Abstract
BackgroundOligotropha 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.ResultsThe 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.ConclusionOligotropha, 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.
Highlights
Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium capable of utilizing CO and fixing CO2
We report completion of the O. carboxidovorans OM5 genome and comparative genomics analysis with Bradyrhizobium sp
15.99% were identified as conserved hypothetical proteins (CHPs), and 10.67% were designated as hypothetical proteins (HPs)
Summary
Oligotropha carboxidovorans OM5 T. (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium capable of utilizing CO (carbon monoxide) and fixing CO2 (carbon dioxide). (DSM 1227, ATCC 49405) is a chemolithoautotrophic bacterium capable of utilizing CO (carbon monoxide) and fixing CO2 (carbon dioxide). OM5 is capable of chemolithoautotrophic growth on CO, CO2, and H2 [3,4,5] and can utilize chemoorganoheterotrophic substrates under aerobic conditions, including the salts of pyruvate, formate, glyoxylate, lactate, ascorbate, malate, oxoglutarate, acetate, and oxalate. Initial 16 S rDNA sequencing [5] showed Oligotropha carboxidovorans is phylogenetically close to two Bradyrhizobiaceae: Bradyrhizobium sp. All three species share some common gene(s) and operons; these three bacteria vary greatly in metabolism.
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