This Article Full Text Full Text (PDF) Supplemental material Alert me when this article is cited Alert me if a correction is posted Services Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Reprints and Permissions Copyright Information Books from ASM Press MicrobeWorld Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Swingley, W. D. Articles by Touchman, J. W. Search for Related Content PubMed PubMed Citation Articles by Swingley, W. D. Articles by Touchman, J. W.

 Previous Article  |  Next Article 

Journal of Bacteriology, February 2007, p. 683-690, Vol. 189, No. 3
0021-9193/07/$08.00+0     doi:10.1128/JB.01390-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.

The Complete Genome Sequence of Roseobacter denitrificans Reveals a Mixotrophic Rather than Photosynthetic Metabolism ^,

Wesley D. Swingley,^1, Sumedha Sadekar,² Stephen D. Mastrian,³ Heather J. Matthies,⁴ Jicheng Hao,³ Hector Ramos,² Chaitanya R. Acharya,^2, Amber L. Conrad,³ Heather L. Taylor,³ Liza C. Dejesa,³ Maulik K. Shah,³ Maeve E. O'Huallachain,³ Michael T. Lince,⁴ Robert E. Blankenship,⁴ J. Thomas Beatty,⁵ and Jeffrey W. Touchman^1,3*

School of Life Sciences, Arizona State University, Tempe, Arizona 85287,¹ Department of Computational Biosciences, Arizona State University, Tempe, Arizona 85287,² Translational Genomics Research Institute, Phoenix, Arizona 85004,³ Departments of Biology and Chemistry, Washington University, St. Louis, Missouri 63130,⁴ Department of Microbiology and Immunology, University of British Columbia, Vancouver, BC V6T 1Z3, Canada⁵

Received 31 August 2006/ Accepted 31 October 2006

Purple aerobic anoxygenic phototrophs (AAPs) are the only organisms known to capture light energy to enhance growth only in the presence of oxygen but do not produce oxygen. The highly adaptive AAPs compose more than 10% of the microbial community in some euphotic upper ocean waters and are potentially major contributors to the fixation of the greenhouse gas CO₂. We present the complete genomic sequence and feature analysis of the AAP Roseobacter denitrificans, which reveal clues to its physiology. The genome lacks genes that code for known photosynthetic carbon fixation pathways, and most notably missing are genes for the Calvin cycle enzymes ribulose bisphosphate carboxylase (RuBisCO) and phosphoribulokinase. Phylogenetic evidence implies that this absence could be due to a gene loss from a RuBisCO-containing -proteobacterial ancestor. We describe the potential importance of mixotrophic rather than autotrophic CO₂ fixation pathways in these organisms and suggest that these pathways function to fix CO₂ for the formation of cellular components but do not permit autotrophic growth. While some genes that code for the redox-dependent regulation of photosynthetic machinery are present, many light sensors and transcriptional regulatory motifs found in purple photosynthetic bacteria are absent.

---

* Corresponding author. Mailing address: Translational Genomics Research Institute, 445 N. 5th St., Phoenix, AZ 85004. Phone: (602) 343-8803. Fax: (602) 343-8840. E-mail: jtouchman{at}tgen.org.

Published ahead of print on 10 November 2006.

Supplemental material for this article may be found at http://jb.asm.org/.

Current address: Inst. of Low Temp. Sci., Hokkaido University, Sapporo, 060-0819, Japan.

Current address: Inst. for Genome Sciences and Policy, Duke University, Durham, NC 27708.

---

Journal of Bacteriology, February 2007, p. 683-690, Vol. 189, No. 3
0021-9193/07/$08.00+0     doi:10.1128/JB.01390-06
Copyright © 2007, American Society for Microbiology. All Rights Reserved.

This article has been cited by other articles:

• Zubkov, M. V. (2009). Photoheterotrophy in marine prokaryotes. J PLANKTON RES 31: 933-938 [Abstract] [Full Text]  
• Zhang, Y., Jiao, N. (2009). Roseophage RDJL{Phi}1, Infecting the Aerobic Anoxygenic Phototrophic Bacterium Roseobacter denitrificans OCh114. Appl. Environ. Microbiol. 75: 1745-1749 [Abstract] [Full Text]  
• Crump, B. C., Koch, E. W. (2008). Attached Bacterial Populations Shared by Four Species of Aquatic Angiosperms. Appl. Environ. Microbiol. 74: 5948-5957 [Abstract] [Full Text]  
• Jaubert, M., Vuillet, L., Hannibal, L., Adriano, J.-M., Fardoux, J., Bouyer, P., Bonaldi, K., Fleischman, D., Giraud, E., Vermeglio, A. (2008). Control of Peripheral Light-Harvesting Complex Synthesis by a Bacteriophytochrome in the Aerobic Photosynthetic Bacterium Bradyrhizobium Strain BTAi1. J. Bacteriol. 190: 5824-5831 [Abstract] [Full Text]  
• Sattley, W. M., Madigan, M. T., Swingley, W. D., Cheung, P. C., Clocksin, K. M., Conrad, A. L., Dejesa, L. C., Honchak, B. M., Jung, D. O., Karbach, L. E., Kurdoglu, A., Lahiri, S., Mastrian, S. D., Page, L. E., Taylor, H. L., Wang, Z. T., Raymond, J., Chen, M., Blankenship, R. E., Touchman, J. W. (2008). The Genome of Heliobacterium modesticaldum, a Phototrophic Representative of the Firmicutes Containing the Simplest Photosynthetic Apparatus. J. Bacteriol. 190: 4687-4696 [Abstract] [Full Text]  
• Swingley, W. D., Chen, M., Cheung, P. C., Conrad, A. L., Dejesa, L. C., Hao, J., Honchak, B. M., Karbach, L. E., Kurdoglu, A., Lahiri, S., Mastrian, S. D., Miyashita, H., Page, L., Ramakrishna, P., Satoh, S., Sattley, W. M., Shimada, Y., Taylor, H. L., Tomo, T., Tsuchiya, T., Wang, Z. T., Raymond, J., Mimuro, M., Blankenship, R. E., Touchman, J. W. (2008). Niche adaptation and genome expansion in the chlorophyll d-producing cyanobacterium Acaryochloris marina. Proc. Natl. Acad. Sci. USA 105: 2005-2010 [Abstract] [Full Text]  
• Moran, M. A., Belas, R., Schell, M. A., Gonzalez, J. M., Sun, F., Sun, S., Binder, B. J., Edmonds, J., Ye, W., Orcutt, B., Howard, E. C., Meile, C., Palefsky, W., Goesmann, A., Ren, Q., Paulsen, I., Ulrich, L. E., Thompson, L. S., Saunders, E., Buchan, A. (2007). Ecological Genomics of Marine Roseobacters. Appl. Environ. Microbiol. 73: 4559-4569 [Abstract] [Full Text]