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Volume 65,
Issue Pt_5,
2015
Volume 65, Issue Pt_5, 2015
- NEW TAXA
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- Proteobacteria
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Desulfuromonas carbonis sp. nov., an Fe(III)-, S0- and Mn(IV)-reducing bacterium isolated from an active coalbed methane gas well
More LessA novel, mesophilic, obligately anaerobic, acetate-oxidizing, dissimilatory iron-, sulfur-, and manganese-reducing bacterium, designated strain ICBMT, was obtained from an active, coalbed methane gas well in Indiana, USA. Strain ICBMT was a Gram-stain-negative, non-spore-forming, rod-shaped, non-motile bacterium that was rich in c-type cytochromes and formed red colonies in solid medium. Strain ICBMT conserved energy to support growth from the oxidation of acetate, propionate, pyruvate, malate, fumarate, succinate and dl-lactate, concomitant with dissimilatory iron reduction. Strain ICBMT fermented fumarate yielding succinate and acetate. Strain ICBMT was able to grow in the temperature range of 10 °C to 37 °C, NaCl concentration range of 0 to 1.2 M, and pH range of 6.5 to 8.0. The physiological characteristics of strain ICBMT indicated that it belongs to the Desulfuromonas cluster. The G+C content of its genomic DNA was 61.2 mol%. The predominant cellular fatty acids were C16 : 0 (39.3 %), C16 : 1ω7c and/or iso-C15 : 0 2-OH (36.6 %). The closest cultured phylogenetic relative of strain ICBMT was Desulfuromonas michiganensis BB1T with only 95 % 16S rRNA gene sequence similarity. This confirmed that strain ICBMT is affiliated with the genus Desulfuromonas . On the basis of phenotypic and genotypic differences between strain ICBMT and other taxa of the genus Desulfuromonas , strain ICBMT represents a novel species for which the name Desulfuromonas carbonis sp. nov. is proposed (type strain ICBMT = DSM 29759T = JCM 30471T). Strain ICBMT is the first Fe(III)-, S0-, and Mn(IV)-reducing bacterium that was isolated from a coal bed.
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- Bacteroidetes
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Marivirga atlantica sp. nov., isolated from seawater and emended description of the genus Marivirga
A novel Gram-stain-negative, aerobic, orange-pigmented, non-flagellated, gliding, rod-shaped bacterium, designated strain SM1354T was isolated from surface seawater of the Atlantic Ocean. The strain hydrolysed gelatin and DNA but did not reduce nitrate. It grew at 4–40 °C and with 0.5–11 % (w/v) NaCl. Phylogenetic analysis of the 16S rRNA gene sequences revealed that strain SM1354T belonged to the genus Marivirga with 96.0–96.2 % sequence similarities to known species of the genus Marivirga . The major fatty acids of strain SM1354T were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 03-OH and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 02-OH). Polar lipids of strain SM1354T included phosphatidylethanolamine, three unidentified lipids and one unidentified aminolipid and aminophospholipid. The major respiratory quinone of strain SM1354T was menaquinone 7 (MK-7). The genomic DNA G+C content of strain SM1354T was 33.9±0.4 mol%. On the basis of the results of the polyphasic characterization in this study, it is proposed that strain SM1354T represents a novel species of the genus Marivirga , namely Marivirga atlantica sp. nov. The type strain of Marivirga atlantica is SM1354T ( = CCTCC AB 2014242T = JCM 30305T). An emended description of the genus Marivirga is also proposed.
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Algibacter amylolyticus sp. nov., isolated from intertidal sediment
More LessA Gram-reaction-negative, rod-shaped, yellow-pigmented, motile by gliding bacterial strain, designated RU-4-M-4T, was isolated from intertidal sediment of Sakhalin Island in Russia. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain RU-4-M-4T was related to the genus Algibacter and had highest 16S rRNA gene sequence similarity with Algibacter pectinivorans KACC 14153T (97.2 %). The major cellular fatty acids were iso-C15 : 0 3-OH, C15 : 0 and iso-C15 : 1 G. The predominant menaquinone was MK-6. The polar lipid profile contained phosphatidylethanolamine, three unidentified aminolipids and two unidentified lipids. The genomic DNA G+C content of strain RU-4-M-4T was 36.4 mol%. Combined data from phenotypic, phylogenetic and DNA–DNA relatedness studies demonstrated that strain RU-4-M-4T is a representative of a novel species of the genus Algibacter , for which we propose the name Algibacter amylolyticus sp. nov. (type strain RU-4-M-4T = LMG 28383T = DSM 29199T).
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Sediminicola arcticus sp. nov., a psychrophilic bacterium isolated from deep-sea sediment, and emended description of the genus Sediminicola
A Gram-stain-negative, rod-shaped and non-motile strain, designated PAMC 27266T, was isolated from deep-sea sediment of the Arctic Ocean. Analysis of the 16S rRNA gene sequence of strain PAMC 27266T showed closest affiliation with the genus Sediminicola . Phylogenetic analyses revealed that strain PAMC 27266T formed a robust clade with Sediminicola luteus CNI-3T, with which it shared 98.9 % 16S rRNA gene sequence similarity. Genomic relatedness analyses based on the average nucleotide identity and genome-to-genome distance showed that strain PAMC 27266T is clearly distinguished from S. luteus . Cells of strain PAMC 27266T grew optimally at 15 °C and pH 6.5–7.5 in the presence of 3.5 % (w/v) sea salts. The major polar lipids were phosphatidylethanolamine, two unidentified aminophospholipids and two unidentified lipids. The only respiratory quinone was menaquinone-6. The major cellular fatty acids (>10 %) were C16 : 1ω6c and/or C16 : 1ω7c and C15 : 0. The genomic DNA G+C content was 37.9 mol%. Based on the phylogenetic, genomic, chemotaxonomic and phenotypic data presented, we propose strain PAMC 27266T ( = KCCM 43038T = JCM 19894T) as the type strain of a novel species, with the name Sediminicola arcticus sp. nov.
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Rufibacter roseus sp. nov., isolated from radiation-polluted soil
A rose, Gram-stain-negative, aerobic, rod-shaped bacterium that was motile by gliding, and designated strain H359T, was isolated from radiation-polluted soil (with high Cs137) from the Xinjiang Uygur Autonomous Region of PR China and subjected to a polyphasic taxonomic analysis. The isolate grew optimally at 30 °C and pH 7.0. It grew with NaCl up to 4 % (w/v). 16S rRNA gene sequence analysis indicated that strain H359T belonged to the genus Rufibacter , a member of the family Cytophagaceae , with Rufibacter tibetensis CCTCC AB 208084T as its closest phylogenetic relative, having 96.1 % 16S rRNA gene sequence similarity to the type strain. Strain H359T contained menaquinone-7 (MK-7) as the predominant menaquinone, and the major fatty acids were iso-C15 : 0, summed feature 4 (iso-C17 : 1 I and/or anteiso-C17 : 1 B), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 1ω5c. The polar lipid profile had phosphatidylethanolamine as the major component. The DNA G+C content was 43.9 mol%. Based on phenotypic, genotypic and phylogenetic evidence, strain H359T represents a novel species of the genus Rufibacter , for which the name Rufibacter roseus sp. nov. is proposed. The type strain is H359T ( = CPCC 100615T = KCTC 42217T).
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Rufibacter immobilis sp. nov., isolated from a high-altitude saline lake
More LessTwo pinkish-red, Gram-stain-negative, non-motile aerobic bacterial strains (MCC P1T and MCC P2), capable of growing at low temperatures (15 °C), were isolated from water of a saline lake located in the western Himalayas of India. The strains were capable of growth in the presence of 0–2.0 % NaCl and at pH 6.5–9.0. Phylogenetic analysis based on 16S rRNA gene sequences revealed the closest similarity of 96.3 % to the type strain of the only species of the genus Rufibacter , Rufibacter tibetensis CCTCC AB 208084T. Strains MCC P1T and MCC P2 shared 99.0 % 16S rRNA gene sequence similarity and 88.6 % DNA–DNA relatedness. The major cellular fatty acids were iso-C15 : 0, C17 : 1ω6c, summed feature 3 (C16 : 1ω6c/C16 : 1ω7c) and summed feature 4 (anteiso-C17 : 1 B/iso-C17 : 1 I). Predominant polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The respiratory quinone was MK-7. The DNA G+C content of the strains was 52.6–52.8 mol%. Based on morphological, physiological, chemotaxonomical and molecular characteristics, strains MCC P1T and MCC P2 represent a novel species of the genus Rufibacter , for which the name Rufibacter immobilis sp. nov. is proposed. The type strain is MCC P1T ( = MCC 2268T = CCTCC AB 2013351T).
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Belliella aquatica sp. nov., isolated from a saline lake
More LessA Gram-staining-negative bacterium, strain TS-T86T, was isolated from Lake Tuosu, a saline lake (salinity 5.4 %, w/w) in Qaidam basin, China. Its taxonomic position was determined by using a polyphasic approach. Strain TS-T86T was strictly heterotrophic, aerobic and catalase- and oxidase-positive. Cells were non-spore-forming, non-motile rods, 0.4–0.6 µm wide and 1.2–2.3 µm long. Growth was observed in the presence of 0–9.0 % (w/v) NaCl (optimum, 2.0 %), at 4–35 °C (optimum, 25 °C) and at pH 7.0–10.5 (optimum, pH 8.5–9.0). Strain TS-T86T contained MK-7 as the predominant respiratory quinone. The major fatty acids (>10 %) were iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 1ω9c, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c). The polar lipids consisted of phosphatidylethanolamine, an unknown phospholipid, six unidentified aminolipids and two uncharacterized lipids. The DNA G+C content was 35 mol% (T m). Phylogenetic trees based on 16S rRNA gene sequences showed that strain TS-T86T was associated with the genus Belliella , and showed the highest sequence similarity to Belliella baltica BA134T (98.5 %) and then to Belliella kenyensis No.164T (95.7 %) and Belliella pelovolcani CC-SAL-25T (95.3 %). DNA–DNA relatedness of strain TS-T86T to Belliella baltica DSM 15883T was 32±3 %. It is concluded that strain TS-T86T represents a novel species of the genus Belliella , for which the name Belliella aquatica sp. nov. is proposed. The type strain is TS-T86T ( = CGMCC 1.12479T = JCM 19468T).
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Polaribacter undariae sp. nov., isolated from a brown alga reservoir
More LessA Gram-stain-negative, non-flagellated, non-gliding, aerobic and rod-shaped or ovoid bacterial strain, designated W-BA7T, was isolated from a brown alga reservoir on the South Sea in South Korea. This strain grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of approximately 2.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain W-BA7T belonged to the genus Polaribacter , clustering coherently with the type strain of Polaribacter sejongensis, showing 99.3 % sequence similarity. Strain W-BA7T exhibited 16S rRNA gene sequence similarity of 93.4–98.6 % to the type strains of the other species of the genus Polaribacter . Strain W-BA7T contained MK-6 as the predominant menaquinone and iso-C15 : 0 3-OH and anteiso-C15 : 0 as the major fatty acids. The major polar lipids of strain W-BA7T were phosphatidylethanolamine, three unidentified lipids, one unidentified glycolipid, one unidentified aminolipid and one unidentified aminophospholipid. The DNA G+C content of strain W-BA7T was 31.9 mol%, and the mean DNA–DNA relatedness with the type strains of four phylogenetically related species of the genus Polaribacter was 12–27 %. Differential phenotypic properties, together with its phylogenetic and genetic distinctiveness, revealed that strain W-BA7T is separated from recognized species of the genus Polaribacter . On the basis of the data presented, strain W-BA7T is considered to represent a novel species of the genus Polaribacter , for which the name Polaribacter undariae sp. nov. is proposed. The type strain is W-BA7T ( = KCTC 42175T = CECT 8670T).
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Leeuwenhoekiella polynyae sp. nov., isolated from a polynya in western Antarctica
A Gram-stain-negative, motile by gliding, rod-shaped bacterial strain, designated SOJ2014-1T was isolated from surface water of a polynya in the Antarctic Ocean. A comparative 16S rRNA gene sequence analysis showed that strain SOJ2014-1T belongs to the genus Leeuwenhoekiella and is most closely related to Leeuwenhoekiella marinoflava DSM 3653T (97.5 % 16S rRNA gene sequence similarity). The G+C content of the genomic DNA of strain SOJ2014-1T was 38.8 mol%. Its predominant cellular fatty acids were summed feature 3 (composed of C16 : 1ω6c and/or C16 : 1ω7c), iso-C17 : 0 3-OH, iso-C15 : 0, iso-C15 : 1 G and summed feature 9 (composed of iso-C17 : 1ω9c and/or 10-methyl C16 : 0). DNA–DNA relatedness between strain SOJ2014-1T and close relatives, L. marinoflava DSM 3653T and Leeuwenhoekiella aequorea LMG 22550T, was below 49 %. The respiratory quinone was MK-6. The major polar lipids were phosphatidylethanolamine, an unidentified aminolipid and two unidentified lipids. The strain grew at 0–35 °C (optimum, 25 °C) with 0–14.0 % (w/v) NaCl (optimum, 1.0–5.0 %). It was strictly aerobic and had different carbohydrate utilization traits compared with L. marinoflava DSM 3653T. Based on the phenotypic, chemotaxonomic and phylogenetic analyses, strain SOJ2014-1T is proposed as a representative of a novel species, Leeuwenhoekiella polynyae. The type strain is SOJ2014-1T ( = KCTC 42185T = JCM 30387T).
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- Other Bacteria
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Chloracidobacterium thermophilum gen. nov., sp. nov.: an anoxygenic microaerophilic chlorophotoheterotrophic acidobacterium
More LessA novel anoxygenic photoheterotrophic member of the phylum Acidobacteria , Chloracidobacterium thermophilum strain B sp. nov., was isolated from a cyanobacterial enrichment culture derived from microbial mats associated with Octopus Spring, Yellowstone National Park, WY. C. thermophilum sp. nov. was a Gram-stain-negative rod (diameter, approximately 0.8–1.0 µm; variable length, approximately 2.5 µm), which formed greenish-brown liquid suspension cultures. It was a moderately thermophilic microaerophile and grew in a defined medium at 51 °C (Topt; range 44 to 58 °C) and in the pH range 5.5 to 9.5 (pHopt = ~7.0). The DNA G+C content was 61.3 mol%, and phylogenetic analysis, based on the 16S rRNA sequence, showed that C. thermophilum sp. nov. belongs to subdivision 4 ( Acidobacteriaceae ) of the Acidobacteria . C. thermophilum sp. nov. was unable to synthesize branched-chain amino acids, l-lysine, and vitamin B12, which were required for growth. Although the organism lacked genes/enzymes for autotrophic carbon fixation, bicarbonate was required. Growth was stimulated by other amino acids and 2-oxoglutarate. Cells produced chlorosomes containing a diverse mixture of bacteriochlorophyll (BChl) c derivatives, and additionally, synthesized BChl a P, Chl a PD, and Zn-BChl a′P, which occurred in type-1 homodimeric reaction centres. The carotenoids included echinenone, canthaxanthin, lycopene, γ-carotene and β-carotene. C. thermophilum sp. nov. produced iso-diabolic acid as its major fatty acid and synthesized three hopanoids (diploptene, bacteriohopanetetrol and bacteriohopanetetrol cyclitol ether). Based upon its phenotypic and genotypic properties, the name Chloracidobacterium thermophilum gen. nov., sp. nov. is proposed for this isolate; the type strain is C. thermophilum strain BT (ATCC BAA-2647 = JCM 30199).
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Planctomicrobium piriforme gen. nov., sp. nov., a stalked planctomycete from a littoral wetland of a boreal lake
An aerobic, budding, non-pigmented and rosette-forming bacterium was isolated from a littoral wetland of a boreal lake located in Valaam Island, northern Russia, and designated strain P3T. Ellipsoidal to pear-shaped cells of this bacterium were covered with crateriform pits and possessed stalks suggesting a planctomycete morphotype. 16S rRNA gene sequence analysis confirmed that strain P3T was a member of the order Planctomycetales and belonged to a phylogenetic lineage defined by the genus Planctomyces , with 89 and 86 % sequence similarity to Planctomyces brasiliensis and Planctomyces maris , respectively. Strain P3T was a mildly acidophilic, mesophilic organism capable of growth at pH values between pH 4.2 and 7.1 (with an optimum at pH 6.0–6.5) and at temperatures between 10 and 30 °C (optimum at 20–28 °C). Most sugars, a number of polysaccharides and several organic acids were the preferred growth substrates. Compared with Planctomyces brasiliensis and Planctomyces maris , which require NaCl for growth, strain P3T was salt-sensitive and did not develop at NaCl concentrations above 0.5 % (w/v). The major fatty acids were C16 : 0 and C16 : 1ω7c; the cells also contained significant amounts of C18 : 1ω7c and C18 : 0. The major intact polar lipids were diacylglycerol-O-(N,N,N-trimethyl)homoserine (DGTS) lipids; the major neutral lipids were long-chain 1,(ω-1)-diols and C31 : 9 hydrocarbon. The quinone was MK-6, and the G+C content of the DNA was 59.0 mol%. Strain P3T differed from Planctomyces brasiliensis and Planctomyces maris by cell morphology, substrate utilization pattern and a number of physiological characteristics. Based on these data, the novel isolate should be considered as representing a novel genus and species of planctomycetes, for which the name Planctomicrobium piriforme gen. nov., sp. nov., is proposed. The type strain is P3T ( = DSM 26348T = VKM B-2887T).
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- Eukaryotic Micro-organisms
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Occultifur tropicalis f.a., sp. nov., a novel cystobasidiomycetous yeast species isolated from tropical regions
Five strains representing a single novel anamorphic yeast species were isolated from sugar cane. Two strains were from tissue (DMKU-SE38, DMKU-SE59T) and two from the external surface (DMKU-SP385, DMKU-SP403) of leaves collected in Thailand and the fifth (IMUFRJ 52020) from the rhizoplane of sugar cane in an organically cultivated field in Brazil. On the basis of sequence analysis of the D1/D2 region of the large subunit (LSU) rRNA gene and the internal transcribed spacer (ITS) region, they were classified as representing a single species of the genus Occultifur. The sequences of the D1/D2 region of the LSU rRNA genes and the ITS regions of the five strains were either identical or differed from each other by only one nucleotide substitution. The novel species was related most closely to Occultifur brasiliensis f.a. CBS 12687T but with 0.7–1.0 % nucleotide substitutions (4–6 nt) in the D1/D2 region of the LSU rRNA gene and 2.5–2.7 % nucleotide substitutions (14–15 nt) in the ITS region. The name Occultifur tropicalis f.a., sp. nov. is proposed. The type strain is DMKU-SE59T ( = BCC 61184T = NBRC 109696T = CBS 13389 T).
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Volumes and issues
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Volume 75 (2025)
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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 4 (1954)
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