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Open Access Research article

Complete genome and comparative analysis of the chemolithoautotrophic bacterium Oligotropha carboxidovorans OM5

Debarati Paul1, Susan M Bridges24, Shane C Burgess123, Yoginder S Dandass24 and Mark L Lawrence12*

Author Affiliations

1 College of Veterinary Medicine, Mississippi State University, Mississippi State, Mississippi, USA

2 Institute for Digital Biology, Mississippi State University, Mississippi State, Mississippi, USA

3 Life Sciences and Biotechnology Institute, Mississippi State University, Mississippi State, Mississippi, USA

4 Department of Computer Science and Engineering, Mississippi State University, Mississippi State, Mississippi, USA

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BMC Genomics 2010, 11:511  doi:10.1186/1471-2164-11-511

Published: 23 September 2010

Abstract

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.

Conclusion

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.