Idiomarina mangrovi sp. nov., isolated from rhizosphere soil of a mangrove Avicennia marina forest

Chen, Can; Han, Shuai-Bo; Zhu, Zhiming; Fu, Ge-Yi; Wang, Ruijun; Zhang, Qin; Ye, Yanghui; Ren, Yanhu; Yan, Cen; Xu, Lin; Wu, Min

doi:10.1099/ijsem.0.003372

“…The pH range for growth was examined between pH 5.0 and 10.5 (at increments of pH 0.5) using biological buffers MES (for pH 5.5 and 6.0), PIPES (for pH 6.5 and 7.0), Tricine (for pH 7.5-8.5) and CAPSO (for pH 9.0-10.0) at a concentration of 50 mM. The range of NaCl concentration for growth was studied using R2A medium containing 0, 0.5, 1.0, 1.5, 2, 3, 4, 5, 7.5, 10 and 12 NaCl (%, w/v) according to Chen et al [23]. Hydrolysis of soluble starch (1 %, w/v), cellulose (0.1 %, w/v) and 1 % (v/v) Tweens (40, 60, 80) were determined as described by Xamxidin et al [24].…”

Section: Physiology and Chemotaxonomymentioning

confidence: 99%

“…The range of NaCl concentration for growth was studied using R2A medium containing 0, 0.5, 1.0, 1.5, 2, 3, 4, 5, 7.5, 10 and 12 NaCl (%, w/v) according to Chen et al . [23]. Hydrolysis of soluble starch (1 %, w/v), cellulose (0.1 %, w/v) and 1 % (v/v) Tweens (40, 60, 80) were determined as described by Xamxidin et al .…”

Section: Physiology and Chemotaxonomymentioning

confidence: 99%

Sandaracinobacteroides sayramensis sp. nov., a yellow-pigmented bacterium isolated from lake water

Xamxidin

¹

,

Ou

²

,

Huang

³

et al. 2023

International Journal of Systematic and Evolutionary Microbiology

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A Gram-negative, non-motile, facultatively anaerobic, rod-shaped bacterium, designated strain RS1-74T, was isolated from the surface water of Sayram Lake, Xinjiang Uygur Autonomous Region, China. The strain was able to grow optimally at 30 °C and pH 7.0–7.5, and in the presence of 0–0.5 % (v/w) NaCl. Catalase and oxidase activities were present. H2S was produced. Chemotaxonomic analysis showed Q-10 was the sole respiratory quinone. The polar lipids were composed of phosphatidylethanolamine, diphosphatidylglycerol, two glycolipids, phosphatidylglycerol, sphingoglycolipid and two unidentified lipids. Summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c) and summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c) were the predominant fatty acids. Phylogenetic analysis based on 16S rRNA gene sequence showed that strain RS1-74T was closely related to ‘ Sandaracinobacter neustonicus ’ JCM 30 734 (98.65 %), ‘ Sandaracinobacter sibiricus ’ RB16-17 (98.42 %) and Sandaracinobacteroides hominis SZY PN-1T (97.09%). The genomic DNA G+C content was 66.45 mol%. The average nucleotide identity and DNA–DNA hybridization values among the genomes of strain RS1-74T and ‘ Sandaracinobacter neustonicus ’ JCM 30734 and Sandaracinobacteroides hominis SZY PN-1T were 78.2 and 77.22 %, and 22.2 and 20.40 %, respectively. Based on the physiological, biochemical, phylogenetic and genomic data, strain RS1-74T represents a novel species within the genus Sandaracinobacteroides , for which the name Sandaracinobacteroides sayramensis sp. nov. is proposed, with type strain RS1-74T (=KCTC 82674T=MCCC 1K06282T).

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“…S1, available in the online version of this article) and maximum-likelihood (ML; Fig. S2) methods [27]. Bootstrap analysis (1000 resample datasets) was used to evaluate the topology of the trees.…”

Section: Phylogenetic Analysismentioning

confidence: 99%

Algoriphagus algorifonticola sp. nov., a marine bacterium isolated from cold spring area of South China Sea

Yan

¹

,

Chen

²

,

Chai

³

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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A Gram-stain-negative, aerobic, non-motile, short-rod-shaped bacterium, designated strain hg1T, was isolated from marine sediment within the cold spring area of South China Sea and subjected to a polyphasic taxonomic investigation. Colonies were circular and 1.0–2.0 mm in diameter, coral in colour, convex and smooth after growth on marine agar at 28 °C for 3 days. Strain hg1T was found to grow at 4–40 °C (optimum, 35–37 °C), at pH 6.5–9.0 (optimum, pH 7.5) and with 0–8 % (w/v) NaCl (optimum, 1.5–2 %). Chemotaxonomic analysis showed the sole respiratory quinone was MK-7, and the principal fatty acids are iso-C15 : 0, summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), and iso-C16 : 0. The major polar lipids are phosphatidylethanolamine, an unidentified phospholipid and five unidentified glycolipids. The DNA G+C content of strain hg1T was 39.6 mol% based on the genome sequence. The comparison of 16S rRNA gene sequence similarities showed that hg1T was closely related to Algoriphagus ornithinivorans DSM 15282T (98.6 % sequence similarity), Algoriphagus zhangzhouensis MCCC 1F01099T (97.9 %) and Algoriphagus vanfongensis DSM 17529T (97.2 %); it exhibited 97.0 % or less sequence similarity to the type strains of other species of the genus Algoriphagus with validly published names. Phylogenetic trees reconstructed with the neighbour-joining, maximum-parsimony and maximum-likelihood methods based on 16S rRNA gene sequences showed that strain hg1T constituted a separate branch with A . ornithinivorans , A. zhangzhouensis , A. vanfongensis in a clade of the genus Algoriphagus . OrthoANI values between strain hg1T and A . ornithinivorans , A. zhangzhouensis and A. vanfongensis were 94.3, 74.1, 73.2 %, respectively, and in silico DNA–DNA hybridization values were 56.2, 18.5 and 18.3 %, respectively. Differential phenotypic properties, together with phylogenetic distinctiveness, demonstrated that strain hg1T is clearly distinct from recognized species of genus Algoriphagus . On the basis of these features, we propose that strain hg1T (=MCCC 1K03570T=KCTC 72111T) represents a novel species of the genus Algoriphagus with the name Algoriphagus algorifonticola sp. nov.

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“…It is included in the order Alteromonadales , class Gammaproteobacteria , phylum Pseudomonadota [ 1 ]. Currently, the genus Pseudidiomarina includes 18 species: Pseudidiomarina aestuarii [ 2 ], P. andamanensis [ 3 , 4 ], P. aquimaris [ 5 , 6 ], P. atlantica [ 6 , 7 ], P. donghaiensis [ 8 ], P. gelatinasegens [ 9 ], P. halophila [ 6 , 10 ], P. homiensis [ 11 , 12 ], P. insulisalseae [ 6 , 13 ], P. mangrovi [ 4 , 14 ], P. marina [ 12 ], P. piscicola [ 15 ], P. planktonica [ 16 ], P. salinarum [ 12 , 17 ], P. sediminum [ 18 ], P. tainanensis [ 12 ], P. taiwanensis [ 19 ], and P. woesei [ 6 , 20 ]. They have been isolated mostly from marine-related environments [ 2 , 3 , 5 , 7 , 8 , 9 , 11 , 12 , 15 , 18 , 19 , 20 ], as well as other hypersaline habitats such as solar salterns [ 10 , 17 ], hyper...…”

Section: Introductionmentioning

confidence: 99%

“…They have been isolated mostly from marine-related environments [ 2 , 3 , 5 , 7 , 8 , 9 , 11 , 12 , 15 , 18 , 19 , 20 ], as well as other hypersaline habitats such as solar salterns [ 10 , 17 ], hypersaline lakes [ 16 ], and saline soil [ 13 ]. In addition, they have also been isolated from sediments of Terra Nova Bay, Antarctica [ 9 ], cultured European seabass Dicenthrarchus labrax [ 15 ], and the rhizosphere soil of a mangrove Avicennia marina forest [ 14 ]. They are Gram-stain-negative rods, non-endospore forming, and slight to moderate halophiles, with NaCl requirements for optimal growth between 1 and 7.5% ( w / v ).…”

Section: Introductionmentioning

confidence: 99%

The Hypersaline Soils of the Odiel Saltmarshes Natural Area as a Source for Uncovering a New Taxon: Pseudidiomarina terrestris sp. nov

Galisteo,

de la Haba,

Ventosa

et al. 2024

Microorganisms

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The hypersaline soils of the Odiel Saltmarshes Natural Area are an extreme environment with high levels of some heavy metals; however, it is a relevant source of prokaryotic diversity that we aim to explore. In this study, six strains related to the halophilic genus Pseudidiomarina were isolated from this habitat. The phylogenetic study based on the 16S rRNA gene sequence and the fingerprinting analysis suggested that they constituted a single new species within the genus Pseudidiomarina. Comparative genomic analysis based on the OGRIs indices and the phylogeny inferred from the core genome were performed considering all the members of the family Idiomarinaceae. Additionally, a completed phenotypic characterization, as well as the fatty acid profile, were also carried out. Due to the characteristics of the habitat, genomic functions related to salinity and high heavy metal concentrations were studied, along with the global metabolism of the six isolates. Last, the ecological distribution of the isolates was studied in different hypersaline environments by genome recruitment. To sum up, the six strains constitute a new species within the genus Pseudidiomarina, for which the name Pseudidiomarina terrestris sp. nov. is proposed. The low abundance in all the studied hypersaline habitats indicates that it belongs to the rare biosphere in these habitats. In silico genome functional analysis suggests the presence of heavy metal transporters and pathways for nitrate reduction and nitrogen assimilation in low availability, among other metabolic traits.

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Idiomarina mangrovi sp. nov., isolated from rhizosphere soil of a mangrove Avicennia marina forest

Cited by 11 publications

References 40 publications

Sandaracinobacteroides sayramensis sp. nov., a yellow-pigmented bacterium isolated from lake water

Sandaracinobacteroides sayramensis sp. nov., a yellow-pigmented bacterium isolated from lake water

Algoriphagus algorifonticola sp. nov., a marine bacterium isolated from cold spring area of South China Sea

The Hypersaline Soils of the Odiel Saltmarshes Natural Area as a Source for Uncovering a New Taxon: Pseudidiomarina terrestris sp. nov

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