- Volume 59, Issue 11, 2009
Volume 59, Issue 11, 2009
- New Taxa
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- Other Bacteria
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Dehalogenimonas lykanthroporepellens gen. nov., sp. nov., a reductively dehalogenating bacterium isolated from chlorinated solvent-contaminated groundwater
More LessTwo recently reported bacterial strains that are able to reductively dehalogenate polychlorinated aliphatic alkanes, including 1,2,3-trichloropropane, 1,2-dichloropropane, 1,1,2,2-tetrachloroethane, 1,1,2-trichloroethane and 1,2-dichloroethane, were further characterized to clarify their taxonomic position. The two strains, designated BL-DC-8 and BL-DC-9T, were mesophilic, non-spore-forming, non-motile, Gram-negative staining and strictly anaerobic. Cells were irregular cocci, 0.3–0.6 μm in diameter. The two strains were resistant to ampicillin and vancomycin. Hydrogen was utilized as an electron donor. The genomic DNA G+C content of strains BL-DC-8 and BL-DC-9T was 54.0 and 53.8 mol%, respectively. The major cellular fatty acids were C18 : 1 ω9c, C16 : 1 ω9c, C16 : 0 and C14 : 0. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the strains cluster within the phylum Chloroflexi, but are related only distantly to all recognized taxa in the phylum. Morphological, physiological and chemotaxonomic traits as well as phylogenetic analysis support the conclusion that these two strains represent a novel species of a new genus in the phylum Chloroflexi, for which the name Dehalogenimonas lykanthroporepellens gen. nov., sp. nov. is proposed. The type strain of Dehalogenimonas lykanthroporepellens is BL-DC-9T (=ATCC BAA-1523T =JCM 15061T).
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Deinococcus piscis sp. nov., a radiation-resistant bacterium isolated from a marine fish
More LessA radiation-resistant, Gram-stain-positive, non-motile, non-sporulating, aerobic, coccoid bacterium, strain 3axT, was isolated from a marine fish (black pomfret, Parastromateus niger), with radiation as a selective pressure. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain 3axT exhibited highest similarity (97.9 %) with Deinococcus proteolyticus DSM 20540T. The ΔT m for DNA–DNA hybridization of D. proteolyticus DSM 20540T and strain 3axT was 15.3 °C, indicating that the novel strain was distinct from D. proteolyticus DSM 20540T. The predominant respiratory quinone was MK-8. Strain 3axT could grow at 20–42 °C; the optimum temperature for growth was 35 °C. The strain grew well at pH 6–9, with optimum growth at pH 7. The cell wall contained ornithine. The major fatty acids were 16 : 0, 16 : 1ω7c, 16 : 1ω9c and 18 : 1ω9c. Three phosphoglycolipids and one aminophospholipid were the major polar lipids. Based on the genotypic, phenotypic and chemotaxonomic characteristics, strain 3axT was significantly different from D. proteolyticus DSM 20540T and, therefore, it was identified as representing a novel species of the genus Deinococcus, for which the name Deinococcus piscis sp. nov. is proposed. The type strain is 3axT (=MTCC9123T =DSM 19767T).
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Caldisericum exile gen. nov., sp. nov., an anaerobic, thermophilic, filamentous bacterium of a novel bacterial phylum, Caldiserica phyl. nov., originally called the candidate phylum OP5, and description of Caldisericaceae fam. nov., Caldisericales ord. nov. and Caldisericia classis nov.
More LessAn anaerobic, thermophilic, thiosulfate-reducing bacterium, strain AZM16c01T, isolated from a hot spring in Japan [Mori, K., Sunamura, M., Yanagawa, K., Ishibashi, J., Miyoshi, Y., Iino, T., Suzuki, K. & Urabe, T. (2008). Appl Environ Microbiol 74, 6223–6229] was characterized in detail. The 16S rRNA gene sequence analysis had revealed that strain AZM16c01T was the first cultivated representative of the candidate phylum OP5. The cells were multicellular filaments with a single polar flagellum. The strain contained iso-C17 : 0 as the major fatty acid and menaquinone-8(H6), menaquinone-8(H8) and menaquinone-8(H10) as the respiratory quinones. The G+C content of the genomic DNA of strain AZM16c01T was 34.6 mol%. Optimum growth was obtained at 65 °C, pH 6.5 and in the absence of NaCl, with a doubling time of 10.6 h. On the basis of the results of phylogenetic analysis based on the 16S rRNA gene sequence and the characterization of the strain in this study, we propose the name Caldisericum exile gen. nov., sp. nov. for strain AZM16c01T (=NBRC 104410T=DSM 21853T). In addition, we propose the new phylum name Caldiserica phyl. nov. for the candidate phylum OP5 represented by C. exile gen. nov., sp. nov., and Caldisericaceae fam. nov., Caldisericales ord. nov. and Caldisericia classis nov.
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- Proteobacteria
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Chitinilyticum litopenaei sp. nov., isolated from a freshwater shrimp pond, and emended description of the genus Chitinilyticum
More LessStrain c1T, originally isolated from surface water of a freshwater pond located in Pingtung (southern Taiwan) used for culture of Pacific white shrimp (Litopenaeus vannamei), was subjected to a polyphasic taxonomic analysis. The strain exhibited strong chitinolytic activity and was able to grow under aerobic and anaerobic conditions by utilizing chitin exclusively as the carbon, nitrogen and energy source. Phylogenetic analysis of the 16S rRNA gene sequence revealed a clear affiliation to the Betaproteobacteria, with the closest relatives being Chitinilyticum aquatile C14T and Chitinibacter tainanensis S1T, respectively showing 96.7 and 93.6 % 16S rRNA gene sequence similarity. The predominant fatty acids detected in cells of strain c1T were C16 : 0, C18 : 1 ω7c and summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH). The G+C content of the genomic DNA was 62.2±1.0 mol%. On the basis of phylogenetic analysis, DNA–DNA hybridization data, physiological and biochemical characteristics and fatty acid compositions, the organism was shown to belong to the genus Chitinilyticum whilst representing a novel species within this genus, for which we propose the name Chitinilyticum litopenaei sp. nov. (type strain c1T =DSM 21440T =BCRC 17609T).
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Paracoccus chinensis sp. nov., isolated from sediment of a reservoir
More LessA Gram-negative, short ovoid- to coccus-shaped, aerobic, motile, non-spore-forming bacterium (designated strain KS-11T) was isolated from sediment of the eutrophic Guanting reservoir in Beijing, China. Colonies grown on R2A agar plates were circular, convex and colourless to orange. The strain grew in the presence of up to 1 % NaCl (optimum, 0 % NaCl). Growth occurred at 25–40 °C (optimum, 28–37 °C) and at pH 6.0–9.5 (optimum, pH 7.5–9.0). On the basis of 16S rRNA gene sequence similarity, strain KS-11T was shown to belong to the class Alphaproteobacteria, being closely related to Paracoccus marinus (96.9 % 16S rRNA gene sequence similarity), followed by Paracoccus koreensis (96.8 %), Paracoccus solventivorans (96.8 %), Paracoccus alkenifer (96.2 %) and Paracoccus kocurii (95.8 %). The major fatty acids of strain KS-11T were summed feature 7 (C18 : 1 ω7c/ω9t/ω12t) (83.8 %) and C18 : 0 (6.5 %) and the G+C content of the genomic DNA was 69.0 mol%. Based on comparative analysis of physiological and chemotaxonomic data, it is proposed that strain KS-11T represents a novel species of the genus Paracoccus, named Paracoccus chinensis sp. nov. The type strain is KS-11T (=CGMCC 1.7655T=NBRC 104937T).
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Seohaeicola saemankumensis gen. nov., sp. nov., isolated from a tidal flat
More LessA Gram-negative, non-motile and rod-, oval- or coccoid-shaped bacterial strain, SD-15T, was isolated from a tidal flat of the Yellow Sea, Korea. The novel strain, which was phylogenetically closely related to the genera Phaeobacter, Leisingera and Marinovum, was studied using a polyphasic taxonomic approach. Strain SD-15T grew optimally at pH 7.0–8.0 and 30 °C in the presence of 2 % (w/v) NaCl. It contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and 11-methyl C18 : 1 ω7c as the major fatty acids. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and an unidentified lipid. The DNA G+C content was 63.4 mol%. Strain SD-15T exhibited the highest 16S rRNA gene sequence similarity values (95.1–96.4 %) to the type strains of species of the genus Phaeobacter, Leisingera methylohalidivorans MB2T and Marinovum algicola ATCC 51440T. Strain SD-15T could be differentiated from members of the genera Phaeobacter, Leisingera and Marinovum by differences in the contents of some fatty acids, by the absence of aminolipid and by differences in some phenotypic properties. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain SD-15T represents a new genus and novel species, for which the name Seohaeicola saemankumensis gen. nov., sp. nov. is proposed. The type strain of the type species is Seohaeicola saemankumensis SD-15T (=KCTC 22175T=CCUG 55328T).
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Pseudorhodoferax soli gen. nov., sp. nov. and Pseudorhodoferax caeni sp. nov., two members of the class Betaproteobacteria belonging to the family Comamonadaceae
More LessA novel betaproteobacterium, strain TBEA3T, was isolated from soil using enrichment cultures with the organic thioether 3,3′-thiodipropionic acid as sole carbon and energy source. Analysis of the 16S rRNA gene sequence revealed 99.1 % sequence similarities to a poorly characterized member of the family Comamonadaceae, strain SB1T, which had been previously isolated from activated sludge. Both strains showed highest gene sequence similarities (up to 96.9 %) to members of the genera Rhodoferax and Curvibacter. The DNA G+C contents of strains TBEA3T and SB1T were 69.1 and 70.1 mol%, respectively, and the DNA–DNA hybridization value between these two strains was 45.3 %. The predominant cellular fatty acids in both strains were C16 : 0, C18 : 1 ω7c and summed feature 3 (C16 : 1 ω7c and/or C15 : 0 iso 2-OH). The major 3-hydroxy fatty acid was C10 : 0 3-OH. Based on the genetic and chemotaxonomic data, strains TBEA3T and SB1T represent two novel species of a new genus within the family Comamonadaceae, for which the name Pseudorhodoferax gen. nov. is proposed. Strain TBEA3T (=LMG 24555T=DSM 21634T) is assigned to Pseudorhodoferax soli sp. nov., as the type strain of the type species of the genus. Strain SB1T (=LMG 24543T=DSM 21598T) is the type strain of Pseudorhodoferax caeni sp. nov.
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Roseovarius halotolerans sp. nov., isolated from deep seawater
A Gram-reaction-negative, non-motile, aerobic bacterium, designated HJ50T, was isolated from deep seawater of the East Sea, South Korea. Cells were ovoid to rod-shaped (0.5–0.8×1.3–3.0 μm), often with unequal ends, suggesting a budding mode of reproduction. The strain had an absolute requirement for sea salts and tolerated up to 20 % (w/v) sea salts. Propionate, dl-lactate, 2-ketogluconate, 3-hydroxybutyrate and rhamnose were used as growth substrates, but not mannitol, salicin, 4-hydroxybenzoate or acetate. The major fatty acid was summed feature 7 (C18 : 1 ω7c/ω9t/ω12t) and the DNA G+C content was 59.0±0.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that this strain was affiliated with the genus Roseovarius. Similarities between the 16S rRNA gene sequence of strain HJ50T (1430 nt) and those of type strains of members of the genus Roseovarius were 94.1–96.3 %. DNA–DNA relatedness values between strain HJ50T and the type strains of members of the genus Roseovarius were low (1.3–24.6 %). Physiological and biochemical differences support assignment of strain HJ50T to the genus Roseovarius as a representative of a novel species. The name Roseovarius halotolerans sp. nov. is proposed, with HJ50T (=KCTC 22224T =LMG 24468T) as the type strain.
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Sphingomonas hankookensis sp. nov., isolated from wastewater
More LessA Gram-negative, non-motile, rod-shaped bacterial strain, ODN7T, was isolated from a wastewater treatment plant in Korea, and its taxonomic position was investigated by use of a polyphasic taxonomic approach. Strain ODN7T grew optimally at around pH 7.5 and 30 °C and in the presence of 0–0.5 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ODN7T fell within the cluster comprising species of the genus Sphingomonas, clustering with Sphingomonas panni C52T, with which it shared highest 16S rRNA gene sequence similarity (98.9 %). The chemotaxonomic properties of strain ODN7T were consistent with those of the genus Sphingomonas. The predominant ubiquinone was Q-10, and the major fatty acids were C18 : 1 ω7c, C16 : 1 ω7c and/or iso-C15 : 0 2-OH, and C16 : 0. Major polar lipids were sphingoglycolipid, phosphatidylcholine, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content of strain ODN7T was 67.2 mol%. Strain ODN7T exhibited levels of DNA–DNA relatedness of 15–32 % to the type strains of phylogenetically related Sphingomonas species and could be differentiated from these species based on differences in phenotypic characteristics. On the basis of the data presented, strain ODN7T is considered to represent a novel species of the genus Sphingomonas, for which the name Sphingomonas hankookensis sp. nov. is proposed. The type strain is ODN7T (=KCTC 22579T=CCUG 57509T).
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Marinomonas arenicola sp. nov., isolated from marine sediment
More LessA Marinomonas-like bacterium, strain KMM 3893T, was isolated from a marine sandy sediment collected close to shore from the Sea of Japan and subjected to a phenotypic and phylogenetic study. Comparative 16S rRNA gene sequence analysis confirmed the novel strain's assignment to the genus Marinomonas. Strain KMM 3893T constituted a separate phyletic line in the genus Marinomonas, sharing <97 % sequence similarity with respect to other recognized Marinomonas species. Chemotaxonomically, strain KMM 3893T contained the predominant fatty acids C18 : 1 ω7c, C16 : 1 ω7c and C16 : 0 and had a DNA G+C content of 50.0 mol%. On the basis of the phylogenetic analysis and physiological and biochemical characterization, strain KMM 3893T represents a novel species of the genus Marinomonas, for which the name Marinomonas arenicola sp. nov. is proposed. The type strain is KMM 3893T (=NRIC 0752T =JCM 15737T).
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Luteibacter anthropi sp. nov., isolated from human blood, and reclassification of Dyella yeojuensis Kim et al. 2006 as Luteibacter yeojuensis comb. nov.
More LessA yellow-pigmented bacterium was isolated from blood of a 3-year-old boy in Göteborg, Sweden. Comparative analysis of 16S rRNA gene sequences showed that this bacterium is most closely related to Luteibacter rhizovicinus LJ96T and Dyella yeojuensis R2A16-10T, with sequence similarity of 98.3 % to both. Strain CCUG 25036T is clearly different from L. rhizovicinus CCUG 50033T and also from D. yeojuensis DSM 17673T in that DNA–DNA hybridization revealed relatedness of 33.7 and 29.8 %, respectively. Strain CCUG 25036T is further distinguished from L. rhizovicinus CCUG 50033T and D. yeojuensis DSM 17673T by being able to use d-mannose, d-mannitol and gluconate as sole carbon sources and by lacking the ability to use maltose or sucrose as sole carbon sources. The name Luteibacter anthropi sp. nov. is proposed for this novel species, with the type strain CCUG 25036T (=CCM 7598T). The proposal is also made to reclassify Dyella yeojuensis as Luteibacter yeojuensis comb. nov., with the type strain R2A16-10T (=DSM 17673T =KACC 11405T).
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Halomonas zhanjiangensis sp. nov., a halophilic bacterium isolated from a sea urchin
A novel Gram-negative, slightly halophilic, catalase-positive, oxidase-negative, obligately aerobic, non-sporulating rod-shaped bacterium, designated strain JSM 078169T, was isolated from a sea urchin (Hemicentrotus pulcherrimus) collected from the South China Sea. Growth occurred with 1–20 % (w/v) total salts (optimum, 3–5 %), at pH 6.0–10.5 (optimum, pH 7.5) and at 4–40 °C (optimum, 25–30 °C). The major cellular fatty acids were C18 : 1 ω7c, C16 : 0 and C12 : 0 3-OH. The predominant respiratory quinone was Q-9 and the genomic DNA G+C content was 55.8 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JSM 078169T should be assigned to the genus Halomonas. The sequence similarities between the isolate and the type strains of members of the genus Halomonas were in the range 92.4–97.0 %. The combination of phylogenetic analysis, DNA–DNA relatedness, phenotypic characteristics and chemotaxonomic data supported the view that strain JSM 078169T represents a novel species of the genus Halomonas, for which the name Halomonas zhanjiangensis sp. nov. is proposed, with JSM 078169T (=CCTCC AB 208031T=DSM 21076T=KCTC 22279T) as the type strain.
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Methylophilus rhizosphaerae sp. nov., a restricted facultative methylotroph isolated from rice rhizosphere soil
More LessThree facultative methylotrophic bacterial strains, designated CBMB127T, CBMB145 and CBMB147, were isolated from the rhizosphere soil of rice and characterized. The strains produced indole-3-acetic acid and siderophores, had 1-aminocyclopropane-1-carboxylate deaminase activity and sulfur oxidation property and also methanol dehydrogenase. Phylogenetic analysis based on the 16S rRNA and methanol dehydrogenase (mxaF) gene sequences showed that Methylophilus methylotrophus was their close relative. The results of the phenotypic, phylogenetic and genotypic analyses showed that strains CBMB127T and CBMB145, with 99.4 % 16S rRNA gene sequence similarity and 99 % DNA–DNA hybridization, could be distinguished from recognized species of Methylophilus. Therefore strain CBMB127T and CBMB145 are considered to represent a novel species of Methylophilus, for which the name Methylophilus rhizosphaerae sp. nov. is proposed, with CBMB127T (=KACC 13099T=NCCB 100233T) as the type strain. Strain CBMB147 represents a novel strain of the species Methylophilus methylotrophus.
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- International Committee On Systematics Of Prokaryotes
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- Request For An Opinion
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Proposal of Spirillum winogradskyi sp. nov., a novel microaerophilic species, an emended description of the genus Spirillum and Request for an Opinion regarding the status of the species Spirillum volutans Ehrenberg 1832
A novel obligately organotrophic, facultatively microaerophilic spirillum, designated strain D-427T, was isolated from sulfidic sludge of a municipal wastewater-treatment plant. Cells were Gram-negative, large and highly motile due to bipolar tufts of flagella covered with mucous sheaths. Coccoid cells were sometimes formed. Strain D-427T grew optimally at pH 7.5–7.8 and 28 °C in the presence of 2 % O2 in the gas phase. The organism showed oxidase and very low catalase activity. The isolate grew chemo-organotrophically with a limited number of organic acids as substrates. The DNA G+C content was 38.0 mol% (T m). Phylogenetic analysis of the 16S rRNA gene sequence placed strain D-427T in the genus Spirillum within the class Betaproteobacteria. The 16S rRNA gene sequence similarity between strain D-427T and Spirillum volutans ATCC 19554T, the type strain of the single species of the genus, was 98.6 %. The low level of DNA–DNA hybridization and different phenotypic properties indicate that strain D-427T is clearly distinguishable from Spirillum volutans. No strain of S. volutans is available from any established culture collection or from the authors who described this species. Therefore, on the basis of phenotypic and genotypic data and the fact that the type and single species of the genus Spirillum cannot be included in any scientific study, since the type strain has been lost, we propose to assign strain D-427T as a novel species of the genus Spirillum, Spirillum winogradskyi sp. nov. (type strain D-427T =DSM 12756T =VKM B-2518T), and we request that the Judicial Commission place the name Spirillum volutans on the list of rejected names if a suitable type strain is not found or a neotype is not proposed within 2 years following the publication of this paper. An emended description of the genus Spirillum is also provided.
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Volumes and issues
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 62 (2012)
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Volume 59 (2009)
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Volume 17 (1967)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)