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Serpentinimonas gen. Nov., serpentinimonas raichei sp. nov., serpentinimonas barnesii sp. nov. and serpentinimonas maccroryi sp. nov., hyperalkaliphilic and facultative autotrophic bacteria isolated from terrestrial serpentinizing springs

Journal Article (2021)
Author(s)

Lina J. Bird (University of Southern California, Naval Research Laboratory)

J. Gijs Kuenen (TU Delft - Applied Sciences, University of Southern California)

Magdalena R. Osburn (Northwestern University)

Naotaka Tomioka (Japan Agency for Marine-Earth Science and Technologies (JAMSTEC))

Shun’Ichi Ishii (Institute for Extra-cutting- edge Science and Technology Avant-garde Research (X-star), Japan Agency for Marine-Earth Science and Technologies (JAMSTEC))

Casey Barr (University of Southern California)

Kenneth H. Nealson (University of Southern California)

Shino Suzuki (Institute of Space and Astronautical Science (ISAS)/JAXA, Institute for Extra-cutting- edge Science and Technology Avant-garde Research (X-star), Japan Agency for Marine-Earth Science and Technologies (JAMSTEC))

Research Group
BT/Environmental Biotechnology
DOI related publication
https://doi.org/10.1099/ijsem.0.004945 Final published version
More Info
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Publication Year
2021
Language
English
Research Group
BT/Environmental Biotechnology
Journal title
International Journal of Systematic and Evolutionary Microbiology
Issue number
8
Volume number
71
Article number
004945
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Abstract

Three highly alkaliphilic bacterial strains designated as A1T, H1T and B1T were isolated from two highly alkaline springs at The Cedars, a terrestrial serpentinizing site. Cells from all strains were motile, Gram-negative and rod-shaped. Strains A1T, H1T and B1T were mesophilic (optimum, 30 °C), highly alkaliphilic (optimum, pH 11) and facultatively autotrophic. Major cellular fatty acids were saturated and monounsaturated hexadecenoic and octadecanoic acids. The genome size of strains A1T, H1T and B1T was 2574013, 2475906 and 2623236 bp, and the G+C content was 66.0, 66.2 and 66.1mol%, respectively. Analysis of the 16S rRNA genes showed the highest similarity to the genera Malikia (95.1–96.4%), Macromonas (93.0–93.6%) and Hydrogenophaga (93.0–96.6%) in the family Comamonadaceae. Phylogenetic analysis based on 16S rRNA gene and phylogenomic analysis based on core gene sequences revealed that the isolated strains diverged from the related species, forming a distinct branch. Average amino acid identity values of strains A1T, H1T and B1T against the genomes of related members in this family were below 67%, which is below the suggested threshold for genera boundaries. Average nucleotide identity by blast values and digital DNA– DNA hybridization among the three strains were below 92.0 and 46.6% respectively, which are below the suggested thresholds for species boundaries. Based on phylogenetic, genomic and phenotypic characterization, we propose Serpentinimonas gen. nov., Serpentinimonas raichei sp. nov. (type strain A1T=NBRC 111848T=DSM 103917T), Serpentinimonas barnesii sp. nov. (type strain H1T= NBRC 111849T=DSM 103920T) and Serpentinimonas maccroryi sp. nov. (type strain B1T=NBRC 111850T=DSM 103919T) belonging to the family Comamonadaceae. We have designated Serpentinimonas raichei the type species for the genus because it is the dominant species in The Cedars springs.