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HAMAP: Uncultured methanogenic archaeon RC-I complete proteome
General information

Species:  Uncultured methanogenic archaeon RC-I
Species code: UNCMA
Taxonomy: Archaea; Euryarchaeota; environmental samples (TaxID: 351160) [NEWT/ NCBI]
Description: A large part of the emitted methane is produced by methanogenic archaea and released through the gas vascular system of the rice plant. Rice Cluster I (RC-I) methanogens in the rice rhizosphere were found to play the key role in methane production from plant-derived carbon. They were identified as the predominant methanogens in rice paddy soils of geographically diverse regions. Several attempts have been made to isolate RC-I representatives in pure culture. Although isolation failed, one of these attempts with rice paddy soil as the inoculum resulted in the methanogenic consortium MRE50, in which RC-I methanogens constituted the only archaeal components. The complete genome sequence of a single RC-I representative was unambiguously reconstructed. The genome of the Uncultured methanogenic archaeon RC-I is made up of a single circular chromosome of 3,179,916 base pairs with 3103 coding sequences. The central energy metabolism of RC-I is H2/CO2-dependent methanogenesis. It can use formate and formaldehyde for methanogenic growth. It encodes only an incomplete methanol-coenzyme M methyltransferase system. It appears to use the Embden-Meyerhof-Parnas pathway for carbohydrate metabolism, thus involving bacterial-type enzymes not yet identified in archaea. The biosynthetic pathways for all amino acids except glutamate appear to be complete. Two mechanisms for nitrogen acquisition exist besides glutamate uptake: ammonium assimilation (glutamine synthetase, glutamate synthase and glutamate dehydrogenase) and dinitrogen fixation (nitrogenase). Sulfur assimilation is predicted to occur thanks to the reduction of sulfate to sulfide.
Properties: Presence of flagella: No
Human pathogen: No
Interaction: No
Number of membranes: 1
Number of inteins: 1
Statistics: Number of UNCMA entries in the UniProt Knowledgebase: 3071 (181 in UniProtKB/Swiss-Prot + 2890 in UniProtKB/TrEMBL)


Genome(s) sequenced

Strain:   
Genome structure:
Chromosome EMBL accession number AM114193 (circular; 3,179,916 bp) (download entry)
Reference(s):
[1] PubMed=16857943; [ NCBI , EBI , Israel , Japan ]
Erkel C., Kube M., Reinhardt R., Liesack W. ;
"Genome of rice cluster I archaea -- the key methane producers in the rice rhizosphere.";
Science 313:370-372(2006).
Web links:
Entrez Genome Project: http://www.ncbi.nlm.nih.gov/genomeprj/19641
 EBI Proteome Analysis page



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