 18539730). A second copy of the genome sequence has been sequenced; it encodes 2 plasmids, neither of which are represented in the first proteome (adapted from PMID 21742883).
Properties: Presence of flagella: Yes
Human pathogen: No
Interaction: No
Number of membranes: 2
Number of inteins:0
Statistics: Number of OLICO entries in the UniProt Knowledgebase: 3727 (229 in UniProtKB/Swiss-Prot + 3498 in UniProtKB/TrEMBL)


Genome(s) sequenced

Strain:    ATCC 49405 / DSM 1227 / OM5
Genome structure:
• Chromosome EMBL accession number CP002826 (circular; 3,595,748 bp) (download entry)
• Plasmid pHCG3 EMBL accession number CP002827 (circular; 133,057 bp) (download entry)
• Plasmid pOC167 EMBL accession number CP002828 (circular; 167,269 bp) (download entry)
Reference(s):
[1] PubMed=21742883; [ NCBI , EBI , Israel , Japan ]
Volland S., Rachinger M., Strittmatter A., Daniel R., Gottschalk G., Meyer O. ;
"Complete genome sequences of the chemolithoautotrophic Oligotropha carboxidovorans strains OM4 and OM5.";
J. Bacteriol. 193:5043-5043(2011).
[2] PubMed=14644498; [ NCBI , EBI , Israel , Japan ]
Fuhrmann S., Ferner M., Jeffke T., Henne A., Gottschalk G., Meyer O. ;
"Complete nucleotide sequence of the circular megaplasmid pHCG3 of Oligotropha carboxidovorans: function in the chemolithoautotrophic utilization of CO, H(2) and CO(2).";
Gene 322:67-75(2003).
Web links:
Entrez BioProject: http://www.ncbi.nlm.nih.gov/bioproject/41025
GIB (DDBJ): http://gib.genes.nig.ac.jp/single/index.php?spid=Ocar_OM5_UGOETTINGEN
GOLD: http://genomesonline.org/cgi-bin/GOLD/bin/GOLDCards.cgi?goldstamp=Gc01820
PATRIC: http://patricbrc.vbi.vt.edu/portal/portal/patric/Genome?cType=genome&cId=203740

Strain:    ATCC 49405 / DSM 1227 / OM5 [Mississippi]
Genome structure:
Chromosome EMBL accession number CP001196 (circular; 3,745,629 bp) (download entry)
Reference(s):
[1] PubMed=18539730; [ NCBI , EBI , Israel , Japan ]
Paul D., Bridges S., Burgess S.C., Dandass Y., Lawrence M.L. ;
"Genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5T.";
J. Bacteriol. 190:5531-5532(2008).
Web links:
Official genome site(s):
http://www.cvm.msstate.edu/
Other web sites:
BioProject: http://www.ncbi.nlm.nih.gov/bioproject/28805
Genome Atlas: http://www.cbs.dtu.dk/services/gwBrowser/project.php?pid=28805
GIB (DDBJ): http://gib.genes.nig.ac.jp/single/index.php?spid=Ocar_OM5
GOLD: http://genomesonline.org/cgi-bin/GOLD/bin/GOLDCards.cgi?goldstamp=Gc00876
img/geba: http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=TaxonDetail&page=taxonDetail&taxon_oid=643348567
PATRIC: http://patricbrc.vbi.vt.edu/portal/portal/patric/Genome?cType=genome&cId=134280
PEDANT: http://pedant.gsf.de/pedant3htmlview/pedant3view?Method=analysis&Db=p3_p28805_Oli_carbo
 EBI Proteome Analysis page



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