Terricaulis silvestris gen. nov., sp. nov., a novel prosthecate, budding member of the family Caulobacteraceae isolated from forest soil

Vieira, Selma; Pascual, Javier; Boedeker, Christian; Geppert, Alicia; Riedel, Thomas; Rohde, Manfred; Overmann, Jörg

doi:10.1099/ijsem.0.004367

Cited by 17 publications

(20 citation statements)

References 87 publications

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“…3). Genome sequencing was carried out as previously described [69]. The final genome sequences were annotated using Prokka [70] and were uploaded to the Pathosystems Resource Integration Centre (PATRIC) for comparative analysis [71].…”

Section: Genome Characterizationmentioning

confidence: 99%

“…For a better resolution of the phylogenetic placement, a phylogenomic tree was inferred for the genomes of strains 0125_3 T and Swamp67 T and available genomes of type strains of the order Nitrosomonadales (). Genome sequencing was carried out as previously described [69]. The final genome sequences were annotated using Prokka [70] and were uploaded to the Pathosystems Resource Integration Centre (PATRIC) for comparative analysis [71].…”

Section: Genome Characterizationmentioning

confidence: 99%

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Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil

Vieira

Huber

Neumann‐Schaal

et al. 2021

International Journal of Systematic and Evolutionary Microbiology

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Members of the metabolically diverse order Nitrosomonadales inhabit a wide range of environments. Two strains affiliated with this order were isolated from soils in Germany and characterized by a polyphasic approach. Cells of strains 0125_3T and Swamp67T are Gram-negative rods, non-motile, non-spore-forming, non-capsulated and divide by binary fission. They tested catalase-negative, but positive for cytochrome c-oxidase. Both strains form small white colonies on agar plates and grow aerobically and chemoorganotrophically on SSE/HD 1 : 10 medium, preferably utilizing organic acids and proteinaceous substrates. Strains 0125_3T and Swamp67T are mesophilic and grow optimally without NaCl addition at slightly alkaline conditions. Major fatty acids are C16 : 1 ω7c, C16 : 0 and C14 : 0. The major polar lipids are diphosphatidylglycerol, phosphatidylethanolamine and phosphatidyglycerol. The predominant respiratory quinone is Q-8. The G+C content for 0125_3T and Swamp67T was 67 and 66.1 %, respectively. The 16S rRNA gene analysis indicated that the closest relatives (<91 % sequence similarity) of strain 0125_3T were Nitrosospira multiformis ATCC 25196T, Methyloversatilis universalis FAM5T and Denitratisoma oestradiolicum AcBE2-1T, while Nitrosospira multiformis ATCC 25196T, Nitrosospira tenuis Nv1T and Nitrosospira lacus APG3T were closest to strain Swamp67T. The two novel strains shared 97.4 % 16S rRNA gene sequence similarity with one another and show low average nucleotide identity of their genomes (83.8 %). Based on the phenotypic, chemotaxonomic, genomic and phylogenetic analysis, we propose the two novel species Usitatibacter rugosus sp. nov (type strain 0125_3T=DSM 104443T=LMG 29998T=CECT 9241T) and Usitatibacter palustris sp. nov. (type strain Swamp67T=DSM 104440T=LMG 29997T=CECT 9242T) of the novel genus Usitatibacter gen. nov., within the novel family Usitatibacteraceae fam. nov.

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Section: Genome Characterizationmentioning

confidence: 99%

Section: Genome Characterizationmentioning

confidence: 99%

Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil

Vieira

Huber

Neumann‐Schaal

et al. 2021

International Journal of Systematic and Evolutionary Microbiology

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“…The 10 taxa found in the bacterial communities were shown to be closely related to known Mn(II)-oxidizing bacteria (Table 3), including the genera Hyphomicrobium 26) , Bosea 14) , Mesorhizobium 27) , Terricaulis 28), 29) , Erythrobacter 30) , Leptothrix 26) , Acinetobacter 31) , Pseudomonas 26) , Flavobacterium 31) , and Rhodo coccus 32) . As described above, Hyphomicro bium species were found to be abundant in all samples (Tables 2 and 3).…”

Section: Bacterial Community Structures In Solid Mn Phases On Limestonesmentioning

confidence: 99%

Removal of Mn(II) and Zn(II) Ions from Synthetic Mine Drainage Using a Laboratory-Scale Mn(II)-Oxidizing Bioreactor

SUNOUCHI

Watanabe

Okano

et al. 2022

Japanese J. Wat. Treat. Biol.

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Bioreactors with manganese (Mn)-oxidizing microorganisms are potent tools for removing Mn from pH-neutral mine drainages, based on their ability to form insoluble Mn oxides. We examined the effects of loadings of Mn and zinc (Zn) ions on the removal of these metals from synthetic mine drainages by a laboratory mini-size bioreactor, which was packed with limestones encrusted with Mn oxides and a Mn(II)-oxidizing bacterial community. The initial influent Mn(II) concentration and hydraulic retention time were set at 10 mg L -1 and 24 h, respectively. The results showed that the Mn(II) removal rate was dependent on the amount of Mn oxide precipitates associated with the limestone and was not largely lowered even if the Mn(II) concentration was gradually increased to six times or soluble Zn(II) coexisted at 6 mg L -1 . The effluent Mn(II) concentrations met the effluent standard in Japan (< 10 mg L -1 ) when Mn(II) was loaded up to 28 mg L -1 bioreactor d -1 . The bioreactor also effectively removed dissolved Zn(II). The bacterial community structures of the Mn precipitates in the bioreactors consisted of diverse heterotrophs mainly belonging to Alphaproteobacteria, Betaproteobacteria, Deltaproteobacteria, and Bacteroidetes. The bacterial communities also included species closely related to known Mn(II)-oxidizing heterotrophs. The results demonstrate that the bacterial communities with Mn(II)-oxidizing activity can be maintained under organic substrate-poor conditions, further supporting the usefulness of Mn(II)-oxidizing bioreactors in mine drainage remediation.

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“…Differential characteristics of strain SZ9 T and related type strains within the family Caulobacteraceae and Hyphomonadaceae Taxa: 1, strain SZ9 T (this study); 2, Aquidulcibacter [16]; 3. Terricaulis [22]; 4, Phenylobacterium [23][24][25][26]; 5, Vitreimonas [17]; 6, Asprobacter [18]; 7, Hirschia [27,28]; 8, Maribaculum [29]; 9, Ponticaulis [30,31]; 10, Hyphomonas [32,33]; 11, Henriciella [34][35][36]. +, Positive; w, weakly positive; −, negative; nd, no data.…”

Section: Morphological Physiological and Biochemical Characteristicsmentioning

confidence: 99%

“…Cellular fatty acid compositions (>1.0 %) of strain SZ9 T and related type strains within the family Caulobacteraceae and Hyphomonadaceae Strain: 1, SZ9 T (from this study); 2, Aquidulcibacter paucihalophilus TH1-2 T [16]; 3, Terricaulis silvestris 0127_4 T[22]; 4, Vitreimonas flagellata SYSU XM001 T[17]; 5, Asprobacter aquaticus DRW22-8 T[18]; 6, Hyphobacterium vulgare WM6 T[19]. Values are percentages of total fatty acids.…”

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confidence: 99%

Pseudaquidulcibacter saccharophilus gen. nov., sp. nov., a novel member of family Caulobacteraceae, isolated from a water purification facility with supplement of starch as a carbon source

Liu

Lin

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

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During a survey of microbial communities in the influent (ambient water) and effluent of a water purification facility with aeration and supplement of starch as carbon source, a novel bacterial strain, designated SZ9T, was isolated from the effluent sample. Colonies of strain SZ9T were small (approximately 0.5–1.0 mm in diameter), creamy-white, circular, smooth, translucent and convex. Cells were facultative anaerobic, motile by means of a single polar flagellum, rod-shaped, multiplied by binary fission, Gram-stain-negative, oxidase-positive and catalase-negative. Growth occurred at 10–40 °C (optimum, 28 °C) and pH 5.5–8.0 (optimum, pH 7.5). The range of NaCl concentration for growth was 0–1.0 % (w/v), with an optimum of 0–0.5 % (w/v). Phylogenetic analysis based on 16S rRNA gene sequences suggested that strain SZ9T formed a lineage within the family Caulobacteraceae of the class Alphaproteobacteria and showed the highest 16S rRNA gene sequence similarities to Aquidulcibacter paucihalophilus TH1-2T (92.44%), followed by Vitreimonas flagellata SYSU XM001T (89.61 %), Asprobacter aquaticus DRW22-8T (89.49 %) and Hyphobacterium vulgare WM6T (89.49%). The predominant fatty acids (>10 % of the total fatty acids) of strain SZ9T was summed feature 3 (comprising C16 : 1 ω6c and/or C16 : 1 ω7c), summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c) and C16 : 0. The sole respiratory quinone was ubiquinone-10, and the major polar lipids were phosphatidylcholine and two unidentified glycolipids. The whole genome of strain SZ9T was 2 842 140 bp in size, including 2769 protein-coding genes, 37 tRNA genes and two rRNA genes, and the genomic G+C content was 41.4 mol%. The orthologous average nucleotide identity, average amino acid identity and digital DNA–DNA hybridization values between strain SZ9T and other genera within the family Caulobacteraceae were 64.50–66.62 %, 46.96–54.17 % and 27.70–31.70 %, respectively. Therefore, based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, the isolated strain SZ9T could be distinguished from other genera, suggesting that it represents a novel species of a novel genus in the family Caulobacteraceae , for which the name Pseudaquidulcibacter saccharophilus gen. nov., sp. nov is proposed. The type strain is SZ9T (=CCTCC AB2021029T=KCTC 82788T).

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Terricaulis silvestris gen. nov., sp. nov., a novel prosthecate, budding member of the family Caulobacteraceae isolated from forest soil

Cited by 17 publications

References 87 publications

Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil

Usitatibacter rugosus gen. nov., sp. nov. and Usitatibacter palustris sp. nov., novel members of Usitatibacteraceae fam. nov. within the order Nitrosomonadales isolated from soil

Removal of Mn(II) and Zn(II) Ions from Synthetic Mine Drainage Using a Laboratory-Scale Mn(II)-Oxidizing Bioreactor

Pseudaquidulcibacter saccharophilus gen. nov., sp. nov., a novel member of family Caulobacteraceae, isolated from a water purification facility with supplement of starch as a carbon source

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