Phenylobacterium parvum sp. nov., isolated from lake water

Baek, Chaeyun; Shin, Su Kyoung; Yi, Hana

doi:10.1099/ijsem.0.003284

“…This unusual cell cycle has been studied in depth for Caulobacter crescentus [1, 2], which is a heterotypic synonym of the first described species of the family, Caulobacter vibrioides [3]. To date, the family Caulobacteraceae encompasses the five genera Aquidulcibacter [4], Asticcacaulis [5–10], Brevundimonas [11–33], Caulobacter [3, 12, 19, 34–40] and Phenylobacterium [19, 41–54]. Strains in the family have been isolated from a wide range of habitats including soil [9, 16, 34, 41, 51, 53], the rhizosphere [37–39, 49], plant roots [6, 30, 40], freshwater [3, 10, 42, 48, 55], brackish water [23], seawater [14], sediments [7, 26, 27], activated sludge [17, 23, 47], sewage [24], compost [45], blood [19, 22], a space laboratory [13], the bladder of a leech [11], a Chlorella culture [12] and cyanobacterial aggregates [4].…”

Section: Full-textmentioning

confidence: 99%

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

Vieira

¹

,

Pascual

²

,

Boedeker

³

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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The family Caulobacteraceae comprises prosthecate bacteria with a dimorphic cell cycle and also non-prosthecate bacteria. Cells of all described species divide by binary fission. Strain 0127_4T was isolated from forest soil in Baden Württemberg (Germany) and determined to be the first representative of the family Caulobacteraceae which divided by budding. Cells of strain 0127_4T were Gram-negative, rod-shaped, prosthecate, motile by means of a polar flagellum, non-spore-forming and non-capsulated. The strain formed small white colonies and grew aerobically and chemo-organotrophically utilizing organic acids, amino acids and proteinaceous substrates. 16S rRNA gene sequence analysis indicated that this bacterium was related to Aquidulcibacter paucihalophilus TH1-2T and Asprobacter aquaticus DRW22-8T with 91.3 and 89.7% sequence similarity, respectively. Four unidentified glycolipids were detected as the major polar lipids and, unlike all described members of the family Caulobacteraceae , phosphatidylglycerol was absent. The major fatty acids were summed feature 8 (C18 : 1ω7c/C18 : 1ω6c), summed feature 9 (iso-C17 : 1ω9c/C16 : 0 10-methyl), C16 : 0 and summed feature 3 (C16 : 1 ω6c/C16 : 1 ω7c). The major respiratory quinone was Q-10. The G+C content of the genomic DNA was 63.5 %. Based on the present taxonomic characterization, strain 0127_4T represents a novel species of a new genus, Terricaulis silvestris gen. nov., sp. nov. The type strain of Terricaulis silvestris is 0127_4T (=DSM 104635T=CECT 9243T).

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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%

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

¹

,

Li

²

,

Lin

³

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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“…Species belonging to the genus Phenylobacterium are characterized as aerobic or facultatively anaerobic, Gram-negative, motile or non-motile, straight to slightly curved rods, coccobacilli or cocci, occurring either singly, in pairs or in short chains. At the time of writing, the genus Phenylobacterium comprises 16 validly published species (https://lpsn.dsmz.de/genus/phenylobacterium) from diverse environments such as soil [1][2][3][4][5], water [6][7][8], compost [9], sludge [10,11], rotating biological contactor [12], human blood [12], water purifier [13] and rhizosphere [14]. The unique chemotaxonomic features of the genus Phenylobacterium are ubiquinone-10 (Q-10) as the predominant isoprenoid quinone, C 18 : 1 ω7c and/or C 18 : 1 ω6c as the major fatty acids, and phosphatidylglycerol as the major polar lipid.…”

mentioning

confidence: 99%

Phenylobacterium glaciei sp. nov., isolated from Vestrebroggerbreen, a valley glacier in Svalbard, Arctic

Thomas

¹

,

Sinha

²

,

Hatha

³

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

5

0

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A Gram-stain-negative, rod-shaped bacterial strain designated as 20VBR1T was isolated from a valley glacier (Vestrebroggerbreen) snout ice sample from Ny-Ålesund, Svalbard, Arctic. The colonies were smooth, circular and light creamish on half-strength R2A agar and grew at 10–35 °C (optimum, 20 °C), at pH 6.5–8.0 (optimum, 7.0) and with 0–2.5 % (w/v) NaCl (optimum, 0.5 %). 16S rRNA gene sequence analysis revealed that strain 20VBR1T belonged to the genus Phenylobacterium and was most closely affiliated to Phenylobacterium aquaticum W2-3-4T (97.65 % similarity), Phenylobacterium haematophilum LMG 11050T (97.57 %) and Phenylobacterium koreense Slu-01T (96.91 %). 20VBR1T has a genome size of 4.24 Mb, comprising 4185 predicted genes with a DNA G+C content of 67.86 mol%. DNA–DNA hybridization experiments indicated that the DNA–DNA relatedness between strain 20VBR1T and P. aquaticum KACC 18306T was 41.95±4.36 %, well below the threshold (<70 %) to delineate bacterial species. Genome relatedness indexes revealed that the average nucleotide identity and digital DNA–DNA hybridization values between 20VBR1T and its closest phylogenomic relative, P. aquaticum KACC 18306T, were 78.97 and 22.10 %, respectively. The predominant isoprenoid quinone was ubiquinone (Q-10) and the major polar lipids were phosphatidylglycerol, one unknown phospholipid, one unknown glycolipid and four unidentified polar lipids. The major fatty acids (>10 %) of strain 20VBR1T were summed feature 8 (comprising C18 : 1 ω7c and/or C18 : 1 ω6c), summed feature 3 (comprising C16 : 1 ω6c and/or C16 : 1 ω7c) and C16 : 0. Based on the physiological, biochemical, chemotaxonomic, phylogenetic and phylogenomic analyses, isolate 20VBR1T is considered to represent a novel species of the genus Phenylobacterium , for which the name Phenylobacterium glaciei sp. nov. is proposed. The type strain is 20VBR1T (=JCM 33227 T=DSM 111428 T=MCC 4220 T).

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Phenylobacterium parvum sp. nov., isolated from lake water

Cited by 9 publications

References 14 publications

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

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

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

Phenylobacterium glaciei sp. nov., isolated from Vestrebroggerbreen, a valley glacier in Svalbard, Arctic

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