Rhodothermus profundi sp. nov., a thermophilic bacterium isolated from a deep-sea hydrothermal vent in the Pacific Ocean

Marteinsson, V.; Björnsdóttir, Snædís H.; Bienvenu, Nadège; Kristjánsson, Jakob K.; Birrien, Jean‐Louis

doi:10.1099/ijs.0.012724-0

Cited by 32 publications

(30 citation statements)

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“… All data are from the original descriptions (Alfredsson et al, 1988; Antón et al, 2002; Choi et al, 2009; Vaisman and Oren, 2009; Marteinsson et al, 2010; Park et al, 2011, 2013; Urios et al, 2006, 2008; Makhdoumi-Kakhki et al, 2012; Wang et al, 2012, 2013a,b; Cho et al, 2013) except for the polar lipids of Salinibacter ruber (Corcelli et al, 2004) and Salisaeta longa (Baronio et al, 2010). Question marks indicate missing information.…”

Section: Resultsmentioning

confidence: 99%

Genome-Based Taxonomic Classification of Bacteroidetes

et al. 2016

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The bacterial phylum Bacteroidetes, characterized by a distinct gliding motility, occurs in a broad variety of ecosystems, habitats, life styles, and physiologies. Accordingly, taxonomic classification of the phylum, based on a limited number of features, proved difficult and controversial in the past, for example, when decisions were based on unresolved phylogenetic trees of the 16S rRNA gene sequence. Here we use a large collection of type-strain genomes from Bacteroidetes and closely related phyla for assessing their taxonomy based on the principles of phylogenetic classification and trees inferred from genome-scale data. No significant conflict between 16S rRNA gene and whole-genome phylogenetic analysis is found, whereas many but not all of the involved taxa are supported as monophyletic groups, particularly in the genome-scale trees. Phenotypic and phylogenomic features support the separation of Balneolaceae as new phylum Balneolaeota from Rhodothermaeota and of Saprospiraceae as new class Saprospiria from Chitinophagia. Epilithonimonas is nested within the older genus Chryseobacterium and without significant phenotypic differences; thus merging the two genera is proposed. Similarly, Vitellibacter is proposed to be included in Aequorivita. Flexibacter is confirmed as being heterogeneous and dissected, yielding six distinct genera. Hallella seregens is a later heterotypic synonym of Prevotella dentalis. Compared to values directly calculated from genome sequences, the G+C content mentioned in many species descriptions is too imprecise; moreover, corrected G+C content values have a significantly better fit to the phylogeny. Corresponding emendations of species descriptions are provided where necessary. Whereas most observed conflict with the current classification of Bacteroidetes is already visible in 16S rRNA gene trees, as expected whole-genome phylogenies are much better resolved.

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Section: Resultsmentioning

confidence: 99%

Genome-Based Taxonomic Classification of Bacteroidetes

et al. 2016

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“…Some of these organisms have slightly elevated growth temperatures in the range 40-45 u C, namely Pseudozobellia thermophila (Nedashkovskaya et al, 2009) and Lutaonella thermophila (Arun et al, 2009), or are slightly thermophilic, such as Anaerophaga thermohalophila (Denger et al, 2002) and Schleiferia thermophila (Albuquerque et al, 2011), with optimum growth temperatures around 50 u C. Thermonema lapsum, Thermonema rossianum and two species of the genus Rhodothermus, Rhodothermus marinus and Rhodothermus profundi, are genuine thermophiles with optimum growth temperatures around 60 u C or higher (Alfredsson et al, 1987;Hudson et al, 1989;Marteinsson et al, 2010;Nunes et al, 1995;Silva et al, 2000;Tenreiro et al, 1997).…”

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Hydrotalea sandarakina sp. nov., isolated from a hot spring runoff, and emended descriptions of the genus Hydrotalea and the species Hydrotalea flava

Albuquerque

Rainey

Nobre

et al. 2012

International Journal of Systematic and Evolutionary Microbiology

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Hydrotalea sandarakina sp. nov., isolated from a hot spring runoff, and emended descriptions of the genus Hydrotalea and the species Hydrotalea flava Two bacterial isolates, designated AF-51 T and AF-50, with an optimum growth temperature of about 45 6C and an optimum pH for growth between 6.0 and 6.5, were recovered from a hot spring in the Furnas, Á rea da Fonte 1825, on the Island of Sã o Miguel in the Azores. Based on 16S rRNA gene sequence analysis, these strains were related most closely to the type strain of Hydrotalea flava at a pairwise similarity of 95.7 %. The two strains were orange-pigmented and formed non-motile, rod-shaped cells that stained Gram-negative and were aerobic and oxidaseand catalase-positive. The major fatty acids were iso-C 15 : 0 , iso-C 17 : 0 3-OH and iso-C 16 : 0 . The major respiratory quinone was menaquinone 7. Based on phylogenetic, physiological and biochemical characteristics, these strains from the Azores are considered to represent a single novel species of the genus Hydrotalea, for which the name Hydrotalea sandarakina sp. nov. is proposed. The type strain is AF-51 T (5DSM 23241 T 5LMG 25526 T ). We provide emended descriptions of the genus Hydrotalea and of H. flava to reflect new results obtained in this study.

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“…The family Rhodothermaceae is placed under the order Cytophagales of the class Cytophagia within the phylum Bacteroidetes . At the time of writing, Rhodothermaceae consisted of six genera: Rhodothermus (Alfredsson et al, 1988 ; Marteinsson et al, 2010 ), Salinibacter (Antón et al, 2002 ; Makhdoumi-Kakhki et al, 2012 ), Salisaeta (Vaisman and Oren, 2009 ), Rubricoccus (Park et al, 2011 ), Rubrivirga (Park et al, 2013 ), and the recently described genus Longimonas (Xia et al, 2015 ). Rhodothermaceae is a family of gram-negative, non-sporulating, chemoorganotrophic aerobes shaped as rods or cocci, and most strains are pigmented (Park et al, 2014 ).…”

Section: Introductionmentioning

confidence: 99%

“…Rhodothermus marinus was isolated from a submarine hot spring, at a depth of 2–3 m from the sea surface during low tide (Alfredsson et al, 1988 ), while Rhodothermus profundi was obtained from a deep-sea (2634 m depth) hydrothermal field (Marteinsson et al, 2010 ). Rhodothermus obamensis was initially described as a type strain of Rhodothermus (Sako et al, 1996 ) but was later regarded as a synonym of R. marinus owing to high 16S rRNA gene sequence similarity, high DNA–DNA reassociation values, and similar fatty acid profiles (Silva et al, 2000 ).…”

Section: Introductionmentioning

confidence: 99%

Genome Analysis of a New Rhodothermaceae Strain Isolated from a Hot Spring

et al. 2016

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A bacterial strain, designated RA, was isolated from water sample of a hot spring on Langkawi Island of Malaysia using marine agar. Strain RA is an aerophilic and thermophilic microorganism that grows optimally at 50–60°C and is capable of growing in marine broth containing 1–10% (w/v) NaCl. 16S rRNA gene sequence analysis demonstrated that this strain is most closely related (<90% sequence identity) to Rhodothermaceae, which currently comprises of six genera: Rhodothermus (two species), Salinibacter (three species), Salisaeta (one species), Rubricoccus (one species), Rubrivirga (one species), and Longimonas (one species). Notably, analysis of average nucleotide identity (ANI) values indicated that strain RA may represent the first member of a novel genus of Rhodothermaceae. The draft genome of strain RA is 4,616,094 bp with 3630 protein-coding gene sequences. Its GC content is 68.3%, which is higher than that of most other genomes of Rhodothermaceae. Strain RA has genes for sulfate permease and arylsulfatase to withstand the high sulfur and sulfate contents of the hot spring. Putative genes encoding proteins involved in adaptation to osmotic stress were identified which encode proteins namely Na+/H+ antiporters, a sodium/solute symporter, a sodium/glutamate symporter, trehalose synthase, malto-oligosyltrehalose synthase, choline-sulfatase, potassium uptake proteins (TrkA and TrkH), osmotically inducible protein C, and the K+ channel histidine kinase KdpD. Furthermore, genome description of strain RA and comparative genome studies in relation to other related genera provide an overview of the uniqueness of this bacterium.

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Rhodothermus profundi sp. nov., a thermophilic bacterium isolated from a deep-sea hydrothermal vent in the Pacific Ocean

Cited by 32 publications

References 29 publications

Genome-Based Taxonomic Classification of Bacteroidetes

Genome-Based Taxonomic Classification of Bacteroidetes

Hydrotalea sandarakina sp. nov., isolated from a hot spring runoff, and emended descriptions of the genus Hydrotalea and the species Hydrotalea flava

Genome Analysis of a New Rhodothermaceae Strain Isolated from a Hot Spring

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