Genomes of ubiquitous marine and hypersaline Hydrogenovibrio, Thiomicrorhabdus, and Thiomicrospira spp. encode a diversity of mechanisms to sustain chemolithoautotrophy in heterogeneous environments.

Authors

Kathleen M. Scott, University of South Florida
John Williams, University of South Florida
Cody M.B. Porter, University of South Florida
Sydney Russel, University of South Florida
Tara L. Harmer, Stockton University
John H. Paul, University of South Florida
Kirsten M. Antonen, University of South Florida
Megan K. Bridges, University of South Florida
Gary J. Camper, University of South Florida
Christie K. Campla, University of South Florida
Leila G. Casella, University of South Florida
Eva Chase, University of South Florida
James W. Conrad, University of South Florida
Mercedez C. Cruz, University of South Florida
Darren S. Dunlap, University of South Florida
Laura Duran, University of South Florida
Elizabeth M. Fahsbender, University of South Florida
Dawn B. Goldsmith, University of South Florida
Ryan F. Keeley, University of South Florida
Matthew R. Kondoff, University of South Florida
Breanna I. Kussy, University of South Florida
Marannda K. Lane, University of South Florida
Stephanie Lawler, University of South Florida
Brittany A. Leigh, University of South Florida
Courtney Lewis, University of South Florida
Lygia M. Lostal, University of South Florida
Devon Marking, University of South Florida
Paola A. Mancera, University of South Florida
Evan C. McClenthan, University of South Florida
Emily A. McIntyre, University of South Florida
Jessica A. Mine
Swapnil Modi
Brittney D. Moore
William A. Morgan
Kaleigh M. Nelson
Kimmy N. Nguyen
Nicholas Ogburn
David G. Parrino
Anangamanjari D. Pedapudi
Rebecca P. Pelham
Amanda M. Preece

Abstract

Chemolithoautotrophic bacteria from the genera Hydrogenovibrio, Thiomicrorhabdus, and Thiomicrospira are common, sometimes dominant, isolates from sulfidic habitats including hydrothermal vents, soda and salt lakes, and marine sediments. Their genome sequences confirm their membership in a deeply branching clade of the Gammaproteobacteria. Several adaptations to heterogeneous habitats are apparent. Their genomes include large numbers of genes for sensing and responding to their environment (EAL- and GGDEF-domain proteins, and methyl-accepting chemotaxis proteins) despite their small sizes (2.1 - 3.1 Mbp). An array of sulfur-oxidizing complexes are encoded, likely to facilitate these organisms' use of multiple forms of reduced sulfur as electron donors. Hydrogenase genes are present in some taxa, including group 1d and 2b hydrogenases in Hydrogenovibrio marinus and H. thermophilus MA2-6, acquired via horizontal gene transfer. In addition to high-affinity cbb3cytochrome c oxidase, some also encode cytochrome bd-type quinol oxidase or ba3-type cytochrome c oxidase, which could facilitate growth under different oxygen tensions, or maintain redox balance. Carboxysome operons are present in most, with genes downstream encoding transporters from four evolutionarily distinct families, which may act with the carboxysomes to form CO2concentrating mechanisms. These adaptations to habitat variability likely contribute to the cosmopolitan distribution of these organisms. This article is protected by copyright. All rights reserved.

DOI

10.1111/1462-2920.14090

Publication Date

2018-01-01

Publication Title

Environmental Microbiology

Volume

20

Issue

8

ISSN

1462-2912

Embargo Period

2019-03-09

First Page

2686

Last Page

2708

Recommended Citation

Scott, K., Williams, J., Porter, C., Russel, S., Harmer, T., Paul, J., Antonen, K., Bridges, M., Camper, G., Campla, C., Casella, L., Chase, E., Conrad, J., Cruz, M., Dunlap, D., Duran, L., Fahsbender, E., Goldsmith, D., Keeley, R., Kondoff, M., Kussy, B., Lane, M., Lawler, S., Leigh, B., Lewis, C., Lostal, L., Marking, D., Mancera, P., McClenthan, E., McIntyre, E., Mine, J., Modi, S., Moore, B., Morgan, W., Nelson, K., Nguyen, K., Ogburn, N., Parrino, D., Pedapudi, A., Pelham, R., & Preece, A. (2018) 'Genomes of ubiquitous marine and hypersaline Hydrogenovibrio, Thiomicrorhabdus, and Thiomicrospira spp. encode a diversity of mechanisms to sustain chemolithoautotrophy in heterogeneous environments.', Environmental Microbiology, 20(8), pp. 2686-2708. Available at: 10.1111/1462-2920.14090