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

Kathleen M. Scott, John Williams, Cody M.B. Porter, Sydney Russel, Tara L. Harmer, John H. Paul, Kirsten M. Antonen, Megan K. Bridges, Gary J. Camper, Christie K. Campla, Leila G. Casella, Eva Chase, James W. Conrad, Mercedez C. Cruz, Darren S. Dunlap, Laura Duran, Elizabeth M. Fahsbender, Dawn B. Goldsmith, Ryan F. Keeley, Matthew R. KondoffBreanna I. Kussy, Marannda K. Lane, Stephanie Lawler, Brittany A. Leigh, Courtney Lewis, Lygia M. Lostal, Devon Marking, Paola A. Mancera, Evan C. McClenthan, Emily A. McIntyre, 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, Elizabeth A. Rampersad, Jason C. Richardson, Christina M. Rodgers, Brent L. Schaffer, Nancy E. Sheridan, Michael R. Solone, Zachery R. Staley, Maki Tabuchi, Ramond J. Waide, Pauline W. Wanjugi, Suzanne Young, Alicia Clum, Chris Daum, Marcel Huntemann, Natalia Ivanova, Nikos Kyrpides, Natalia Mikhailova, Krishnaveni Palaniappan, Manoj Pillay, T. B.K. Reddy, Nicole Shapiro, Dimitrios Stamatis, Neha Varghese, Tanja Woyke, Rich Boden, Sharyn K. Freyermuth, Cheryl A. Kerfeld

Research output: Contribution to journalArticlepeer-review

25 Scopus citations

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 cbb3 cytochrome 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 CO2 concentrating mechanisms. These adaptations to habitat variability likely contribute to the cosmopolitan distribution of these organisms.

Original languageEnglish
Pages (from-to)2686-2708
Number of pages23
JournalEnvironmental Microbiology
Volume20
Issue number8
DOIs
StatePublished - Aug 2018
Externally publishedYes

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