Complete genome and comparative analysis of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5.
BACKGROUND
Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium capable of utilizing CO (carbon monoxide) and fixing CO2 (carbon dioxide). We previously published the draft genome of this organism and recently submitted the complete genome sequence to GenBank.


RESULTS
The genome sequence of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5 consists of a 3.74-Mb chromosome and a 133-kb megaplasmid that contains the genes responsible for utilization of carbon monoxide, carbon dioxide, and hydrogen. To our knowledge, this strain is the first one to be sequenced in the genus Oligotropha, the closest fully sequenced relatives being Bradyrhizobium sp. BTAi and USDA110 and Nitrobacter hamburgiensis X14. Analysis of the O. carboxidovorans genome reveals potential links between plasmid-encoded chemolithoautotrophy and chromosomally-encoded lipid metabolism. Comparative analysis of O. carboxidovorans with closely related species revealed differences in metabolic pathways, particularly in carbohydrate and lipid metabolism, as well as transport pathways.


CONCLUSIONS
Oligotropha, Bradyrhizobium sp and Nitrobacter hamburgiensis X14 are phylogenetically proximal. Although there is significant conservation of genome organization between the species, there are major differences in many metabolic pathways that reflect the adaptive strategies unique to each species.
Paul
Debarati
D
College of Veterinary Medicine, Mississippi State University, Mississippi State, Mississippi, USA.
Bridges
Susan M
SM
Burgess
Shane C
SC
Dandass
Yoginder S
YS
Lawrence
Mark L
ML
D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism; D041841:Bradyrhizobiaceae / Q000201:enzymology / Q000235:genetics*; D050260:Carbohydrate Metabolism / Q000235:genetics; D052837:Chemoautotrophic Growth / Q000235:genetics*; D004270:DNA, Circular / Q000235:genetics; D004734:Energy Metabolism / Q000235:genetics; D005111:Extrachromosomal Inheritance / Q000235:genetics; D005227:Fatty Acids / Q000096:biosynthesis; D016680:Genome, Bacterial / Q000235:genetics*; D023281:Genomics; D020071:Interspersed Repetitive Sequences / Q000235:genetics; D053858:Metabolic Networks and Pathways / Q000235:genetics; D010084:Oxidation-Reduction; D010802:Phylogeny; D011485:Protein Binding; D021381:Protein Transport; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D022661:RNA, Untranslated / Q000235:genetics; D017386:Sequence Homology, Amino Acid; D026801:Synteny / Q000235:genetics
D001426:Bacterial Proteins; D004270:DNA, Circular; D005227:Fatty Acids; D012336:RNA, Ribosomal, 16S; D022661:RNA, Untranslated