Gracilimonas rosea sp. nov., isolated from tropical seawater, and emended description of the genus 
               
                  Gracilimonas

Cho, Yirang; Chung, Hyunwoo; Jang, Gwang Il; Choi, Dong Han; Noh, Jae Hoon; Cho, Byung Cheol

doi:10.1099/ijs.0.052340-0

Cited by 20 publications

(13 citation statements)

References 31 publications

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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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“…The strain was auxotroph for isoleucine and methionine (Table 1 ). Despite the phylum Bacteroidetes is known to be as a non-spore forming group [ 4 ], the strain was reported to form endospores, together with G. rosea [ 3 ]. However, strain DSM19535 T could not be asserted to form spore by the genomic analysis (see ‘Insights from the genome sequence’).…”

Section: Organism Informationmentioning

confidence: 99%

“…The genus Gracilimonas was first established in 2009 [ 1 ], and at the time of writing this paper there are three species that comprise this genus, G. tropica [ 1 ] , G. mengyeensis [ 2 ] , and G. rosea [ 3 ]. They are Gram-negative, catalase- and oxidase-positive, aerobic and facultatively anaerobic and have rod-shaped cells (Fig.…”

Section: Introductionmentioning

confidence: 99%

“…They are Gram-negative, catalase- and oxidase-positive, aerobic and facultatively anaerobic and have rod-shaped cells (Fig. 1 ) [ 1 – 3 ]. In addition, they form endospores except G. mengyeensis [ 3 ].…”

Section: Introductionmentioning

confidence: 99%

“…1 ) [ 1 – 3 ]. In addition, they form endospores except G. mengyeensis [ 3 ]. Gracilimonas tropica CL-CB462 T (= KCCM 90063 T = DSM 19535 T ), the type strain of the type species of the genus Gracilimonas , was isolated from a Synechococcus culture which was established from the tropical sea-surface water of the Pacific Ocean [ 1 ].…”

Section: Introductionmentioning

confidence: 99%

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High-quality draft genome sequence of Gracilimonas tropica CL-CB462T (DSM 19535T), isolated from a Synechococcus culture

Choi¹,

Ahn²,

Jang³

et al. 2015

Stand in Genomic Sci

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Gracilimonas tropica Choi et al. 2009 is a member of order Sphingobacteriales, class Sphingobacteriia. Three species of the genus Gracilimonas have been isolated from marine seawater or a salt mine and showed extremely halotolerant and mesophilic features, although close relatives are extremely halophilic or thermophilic. The type strain of the type species of Gracilimonas, G. tropica DSM19535T, was isolated from a Synechococcus culture which was established from the tropical sea-surface water of the Pacific Ocean. The genome of the strain DSM19535T was sequenced through the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes project. Here, we describe the genomic features of the strain. The 3,831,242 bp long draft genome consists of 48 contigs with 3373 protein-coding and 53 RNA genes. The strain seems to adapt to phosphate limitation and requires amino acids from external environment. In addition, genomic analyses and pasteurization experiment suggested that G. tropica DSM19535T did not form spore.

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Rhodohalobacter

Xia

2021

Bergey's Manual of Systematics of Archaea and Bacteria

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Rhodohalobacter (Rho.do.ha.lo.bac'ter. Gr. neut. n. rhodon , the rose; Gr. masc. n. hals, halos , salt; N.L. masc. n. bacter , rod; N.L. masc. n. Rhodohalobacter , a red halophile.) Balneolaeota / Balneolia / Balneolales / Balneolaceae / Rhodohalobacter Rhodohalobacter is a genus within the family Balneolaceae , order Balneolales , class Balneolia , and phylum Balneolaeota . It currently includes two species – Rhodohalobacter halophilus (type species) and Rhodohalobacter barkolensis . Cells of Rhodohalobacter are rod‐shaped, nonmotile, lack flagella, Gram‐stain‐negative, facultatively anaerobic or strictly aerobic, heterotrophic, catalase‐positive, and oxidase negative. Optimal growth is observed at 37 or 40°C, pH 7.5 or 7.5–8.5, and 2–3 or 8–10% (w/v) NaCl. No growth occurs in the absence of NaCl. Negative for nitrate reduction. The major cellular fatty acids comprise C 16:0 N alcohol and C 16:1 ω11 c , and the sole methyl naphthoquinone is MK‐7. The major polar lipids are diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, unidentified glycolipids, unidentified phospholipids, and unidentified lipids. The current known habitats are a marine solar saltern and a saline lake. DNA G + C content (mol%) : 42.4–44.4 (Genome). Type species : Rhodohalobacter halophilus Xia et al. 2017 VP .

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Gracilimonas rosea sp. nov., isolated from tropical seawater, and emended description of the genus Gracilimonas

Cited by 20 publications

References 31 publications

Genome-Based Taxonomic Classification of Bacteroidetes

Genome-Based Taxonomic Classification of Bacteroidetes

High-quality draft genome sequence of Gracilimonas tropica CL-CB462T (DSM 19535T), isolated from a Synechococcus culture

Rhodohalobacter

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