- Volume 63, Issue Pt_8, 2013
Volume 63, Issue Pt_8, 2013
- Notification List
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Notification that new names and new combinations have appeared in volume 63, part 5, of the IJSEM
This listing of names published in a previous issue of the IJSEM is provided as a service to bacteriology to assist in the recognition of new names and new combinations. This procedure was proposed by the Judicial Commission [Minute 11(ii), Int J Syst Bacteriol 41 (1991), p. 185]. The names given herein are listed according to the rules of priority (i.e. page number and order of valid publication of names in the original articles). Taxonomic opinions included in this list (i.e. the creation of synonyms or the emendation of circumscriptions) cannot be considered as validly published nor, in any other way, approved by the International Committee on Systematics of Prokaryotes and its Judicial Commission.
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- New Taxa
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- Actinobacteria
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Streptomyces chilikensis sp. nov., a halophilic streptomycete isolated from brackish water sediment
More LessA novel actinobacterial strain, designated RC 1830T, was isolated from the sediment of estuarine coastal brackish water lagoon of Chilika Lake, in Khurdha district of Odisha, India, and characterized using a polyphasic approach. Strain RC 1830T was halophilic and alkali-tolerant and found to hydrolyse chitin, starch, tributyrin, lecithin, Tween 80, cellulose, gelatin and casein. The diagnostic presence of ll-diaminopimelic acid, iso-C15 : 0, anteiso-C15 : 0, iso-C16 : 0, C16 : 0, iso-C17 : 0, anteiso-C17 : 0 as major cellular fatty acids and MK-9(H4 and H6) as major menaquinones noticeably associated the strain to the genus Streptomyces . After comparison and analysis of the near complete 16S rRNA gene sequence with representative strains of other streptomycetes, it was evident that strain RC 1830T belonged to the genus Streptomyces , and exhibited the highest sequence similarities of 99.53 %, 99.25 %, 99.11 %, 99.10 % and 99. 06 % to Streptomyces fragilis DSM 40044T, Streptomyces coelicoflavus NBRC 15399T, Streptomyces flaveolus NBRC 3715T, Streptomyces lavenduligrisesus NBRC 13405T and Streptomyces eurythermus ATCC 14975T, respectively. Reconstruction of a phylogenetic tree for the genus Streptomyces revealed that strain RC 1830T formed a distinct phyletic line and clustered with its most closely related neighbour S. fragilis DSM 40044T. The DNA–DNA relatedness values between strain RC 1830T and the most closely related type strain S. fragilis DSM 40044T were determined to be 17.7±4.55 %. Additionally, morphological, biochemical and physiological tests were able to distinguish the strain from the most closely related type strain S. fragilis DSM 40044T and other closely related neighbours, S. coelicoflavus DSM 41471T and Streptomyces flaveolus DSM 40061T. Based on a range of phenotypic and genotypic properties, strain RC 1830T is suggested to represent a novel species of the genus Streptomyces for which the name Streptomyces chilikensis sp. nov. is proposed. The type strain is RC 1830T ( = JCM 18411T = DSM 42072T).
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Microbacterium saccharophilum sp. nov., isolated from a sucrose-refining factory
A Gram-stain-positive, non-motile, non-spore-forming, rod-shaped bacterium, designated strain K-1T, was isolated from soil at a sucrose refinery in Japan. The strain grew at 9–37 °C (optimum, 30 °C) and at pH 6–11 (optimum, pH 7.0). Phylogenetic analysis based on the full-length 16S rRNA gene sequence of strain K-1T revealed that it was a member of the genus Microbacterium . High 16S rRNA gene sequence similarities were found between strains K-1T and both Microbacterium pumilum NBRC 101279T (99.7 %) and Microbacterium deminutum NRRL B-24453T (99.5 %). However, the DNA–DNA hybridization values between strain K-1T and M. pumilum NBRC 101279T and M. deminutum NRRL B-24453T were only 12 % and 10 %, respectively. The DNA G+C content of strain K-1T was 73 mol%. The major fatty acids of strain K-1T were anteiso-C15 : 0 and anteiso-C17 : 0, and the major menaquinones were MK-12 and MK-13. The diamino acid in the cell-wall peptidoglycan was lysine. On the basis of these results, strain K-1T is considered to represent a novel species of the genus Microbacterium , for which the name Microbacterium saccharophilum sp. nov. is proposed. The type strain is K-1T ( = NBRC 108778T = NCIMB 14782T).
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Streptomyces halophytocola sp. nov., an endophytic actinomycete isolated from the surface-sterilized stems of a coastal halophyte Tamarix chinensis Lour.
A novel actinomycete, designated KLBMP 1284T, was isolated from the surface-sterilized stems of a coastal halophyte Tamarix chinensis Lour. collected from the city of Nantong, Jiangsu Province, east China. The strain was found to have morphological and chemotaxonomic characteristics typical of members of the genus Streptomyces . Analysis of the 16S rRNA gene sequence of strain KLBMP 1284T revealed that the strain formed a distinct clade within the phylogenetic tree based on 16S rRNA gene sequences and the highest sequence similarity (99.43 %) was to Streptomyces sulphureus NRRL B-1627T. 16S rRNA gene sequence similarity to other species of the genus Streptomyces was lower than 97 %. Based on DNA–DNA hybridization values and comparison of morphological and phenotypic data, KLBMP 1284T could be distinguished from the closest phylogenetically related species, Streptomyces sulphureus NRRL B-1627T. Thus, based on these data, it is evident that strain KLBMP 1284T represents a novel species of the genus Streptomyces , for which the name Streptomyces halophytocola sp. nov. is proposed. The type strain is KLBMP 1284T ( = KCTC 19890T = NBRC 108770T).
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Longimycelium tulufanense gen. nov., sp. nov., a filamentous actinomycete of the family Pseudonocardiaceae
More LessA novel filamentous actinomycete strain, designated TRM 46004T, was isolated from sediment of Aiding Lake in Tulufan Basin (42° 64′ N 89° 26′ E), north-west China. The isolate was characterized using a polyphasic approach. The isolate formed abundant aerial mycelium with few branches and vegetative mycelium, occasionally twisted and coiled; spherical sporangia containing one to several spherical spores developed at the ends of short sporangiophores on aerial mycelium. The G+C content of the DNA was 65.2 mol%. The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid and xylose, galactose and ribose as the major whole-cell sugars. The diagnostic phospholipids were phosphatidylethanolamine, phosphatidylcholine and phosphatidylglycerol. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H10). The major fatty acids were iso-C16 : 0 and anteiso-C17 : 0. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain TRM 46004T formed a distinct lineage within the family Pseudonocardiaceae and showed 91.7–96.1 % 16S rRNA gene sequence similarity with members of the family Pseudonocardiaceae . On the basis of the evidence from this polyphasic study, a novel genus and species, Longimycelium tulufanense gen. nov., sp. nov., are proposed. The type strain of Longimycelium tulufanense is TRM 46004T ( = CGMCC 4.5737T = NBRC 107726T).
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Cryobacterium levicorallinum sp. nov., a psychrophilic bacterium isolated from glacier ice
More LessIn this study, two psychrophilic bacterial strains were isolated from the China No. 1 glacier in Xinjiang, north-west China. Cells were Gram-positive rods. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the strains belonged to the genus Cryobacterium . Phylogenetic analysis showed that they clustered together and are most closely related to Cryobacterium luteum CGMCC 1.11210T, Cryobacterium flavum CGMCC 1.11215T, Cryobacterium psychrophilum CGMCC 1.4292T, Cryobacterium psychrotolerans CGMCC 1.5382T and Cryobacterium roopkundense CGMCC 1.10672T. The major cellular fatty acids of the novel strains were anteiso-C15 : 0, anteiso-C15 : 1 A, iso-C16 : 0 and iso-C15 : 0. Both strains contained diphosphatidylglycerol, phosphatidylglycerol and one unidentified glycolipid in the cell membrane. The results of DNA–DNA hybridization and physiological tests allowed the genotypic and phenotypic differentiation of strains Hh34T and Hh28 from related species. However, their high DNA–DNA relatedness showed that they belong to the same novel species. Strain Hh34T ( = NBRC 107883T = CGMCC 1.11211T) was selected as the type strain to represent this novel species, for which the name Cryobacterium levicorallinum sp. nov. is proposed.
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Methylobacterium tarhaniae sp. nov., isolated from arid soil
More LessA reddish-orange-pigmented, Gram-stain-negative, aerobic, facultatively methylotrophic strain, N4211T, isolated from arid soil, collected from Abuja, Nigeria, was analysed by using a polyphasic approach. Phylogenetic analysis, based on 16S rRNA gene sequences, showed that strain N4211T belonged to the genus Methylobacterium . Strain N4211T was most closely related to Methylobacterium aquaticum GR16T (98.56 %), Methylobacterium platani PMB02T (97.95 %) and Methylobacterium variabile GR3T (97.2 %), and the phylogenetic similarities to all other species of the genus Methylobacterium with validly published names were less than 97.0 %. The major ubiquinones detected were Q-10. The major fatty acids were summed feature 7 (C18 : 1 cis11/t9/t6). The DNA G+C content was 67.3 mol%. DNA–DNA relatedness of strain N4211T and the most closely related strains M. aquaticum DSM 16371T and M. platani KCTC 12901T were 60.0 and 48.2 %, respectively. On the basis of phenotypic, phylogenetic and DNA–DNA hybridization data, strain N4211T is assigned to a novel species of the genus Methylobacterium for which the name Methylobacterium tarhaniae sp. nov. is proposed. The type strain is N4211T( = KCTC 23615T = DSM 25844T).
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Streptomyces wuyuanensis sp. nov., an actinomycete from soil
More LessA novel actinomycete, strain FX61T, was isolated from a saline sample collected from the Inner Mongolian Autonomous Region in China and subjected to a taxonomic study using a polyphasic approach. The predominant menaquinones were MK-9(H6), MK-9(H8) and MK-9(H4). The major fatty acids were iso-C16 : 0, anteiso-C15 : 0, iso-C15 : 0, iso-C16 : 1 H, C16 : 0, iso-C14 : 0 and anteiso-C17 : 0. The phospholipid profile contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, two phosphatidylinositol mannosides and an unidentified phospholipid. The G+C content of the genomic DNA was 72 mol%. The 16S rRNA gene sequence of the isolate had greater than 98 % similarity with those of Streptomyces griseoincarnatus ATCC 23623T (98.2 %), Streptomyces labedae DSM 41446T (98.2 %), Streptomyces variabilis ATCC 19815T (98.2 %), Streptomyces erythrogriseus ATCC 27427T (98.2 %), Streptomyces matensis ATCC 23935T (98.2 %), Streptomyces althioticus ATCC 19724T (98.2 %) and Streptomyces luteosporeus ATCC 33049T (98.0 %), showing that the novel strain should be assigned to the genus Streptomyces . DNA–DNA hybridizations with the seven above-mentioned members of the genus Streptomyces showed 29.8, 28.5, 27.0, 25.5, 25.0, 23.5 and 22.0 % relatedness, respectively. On the basis of the phenotypic characteristics and genotypic distinctiveness, strain FX61T should be classified as a novel species of the genus Streptomyces , for which the name Streptomyces wuyuanensis sp. nov. is proposed. The type strain is FX61T ( = CGMCC 4.7042T = KCTC 29112T).
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Aquihabitans daechungensis gen. nov., sp. nov., an actinobacterium isolated from reservoir water
More LessA novel Gram-reaction-positive bacterium, strain CH22-21T, was isolated from a water sample taken from Daechung Reservoir, Republic of Korea, during the late-blooming period of cyanobacteria. Cells of strain CH22-21T were non-motile, ciliated short rods that formed creamy-white colonies on half-strength modified R2A agar. Chemotaxonomic results showed menaquinone MK-9(H6) as the predominant respiratory menaquinone, diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositolmannoside as major polar lipids, 16 : 1ω5c, 16 : 0, 17 : 1ω8c and 18 : 1ω9c as major fatty acids, and a DNA G+C content of 71.8 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that the strain formed a separate lineage within the order Acidimicrobiales , showing similarity values of <92.3 % with its closest phylogenetic neighbours. The combined genotypic and phenotypic data showed that strain CH22-21T could be distinguished from all genera within the order Acidimicrobiales and represented a novel species of a new genus in the family Iamiaceae , for which the name Aquihabitans dachungensis gen. nov., sp. nov. is proposed. The type strain of Aquihabitans dachungensis is CH22-21T ( = KCTC 19849T = JCM 17787T).
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Actinopolyspora lacussalsi sp. nov., an extremely halophilic actinomycete isolated from a salt lake
More LessA novel halophilic, filamentous actinobacterium, designated strain TRM 40139T, was isolated from a hypersaline habitat in Xinjiang Province, north-west China. Its taxonomic status was determined using a polyphasic approach. Phylogenetic analysis based on the almost-complete 16S rRNA gene sequence of the strain showed that it formed a well-separated sub-branch within the radiation of the genus Actinopolyspora and the organism was related most closely to the type strains of Actinopolyspora alba (97.6 % similarity), Actinopolyspora xinjiangensis (97.6 %) and Actinopolyspora erythraea (97.1 %). However, it had relatively lower mean DNA–DNA relatedness values with the above strains (36.4, 31.3 and 26.1 %, respectively). Optimal growth occurred at 35 °C, at pH 7.0 and in the presence of 12 % (w/v) NaCl. The whole-cell sugar pattern consisted of xylose, glucose, ribose and arabinose. The major fatty acids were iso-C16 : 0 (28.0 %) and anteiso-C17 : 0 (27.6 %). The diagnostic phospholipids detected were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylinositol and two unknown phospholipids. The predominant menaquinones were MK-9(H4) (49.8 %) and MK-10(H4) (24.2 %). The G+C content of the genomic DNA was 66.4 mol%. Strain TRM 40139T therefore represents a novel species of the genus Actinopolyspora , for which the name Actinopolyspora lacussalsi sp. nov. is proposed. The type strain is TRM 40139T ( = KCTC 19657T = CCTCC AA 2012020T).
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Cellulomonas marina sp. nov., isolated from deep-sea water
More LessA bacterial strain FXJ8.089T was isolated from deep-sea water collected from the southwest Indian Ocean (49° 39′ E 37° 47′ S) at a depth of 2800 m, and its taxonomic position was investigated by a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FXJ8.089T belonged to the genus Cellulomonas and had the highest similarities with Cellulomonas oligotrophica (96.9 %) and Cellulomonas aerilata (96.6 %). It contained MK-9(H4) as the predominant menaquinone. The polar lipids were diphosphatidylglycerol and phosphatidylinositol mannosides. The cell-wall peptidoglycan type was A4β with an interpeptide bridge l-Orn–d-Glu. The cell-wall sugars were glucose, mannose and ribose. The DNA G+C content was 70.3 mol%. The strain also showed a number of physiological and biochemical characteristics that were distinct from the closely related species. Based on phenotypic and genotypic data, strain FXJ8.089T ( = CGMCC 4.6945T = DSM 24960T) represents a novel species of the genus Cellulomonas , for which the name Cellulomonas marina sp. nov. is proposed.
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Actinoplanes siamensis sp. nov., isolated from soil
A Gram-positive filamentous bacterial strain that developed large campanulate sporangia at the ends of sporangiophores on substrate mycelium was isolated from bamboo forest soil in Thailand. According to the results of a polyphasic taxonomic study, our isolate had typical characteristics of members of the genus Actinoplanes . The 16S rRNA gene sequence analysis also indicated that strain A-T 6646T belonged to the genus Actinoplanes , being most closely related to Actinoplanes liguriensis DSM 43865T (97.61 %) and Actinoplanes octamycinicus NBRC 14524T (97.52 %). The DNA–DNA relatedness values, which differentiate the new strain from the most closely related species, were significantly below 70 %. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The whole-cell sugars contained xylose and arabinose. The predominant menaquinone was MK-9(H4). The diagnostic phospholipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The predominant cellular fatty acids were iso-C16 : 0, anteiso-C17 : 0, iso-C15 : 0 and anteiso-C15 : 0. Following an evaluation of phenotypic, chemotaxonomic and genotypic studies, the isolate is proposed to represent a novel species to be named Actinoplanes siamensis sp. nov. The type strain is A-T 6646T ( = BCC 46194T = NBRC 109076T).
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- Archaea
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Thermococcus prieurii sp. nov., a hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent
More LessA novel hyperthermophilic, anaerobic archaeon, strain Bio-pl-0405IT2T, was isolated from a hydrothermal chimney sample collected from the East Pacific Rise at 2700 m depth in the ‘Sarah Spring’ area (7° 25′ 24″ S 107° 47′ 66″ W). Cells were irregular, motile cocci (0.8–1.5 µm in diameter) and divided by constriction. Growth was observed at temperatures between 60 °C and 95 °C with an optimum at 80 °C. The pH range for growth was between pH 4.0 and pH 8.0 with an optimum around pH 7.0. Strain Bio-pl-0405IT2T grew at salt concentrations of 1–5 % (w/v) NaCl with an optimum at 2 %. The novel isolate grew by fermentation or sulphur respiration on a variety of organic compounds. It was a chemoorganoheterotrophic archaeon growing preferentially with yeast extract, peptone and tryptone as carbon and energy sources and sulphur and organic compounds as electron acceptors; it also grew on maltose and starch. Sulphur or l-cystine were required for growth and were reduced to hydrogen sulfide. The strain was resistant to rifampicin, chloramphenicol, vancomycin and kanamycin (all at 100 µg ml−1) but was sensitive to tetracycline. The G+C content of its genomic DNA was 53.6 mol%. Phylogenetic analysis of the almost complete 16S rRNA gene sequence (1450 bp) of strain Bio-pl-0405IT2T showed that the novel isolate belonged to the genus Thermococcus . DNA–DNA hybridization values with the two closest relatives Thermococcus hydrothermalis AL662T and Thermococcus celer JCM 8558T were below the threshold value of 70 %. On the basis of the physiological and genotypic distinctness, we propose a novel species, Thermococcus prieurii sp. nov. The type strain is Bio-pl-0405IT2T ( = CSUR P577T = JCM 16307T).
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Methanosarcina soligelidi sp. nov., a desiccation- and freeze-thaw-resistant methanogenic archaeon from a Siberian permafrost-affected soil
More LessA methanogenic archaeon, strain SMA-21T, was isolated from a permafrost-affected soil by serial dilution in liquid medium. The cells were non-motile, stained Gram-negative and grew as irregular cocci with a diameter of 1.3–2.5 µm. Optimal growth was observed at 28 °C, pH 7.8 and 0.02 M NaCl. The strain grew on H2/CO2, methanol and acetate, but not on formate, ethanol, 2-butanol, 2-propanol, monomethylamine, dimethylamine, trimethylamine or dimethyl sulfide. Major membrane lipids of strain SMA-21T were archaeol phosphatidylglycerol, archaeol phosphatidylethanolamine and the corresponding hydroxyarchaeol compounds. The G+C content of the genomic DNA was 40.9 mol%. The 16S rRNA gene sequence was closely related to those of Methanosarcina mazei DSM 2053T (similarity 99.9 %) and Methanosarcina horonobensis HB-1T (similarity 98.7 %). On basis of the level of DNA–DNA hybridization (22.1 %) between strain SMA-21T and Methanosarcina mazei DSM 2053T as well as of phenotypic and genotypic differences, strain SMA-21T was assigned to a novel species of the genus Methanosarcina , for which the name Methanosarcina soligelidi sp. nov. is proposed. The type strain is SMA-21T ( = DSM 20065T = JCM 18468).
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- Bacteroidetes
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Mucilaginibacter herbaticus sp. nov., isolated from the rhizosphere of the medicinal plant Angelica sinensis
More LessA strictly aerobic, Gram-staining-negative, non-motile and rod-shaped bacterial strain, DR-9T, was isolated from rhizosphere soil of the medicinal herb Angelica sinensis. Strain DR-9T grew at 20–40 °C, at pH 4.0–9.0 and in the presence of 0–1 % (w/v) NaCl. The major fatty acids were iso-C15 : 0 and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c and/or iso-C15 : 0 2-OH), MK-7 was the major isoprenoid quinone, and phosphatidylethanolamine and an unidentified aminophospholipid were the major polar lipids. A phylogenetic tree based on 16S rRNA gene sequences showed that strain DR-9T formed a lineage within the genus Mucilaginibacter and was closely related to Mucilaginibacter polysacchareus DRP28T (96.1 % sequence similarity), Mucilaginibacter myungsuensis HMD1056T (95.9 % sequence similarity), Mucilaginibacter ximonensis XM-003T (95.8 %) and Mucilaginibacter boryungensis BDR-9T (95.1 %). The status of strain DR-9T as a representative of a separate species was confirmed by DNA hybridization, with 38.6, 36.3 and 29.9 % DNA–DNA relatedness with M. polysacchareus DRP28T, M. ximonensis XM-003T and M. boryungensis BDR-9T, respectively. The genomic DNA G+C content of strain DR-9T was 49.8 %. These data suggest that strain DR-9T should be considered as a representative of a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter herbaticus sp. nov. is proposed. The type strain is DR-9T ( = KACC 16469T = NBRC 108839T).
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Pontibacter ramchanderi sp. nov., isolated from hexachlorocyclohexane-contaminated pond sediment
More LessA Gram-stain-negative, motile, red pigmented, rod-shaped bacterium, designated strain LP43T, was isolated from hexachlorocyclohexane (HCH)-contaminated soil sediment (Lucknow, India). Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate formed a cluster with the genus Pontibacter in the phylum Bacteroidetes with sequence similarities ranging from 92.9 to 97.0 % with species of the genus Pontibacter . The DNA G+C content of strain LP43T was 59.1 mol%. The polar lipid profile of strain LP43T showed the presence of phosphatidylethanolamine, an unidentified aminophospholipid, unknown aminolipids and unknown polar lipids. Strain LP43T contained MK-7 as the predominant menaquinone and sym-homospermidine as the major polyamine. The major cellular fatty acids of strain LP43T were, iso-C15 : 0 (15.74 %), iso-C15 : 0 3-OH (7.57 %), iso-C17 : 0 3-OH (7.32 %), summed feature 4 (iso-C17 : 1 I/anteiso-C17 : 1 B) (31.22 %) and summed feature 8 (C18 : 1ω7c/ C18 : 1ω6c) (7.60 %). Based on the results of DNA–DNA hybridization and phenotypic and genotypic characteristics, strain LP43T represents a novel species of the genus Pontibacter , for which the name Pontibacter ramchanderi is proposed. The type strain is LP43T ( = CCM 8406T = MCC 2019T).
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Chryseobacterium kwangjuense sp. nov., isolated from pepper (Capsicum annuum L.) root
More LessThe yellow-pigmented, Gram-stain-negative, rod-shaped bacterium KJ1R5T was isolated from the root of a pepper plant grown in a field in Kwangju, Korea. Strain KJ1R5T was characterized by physiological, biochemical, and molecular genetic analyses. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain KJ1R5T was most closely related to members of the genus Chryseobacterium , and that the strain exhibited the highest similarities with type strains of Chryseobacterium vrystaatense (97.0 %) and Chryseobacterium rhizosphaerae (97.1 %). DNA–DNA hybridization reassociation values between strain KJ1R5T and type strains of C. vrystaatense KACC 11675T and C. rhizosphaerae KACC 14918T were 46.9 and 38.4 %, respectively. The DNA G+C content of KJ1R5T is 40.2 mol%. The predominant respiratory quinone of KJ1R5T was menaquinone MK-6; major cellular fatty acids were iso-C15 : 0, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), iso-C17 : 1ω9c, and iso-C17 : 0 3-OH. On the basis of these phenotypic and genotypic characteristics, the strain significantly differed from representative strains belonging to the genus Chryseobacterium . Thus, we propose that strain KJ1R5T represents a novel species of the genus Chryseobacterium , named Chryseobacterium kwangjuense sp. nov. The type strain is KJ1R5T ( = KACC 13029T = JCM 15904T).
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Flavobacterium cutihirudinis sp. nov., isolated from the skin of the medical leech Hirudo verbana
More LessA Gram-staining-negative, non-endospore-forming, yellow-pigmented strain (E89T) was isolated from the skin of the medical leech Hirudo verbana obtained from a leech farm located in Biebertal, Germany. 16S rRNA gene sequencing analysis showed that the isolate was grouped in the genus Flavobacterium . Strain E89T was most closely related to Flavobacterium chilense LM-09-FpT (98.2 %), Flavobacterium chungangense CJ7T (98.1 %), and Flavobacterium oncorhynchi 631-08T (98.1 %). 16S rRNA gene sequence similarities to all other species of the genus Flavobacterium were ≤97.4 %. A menaquinone of the type MK-6 was found to be the predominant respiratory quinone and the polar lipid profile consisted of the major compounds phosphatidylethanolamine, phosphatidylserine, two unidentified aminolipids, one unknown phospholipid and two unknown lipids. The fatty acid profile was composed of iso-C15 : 0, C15 : 0, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) found in major amounts and several hydroxylated fatty acids in smaller amounts, among them iso-C15 : 0 3-OH and iso-C17 : 0 3-OH. All these data support the allocation of the isolate in the genus Flavobacterium . Physiological/biochemical characterization and DNA–DNA hybridizations with the type strains of the most closely related species allowed a clear phenotypic and genotypic differentiation of the strain. Based on these data, strain E89T represents a novel species of the genus Flavobacterium , for which the name Flavobacterium cutihirudinis sp. nov. is proposed. The type strain is E89T ( = DSM 25795T = LMG 26922T = CIP 110374T).
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Flavobacterium yanchengense sp. nov., isolated from soil
More LessA Gram-stain-negative, non-spore-forming, rod-shaped bacterial strain, hgT, resembling members of the genus Flavobacterium , was isolated from soil, and subjected to a taxonomic study using a polyphasic approach. Strain hgT grew optimally at pH 7.0 and 30 °C in the presence of 1 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The DNA G+C content was 34 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain hgT belonged to the genus Flavobacterium . Levels of 16S rRNA gene sequence similarity between strain hgT and the type strains of species of the genus Flavobacterium were below 94.7 %. Strain hgT differed from phylogenetically related species of the genus Flavobacterium in several phenotypic characteristics. On the basis of phenotypic and phylogenetic distinctiveness, strain hgT ( = CCTCC AB 2012099T = KACC 16855T) was classified in the genus Flavobacterium as the type strain of a novel species, for which the name Flavobacterium yanchengense sp. nov. is proposed.
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Arenitalea lutea gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from intertidal sand
A yellow, rod-shaped, Gram-negative, facultatively aerobic, gliding bacterium, designed strain P7-3-5T, was isolated from intertidal sand of the Yellow Sea, China. Analysis of 16S rRNA gene sequences revealed that strain P7-3-5T formed a distinct lineage within the family Flavobacteriaceae , sharing 94.2–96.9 % sequence similarity with type strains of species of the most closely related genera, including Hyunsoonleella , Jejuia , Marinivirga and Algibacter . The strain grew at 4–40 °C and with 0.5–5.0 % (w/v) NaCl. It reduced nitrate to nitrite and hydrolysed gelatin and DNA. The major cellular fatty acids were iso-C15 : 0, iso-C15 : 1 G and anteiso-C15 : 0 and the major respiratory quinone was MK-6. Polar lipids included phosphatidylethanolamine (PE), three unidentified aminolipids (AL1–3) and four unidentified lipids (L1–4). The genomic DNA G+C content of strain P7-3-5T was 32.1 mol%. Data from this polyphasic study suggest that strain P7-3-5T represents a novel species in a new genus in the family Flavobacteriaceae , for which the name Arenitalea lutea gen. nov., sp. nov. is proposed. The type strain of Arenitalea lutea is P7-3-5T ( = CGMCC 1.12213T = KACC 16457T).
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Mucilaginibacter sabulilitoris sp. nov., isolated from marine sand in a firth
More LessA Gram-stain-negative, non-spore-forming, strictly aerobic, non-flagellated, non-gliding, rod-shaped bacterial strain, designated SMS-12T, was isolated from marine sand in a firth on the western coast of South Korea. Strain SMS-12T grew optimally at 25 °C, at pH 7.0–7.5 and in the absence of NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain SMS-12T fell within the clade comprising species of the genus Mucilaginibacter , forming a coherent cluster with the type strain of Mucilaginibacter lappiensis , with which it exhibited the highest 16S rRNA gene sequence similarity value of 97.5 %. Levels of sequence similarity to the type strains of the other species of the genus Mucilaginibacter and the other species used in the phylogenetic analysis were 93.3–96.4 % and <91.5 %, respectively. Strain SMS-12T contained MK-7 as the predominant menaquinone, and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine and one unidentified aminophospholipid; sphingolipids were present. The DNA G+C content was 41.8 mol% and the mean DNA–DNA relatedness with M. lappiensis KACC 14978T was 13 %. Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain SMS-12T is separate from other species of the genus Mucilaginibacter . On the basis of the data presented, strain SMS-12T is considered to represent a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter sabulilitoris sp. nov. is proposed. The type strain is SMS-12T ( = KCTC 32111T = CCUG 62214T).
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Gramella aestuarii sp. nov., isolated from a tidal flat, and emended description of Gramella echinicola
More LessA Gram-staining-negative, yellow-pigmented, strictly aerobic bacterial strain motile by gliding, designated BS12T, was isolated from a tidal flat at Boseong, Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods. Growth was observed at 5–40 °C (optimum, 25 °C), at pH 5.5–9.0 (optimum, pH 7.0–7.5) and in the presence of 1–11 % (w/v) NaCl (optimum, 2–4 %). The major cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C17 : 1ω9c and anteiso-C15 : 0. The polar lipid pattern comprised phosphatidylethanolamine, four unidentified aminolipids and three unidentified lipids. The G+C content of the genomic DNA was 42.3 mol% and the only respiratory quinone was menaquinone 6. Phylogenetic inference based on 16S rRNA gene sequences showed that strain BS12T formed a tight phyletic lineage with members of the genus Gramella . Strain BS12T was most closely related to ‘ Gramella jeungdoensis’ HMD3159 with sequence similarity of 97.5 %, but the DNA–DNA relatedness value between the two strains was only 22.1±2.2 %. On the basis of phenotypic and molecular features, strain BS12T was shown to represent a novel species of the genus Gramella , for which the name Gramella aestuarii sp. nov. is proposed. The type strain is BS12T ( = KACC 16188T = JCM 17790T). An emended description of Gramella echinicola is also proposed.
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Aliifodinibius roseus gen. nov., sp. nov., and Aliifodinibius sediminis sp. nov., two moderately halophilic bacteria isolated from salt mine samples
Two rod-shaped, non-motile bacteria were isolated from two separate salt mines in Yunnan, south-western China. These strains, designated YIM D15T and YIM J21T, were Gram-negative and moderately halophilic. The two strains required 6–10 % NaCl (w/v; optimal) for growth. The DNA G+C contents of strains YIM D15T and YIM J21T were 49.0 mol% and 48.4 mol%, respectively. The predominant isoprenoid quinone was MK-7. The polar lipid profiles of strains YIM D15T and YIM J21T were composed predominantly of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, three unknown polar lipids and one glycolipid. Minor amounts of other lipids were also detectable. The predominant cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 1ω9c/10 methyl-C16 : 0 and C16 : 1ω7c/C16 : 1ω6c. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the two isolates formed a distinct clade with the genus Fodinibius (in the phylum Bacteroidetes ) and were related to the species Fodinibius salinus , with sequence similarities of 91.9–92.4 %. Analyses of 16S rRNA gene sequences revealed that strains YIM D15T and YIM J21T were related to each other (97.3 % sequence similarity). The DNA–DNA hybridization relatedness between the two isolates was 34 %. On the basis of the phylogenetic analysis, DNA–DNA hybridization relatedness, phenotypic and chemotaxonomic characteristics, strains YIM D15T and YIM J21T should be classified as members of a novel genus and as two novel species, for which the names Aliifodinibius roseus gen. nov., sp. nov. (type strain YIM D15T = ACCC 10715T = KCTC 23442T) and Aliifodinibius sediminis sp. nov. (type strain YIM J21T = ACCC 10714T = DSM 21194T) are proposed.
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Chryseobacterium ginsengisoli sp. nov., isolated from the rhizosphere of ginseng and emended description of Chryseobacterium gleum
More LessStrain DCY 63T, isolated from the rhizosphere of ginseng, was a Gram-reaction-negative, strictly aerobic, non-motile, catalase- and oxidase-positive rod. 16S rRNA gene sequence analysis revealed that strain DCY 63T belonged to the genus Chryseobacterium and was closely related to Chryseobacterium indoltheticum LMG 4025T (98.1 %), Chryseobacterium ginsenosidimutans THG 15T (98.0 %) and Chryseobacterium scophthalmum LMG 13028T (97.1 %). The major polar lipids of strain DCY 63T were phosphatidylethanolamine (PE), four unidentified aminolipids and three unidentified polar lipids, and the major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl). The predominant isoprenoid quinone of strain DCY 63T was MK-6 and the G+C content of the genomic DNA was 31.6 mol%. The DNA–DNA relatedness values between strain DCY 63T and C. indoltheticum LMG 4025T, C. ginsenosidimutans THG 15T and C. scophthalmum LMG 13028T were less than 30 %. On the basis of these data, strain DCY 63T is considered to represent a novel species of the genus Chryseobacterium , for which the name Chryseobacterium ginsengisoli sp. nov. is proposed. The type strain is DCY 63T ( = KCTC 23760T = JCM 18019T). An emended description of Chryseobacterium gleum is also proposed.
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Pustulibacterium marinum gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from the Bashi Channel
More LessA Gram-reaction-negative, non-spore-forming, gliding, non-translucent, colourless or yellow, aerobic and elevated-colony-forming strain, designated E403T, was isolated from the Bashi Channel and subjected to a polyphasic taxonomic study. Strain E403T could grow in the presence of 0.3–8 % (w/v) NaCl, at 16–43 °C and at pH 6–9, and grew optimally at 28 °C, pH 8, in natural seawater medium. The respiratory quinones were MK-6 and MK-7. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G, summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 3-OH and C16 : 0. The DNA G+C content of strain E403T was 37.9 mol%. Phylogenetic analyses based on 16S rRNA gene sequences of members of the family Flavobacteriaceae showed that strain E403T formed a distinct evolutionary lineage within the stable cluster containing type strains Zhouia amylolytica HN-171T (92.2 % similarity) and Joostella marina En5T (92.4 % similarity). In addition to the large 16S rRNA gene sequence differences, E403T can also be distinguished from the reference type strains J. marina En5T and Sinomicrobium oceani SCSIO 03483T by several phenotypic characteristics and chemotaxonomic properties. On the basis of phenotypic, chemotaxonomic and phylogenetic properties, strain E403T is suggested to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Pustulibacterium marinum gen. nov., sp. nov. is proposed. The type strain is E403T ( = CCTCC AB2012862T = CGMCC 1.12333T = KCTC 32192T).
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Winogradskyella pulchriflava sp. nov., isolated from marine sediment
A taxonomic study was conducted on strain EM106T, isolated from a sediment sample of the East Sea, Republic of Korea. Comparative 16S rRNA gene sequence analyses showed that strain EM106T belongs to the family Flavobacteriaceae and is most closely related to Winogradskyella echinorum KMM 6211T and Winogradskyella ulvae KMM 6390T (97.8 and 97.3 % 16S rRNA gene sequence similarities, respectively). The G+C content of the genomic DNA of strain EM106T was 33.3 mol%, and the major respiratory quinone was menaquinone-6. The polar lipids of EM106T were phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. DNA–DNA relatedness data indicated that strain EM106T represented a distinct species, separate from W. echinorum KMM 6211T and W. ulvae KMM 6390T. Strain EM106T possessed iso-C15 : 0, iso-C15 : 1 G and iso-C16 : 0 3-OH as the major cellular fatty acids. The isolate was Gram-staining-negative, strictly aerobic, short rod-shaped and motile by gliding. The strain grew at 10–35 °C (optimum, 25 °C), pH 6.5–9.0 (optimum, 7.5), and with 0.5–5 % (w/v) NaCl (optimum, 0.5–1 % NaCl). The overall physiological features of strain EM106T were very similar to those of W. echinorum KMM 6211T but only strain EM106T had nitrate reductase activity. On the basis of phenotypic and phylogenetic analyses, strain EM106T is proposed to represent a novel species, Winogradskyella pulchriflava. The type strain is EM106T( = KCTC 23858T = NCAIM B 02481T).
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- Eukaryotic Micro-organisms
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Citeromyces nyonsensis sp. nov., a novel yeast species isolated from black olive brine
More LessA yeast strain was isolated from olive brines in a fermented black olive and olive oil manufacturing plant in the town of Nyons (France). On the basis of domains 1 and 2 (D1/D2) large subunit (LSU) rRNA gene and internal transcribed spacer (ITS) region sequence analyses, the strain CLIB 1303T was found to be closely related, but clearly distinct, from the three existing species of the genus Citeromyces: Citeromyces matritensis, Citeromyces siamensis and Citeromyces haiwaiiensis. Strain CLIB 1303T exhibited 6 bp, 7 bp and 12 bp divergences in the D1/D2 LSU rRNA gene with C. siamensis, C. matritensis and C. hawaiiensis, respectively. ITS region divergence amounted to more than 8 %, 4 % and 4.5 % with C. siamensis, C. matritensis and C. hawaiiensis, respectively, in addition to several indels. Like C. matritensis and C. siamensis strains, strain CLIB 1303T was shown to be halotolerant and osmotolerant. Phenotypically, strain CLIB 1303T can be distinguished from other species of the genus Citeromyces by its inability to assimilate trehalose. The strain CLIB 1303T ( = CBS 12700T) was assigned to a novel species, Citeromyces nyonsensis sp. nov.
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The reassignment of three ‘lost’ Taphrina species (Taphrina bullata, Taphrina insititiae and Taphrina rhizophora) supported by the divergence of nuclear and mitochondrial DNA
More LessThe ascomycetous genus Taphrina Fries originally contained more than 90 phytopathogenic microscopic dimorphic ascomycetes causing specific infections in different vascular plants. Although species have mainly been identified historically according to their host and morphological and physiological traits, they can be studied and preserved in the form of yeasts arising from germinating ascospores. Due to low DNA sequence divergence and the lack of available strains, the number of accepted Taphrina species has currently been reduced to 28. The aim of this study is the description of three previously accepted species. Taphrina bullata (type strain CCY 58-4-1 = CBS 12783), Taphrina insititiae (type strain CCY 58-5-1 = CBS 12782) and Taphrina rhizophora (type strain CCY 58-6-1 = CBS 12781), which have been omitted from a recent key. The host range, the divergence of the 26S rRNA gene sequence, internal transcribed spacers (ITS) and the mitochondrial small ribosomal subunit (rns) sequence strongly support their reassignment as species.
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Wickerhamiella slavikovae sp. nov. and Wickerhamiella goesii sp. nov., two yeast species isolated from natural substrates
Two novel yeast species were isolated during three independent studies of yeasts associated with natural substrates in Brazil and Taiwan. Analysis of the sequences of the D1/D2 domains of the large subunit rRNA gene showed that these novel species belong to the Wickerhamiella clade. The first was isolated from freshwater and a leaf of sugar cane (Saccharum officinarum) in Brazil and from leaves of Wedelia biflora in Taiwan. Described here as Wickerhamiella slavikovae sp. nov., it differs by 56 nucleotide substitutions and 19 gaps in the D1/D2 region of the large subunit rRNA gene from Candida sorbophila, the least divergent species. The second species, named Wickerhamiella goesii sp. nov., was isolated from leaves and the rhizosphere of sugar cane collected in Rio de Janeiro, Brazil. The species differs by 54 nucleotide substitutions and nine gaps in the D1/D2 domains from Candida drosophilae, its least divergent relative. The type strains are Wickerhamiella slavikovae sp. nov. IMUFRJ 52096T ( = CBS 12417T = DBVPG 8032T) and Wickerhamiella goesii sp. nov. IMUFRJ 52102T ( = CBS 12419T = DBVPG 8034T).
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The yeast genus Tortispora gen. nov., description of Tortispora ganteri sp. nov., Tortispora mauiana f.a., sp. nov., Tortispora agaves f.a., sp. nov., Tortispora sangerardonensis f.a., sp. nov., Tortispora cuajiniquilana f.a., sp. nov., Tortispora starmeri f.a., sp. nov. and Tortispora phaffii f.a., sp. nov., reassignment of Candida caseinolytica to Tortispora caseinolytica f.a., comb. nov., emendation of Botryozyma, and assignment of Botryozyma, Tortispora gen. nov. and Trigonopsis to the family Trigonopsidaceae fam. nov.
More LessWe describe the yeast genus Tortispora gen. nov., an early-diverging lineage in the Saccharomycetales that displays the formation of helical ascospores. The genus is based on 16 strains resembling Candida caseinolytica that were isolated from necrotic plant tissue in warm regions of the New World. Based on sequences of the D1/D2 domains of the nuclear large subunit rRNA gene, as well as other data, the strains are assigned to eight distinct species. The species are nutritionally specialized and share the unusual ability to hydrolyse casein and to grow on 1-butanol as sole carbon source. One species of the proposed new genus produces a simple ascus with a helical ascospore, whereas other species of the clade have failed to form ascospores. All species in the clade, including C. caseinolytica, are assigned to Tortispora gen. nov. The new binomials are Tortispora ganteri sp. nov., type species of the genus (SUB 86-469.5T = CBS 12581T = NRRL Y-17035T), Tortispora caseinolytica f.a., comb. nov. (UCD-FST 83-438.3T = CBS 7781T = NRRL Y-17796T), Tortispora mauiana f.a., sp. nov. (UWOPS 87-2430.3T = CBS 12803T = NRRL Y-48832T), Tortispora agaves f.a., sp. nov. (UWOPS 94-257.6T = CBS 12794T = NRRL Y-63662T), Tortispora sangerardonensis f.a., sp. nov. (UWOPS 00-157.1T = CBS 12795T = NRRL Y-63663T), Tortispora cuajiniquilana f.a., sp. nov. (UWOPS 99-344.4T = CBS 12796T = NRRL Y-63664T), Tortispora starmeri f.a., sp. nov. (G 91-702.5T = CBS 12793T = NRRL Y-63665T) and Tortispora phaffii f.a., sp. nov. (UWOPS 91-445.1T = CBS 12804T = NRRL Y-48833T). In addition, species formerly assigned to the genus Ascobotryozyma are reassigned to the genus Botryozyma. The genera Trigonopsis, Botryozyma and Tortispora are assigned to the family Trigonopsidaceae fam. nov.
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Ogataea kolombanensis sp. nov., Ogataea histrianica sp. nov. and Ogataea deakii sp. nov., three novel yeast species from plant sources
More LessNine methanol-assimilating yeast strains isolated from olive oil sediments in Slovenia, extra virgin olive oil from Italy and rotten wood collected in Hungary were found to form three genetically separated groups, distinct from the currently recognized yeast species. Sequence analysis from genes of the small subunit (SSU) rRNA, internal transcribed spacer region/5.8S rRNA, large subunit (LSU) rRNA D1/D2 domains and translational elongation factor-1α (EF-1α) revealed that the three closely related groups represent three different undescribed yeast species. Sequence analysis of the LSU rRNA gene D1/D2 domains placed the novel species in the Ogataea clade. The three novel species are designated as Ogataea kolombanensis sp. nov. (type strain: ZIM 2322T = CBS 12778T = NRRL Y-63657T), Ogataea histrianica sp. nov. (type strain: ZIM 2463T = CBS 12779T = NRRL Y-63658T) and Ogataea deakii sp. nov. (type strain: NCAIM Y.01896T = CBS 12735T = NRRL Y-63656T).
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- Firmicutes and Related Organisms
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Bacillus halosaccharovorans sp. nov., a moderately halophilic bacterium from a hypersaline lake
A novel Gram-stain-positive, moderately halophilic bacterium, designated strain E33T, was isolated from water of the hypersaline lake Aran-Bidgol in Iran and characterized taxonomically using a polyphasic approach. Cells of strain E33T were motile rods and produced ellipsoidal endospores at a central or subterminal position in swollen sporangia. Strain E33T was a strictly aerobic bacterium, catalase- and oxidase-positive. The strain was able to grow at NaCl concentrations of 0.5–25 % (w/v), with optimum growth occurring at 5–15 % (w/v) NaCl. The optimum temperature and pH for growth were 40 °C and pH 7.5–8.0, respectively. On the basis of 16S rRNA gene sequence analysis, strain E33T was shown to belong to the genus Bacillus within the phylum Firmicutes and showed the closest phylogenetic similarity with the species Bacillus niabensis 4T19T (99.2 %), Bacillus herbersteinensis D-1-5aT (97.3 %) and Bacillus litoralis SW-211T (97.2 %). The DNA G+C content of the type strain of the novel species was 42.6 mol%. The major cellular fatty acids of strain E33T were anteiso-C15 : 0 and iso-C15 : 0, and the polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylglycerol, two unknown glycolipids, an unknown lipid and an unknown phospholipid. The isoprenoid quinones were MK-7 (97 %), MK-6 (2 %) and MK-8 (0.5 %). The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. All these features confirm the placement of isolate E33T within the genus Bacillus . DNA–DNA hybridization experiments revealed low levels of relatedness between strain E33T and Bacillus niabensis IBRC-M 10590T (22 %), Bacillus herbersteinensis CCM 7228T (38 %) and Bacillus litoralis DSM 16303T (19 %). On the basis of polyphasic evidence from this study, a novel species of the genus Bacillus , Bacillus halosaccharovorans sp. nov. is proposed, with strain E33T ( = IBRC-M 10095T = DSM 25387T) as the type strain.
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Streptococcus orisasini sp. nov. and Streptococcus dentasini sp. nov., isolated from the oral cavity of donkeys
More LessFour Gram-positive, catalase-negative, coccoid isolates that were obtained from donkey oral cavities formed two distinct clonal groups when characterized by phenotypic and phylogenetic studies. From the results of biochemical tests, the organisms were tentatively identified as a streptococcal species. Comparative 16S rRNA gene sequencing studies confirmed the organisms to be members of the genus Streptococcus . Two of the isolates were related most closely to Streptococcus ursoris with 95.6 % similarity based on the 16S rRNA gene and to Streptococcus ratti with 92.0 % similarity based on the 60 kDa heat-shock protein gene (groEL). The other two isolates, however, were related to Streptococcus criceti with 95.0 and 89.0 % similarities based on the 16S rRNA and groEL genes, respectively. From both phylogenetic and phenotypic evidence, the four isolates formed two distinct clonal groups and are suggested to represent novel species of the genus Streptococcus . The names proposed for these organisms are Streptococcus orisasini sp. nov. (type strain NUM 1801T = JCM 17942T = DSM 25193T) and Streptococcus dentasini sp. nov. (type strain NUM 1808T = JCM 17943T = DSM 25137T).
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Cohnella formosensis sp. nov., a xylanolytic bacterium isolated from the rhizosphere of Medicago sativa L
A Gram-positive, spore-forming, aerobic, rod-shaped, xylanolytic bacterium designated strain CC-Alfalfa-35T was isolated from the rhizosphere of Medicago sativa L. in Taiwan. Phylogenetic analysis based on 16S rRNA gene sequence showed that strain CC-Alfalfa-35T was affiliated to the genus Cohnella . Strain CC-Alfalfa-35T shared 95.3 % pairwise 16S rRNA gene sequence similarity to the type strain of the type species of the genus Cohnella ( Cohnella thermotolerans DSM 17683T) besides showing a similarity of 97.4–93.6 % with other recognized species of the genus Cohnella . The DNA–DNA hybridization value between CC-Alfalfa-35T and Cohnella thailandensis KCTC 22296T was 37.7 %±1.7 % (reciprocal value, 55.7 %±3.0 %). Predominant cellular fatty acids were iso-C16 : 0 and anteiso-C15 : 0. The polar lipid profile constituted diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, lysyl-phosphatidylglycerol, three unidentified phospholipids and three unidentified aminophospholipids. The major respiratory quinone was MK-7 and the DNA G+C content was 58.3 mol%. Strain CC-Alfalfa-35T contained meso-diaminopimelic acid as the major diamino acid in the cell-wall peptidoglycan. Based on the polar lipid and fatty acid profiles, which were in line with those of C. thermotolerans DSM 17683T, coupled with additional distinguishing genotypic, phenotypic and chemotaxonomic features, strain CC-Alfalfa-35T is proposed to represent a novel species within the genus Cohnella , for which the name Cohnella formosensis sp. nov. is proposed. The type strain is CC-Alfalfa-35T ( = JCM 18405T = BCRC 80428T).
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‘ Candidatus Phytoplasma solani’, a novel taxon associated with stolbur- and bois noir-related diseases of plants
Phytoplasmas classified in group 16SrXII infect a wide range of plants and are transmitted by polyphagous planthoppers of the family Cixiidae. Based on 16S rRNA gene sequence identity and biological properties, group 16SrXII encompasses several species, including ‘Candidatus Phytoplasma australiense ’, ‘Candidatus Phytoplasma japonicum ’ and ‘Candidatus Phytoplasma fragariae ’. Other group 16SrXII phytoplasma strains are associated with stolbur disease in wild and cultivated herbaceous and woody plants and with bois noir disease in grapevines (Vitis vinifera L.). Such latter strains have been informally proposed to represent a separate species, ‘Candidatus Phytoplasma solani’, but a formal description of this taxon has not previously been published. In the present work, stolbur disease strain STOL11 (STOL) was distinguished from reference strains of previously described species of the ‘Candidatus Phytoplasma ’ genus based on 16S rRNA gene sequence similarity and a unique signature sequence in the 16S rRNA gene. Other stolbur- and bois noir-associated (‘Ca. Phytoplasma solani’) strains shared >99 % 16S rRNA gene sequence similarity with strain STOL11 and contained the signature sequence. ‘Ca. Phytoplasma solani’ is the only phytoplasma known to be transmitted by Hyalesthes obsoletus. Insect vectorship and molecular characteristics are consistent with the concept that diverse ‘Ca. Phytoplasma solani’ strains share common properties and represent an ecologically distinct gene pool. Phylogenetic analyses of 16S rRNA, tuf, secY and rplV–rpsC gene sequences supported this view and yielded congruent trees in which ‘Ca. Phytoplasma solani’ strains formed, within the group 16SrXII clade, a monophyletic subclade that was most closely related to, but distinct from, that of ‘Ca. Phytoplasma australiense ’-related strains. Based on distinct molecular and biological properties, stolbur- and bois noir-associated strains are proposed to represent a novel species level taxon, ‘Ca. Phytoplasma solani’; STOL11 is designated the reference strain.
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Paenisporosarcina indica sp. nov., a psychrophilic bacterium from a glacier, and reclassification of Sporosarcina antarctica Yu et al., 2008 as Paenisporosarcina antarctica comb. nov. and emended description of the genus Paenisporosarcina
More LessA Gram-stain-positive, aerobic, spore-forming, rod-shaped bacterium, PN2T, was isolated from a soil sample collected near the Pindari glacier. It contained anteiso-C15 : 0, iso-C15 : 0 and C16 : 1ω7c alcohol as the predominant fatty acids, MK-7 as the major menaquinone and A4α type (l-Lys–d-Glu) peptidoglycan. Based on these characteristics, strain PN2T was assigned to the genus Paenisporosarcina . Phylogenetic analysis based on 16S rRNA gene sequence placed strain PN2T within the genus Paenisporosarcina and showed a sequence similarity of 98.5–99.0 % with members of this genus. Paenisporosarcina macmurdoensis CMS 21wT, Paenisporosarcina quisquiliarum SK 55T and Sporosarcina antarctica N-05T were identified as the most closely related species with 16S rRNA gene sequence similarities of 98.6 %, 99.0 % and 98.4 %, respectively. The values for DNA–DNA relatedness between strain PN2T and P. macmurdoensis , P. quisquiliarum and S. antarctica were below the 70 % threshold value (32.0 %, 42.0 % and 38.0 % respectively). In addition, strain PN2T exhibited a number of phenotypic differences from P. macmurdoensis , P. quisquiliarum and S. antarctica . Based on the cumulative differences, strain PN2T was identified as representing a novel species and the name Paenisporosarcina indica sp. nov. was proposed. The type strain of Paenisporosarcina indica sp. nov. is PN2T (LMG 23933T = JCM 15114T). Furthermore, based on the morphological and chemotaxonomic characteristics, the species Sporosarcina antarctica was reclassified as a species of the genus Paenisporosarcina and renamed Paenisporosarcina antarctica comb. nov. In addition, an emended description of the genus Paenisporosarcina is presented.
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Fictibacillus phosphorivorans gen. nov., sp. nov. and proposal to reclassify Bacillus arsenicus , Bacillus barbaricus , Bacillus macauensis , Bacillus nanhaiensis , Bacillus rigui , Bacillus solisalsi and Bacillus gelatini in the genus Fictibacillus
More LessA Gram-positive-staining, aerobic, endospore-forming bacterium (Ca7T) was isolated from a bioreactor showing extensive phosphorus removal. Based on 16S rRNA gene sequence similarity comparisons, strain Ca7T was grouped in the genus Bacillus , most closely related to Bacillus nanhaiensis JSM 082006T (100 %), Bacillus barbaricus V2-BIII-A2T (99.2 %) and Bacillus arsenicus Con a/3T (97.7 %). Moderate 16S rRNA gene sequence similarities were found to the type strains of the species Bacillus gelatini and Bacillus rigui (96.4 %), Bacillus macauensis (95.1 %) and Bacillus solisalsi (96.1 %). All these species were grouped into a monophyletic cluster and showed very low sequence similarities (<94 %) to the type species of the genus Bacillus , Bacillus subtilis . The quinone system of strain Ca7T consists predominantly of menaquinone MK-7. The polar lipid profile exhibited the major compounds diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. In addition, minor compounds of an unidentified phospholipid and an aminophospholipid were detected. No glycolipids were found in strain Ca7T, which was consistent with the lipid profiles of B. nanhaiensis , B. barbaricus , B. arsenicus , B. rigui , B. solisalsi , B. macauensis and B. gelatini , but in contrast to B. subtilis . The diagnostic diamino acid of the peptidoglycan was meso-diaminopimelic acid and the polyamine pattern contained predominantly spermidine and spermine. The major fatty acids, which were iso-C15 : 0, anteiso-C15 : 0 and C16 : 0, supported the grouping of strain Ca7T in the family Bacillaceae . The strain showed DNA–DNA similarities of 48 % (reciprocal 47 %) to B. nanhaiensis DSM 23009T, 31 % (reciprocal 36 %) to B. barbaricus V2-BIII-A2T and 29 % (reciprocal 39 %) to B. arsenicus DSM 15822T, respectively. These results clearly demonstrate that strain Ca7T is a representative of a novel species, which can be differentiated from its closest relatives by physiological and biochemical tests. Because of the low sequence similarity of strain Ca7T to B. subtilis , which was shared by B. nanhaiensis , B. barbaricus , B. arsenicus , B. gelatini , B. rigui , B. solisalsi and B. macauensis , and their unique lipid patterns, we propose that strain Ca7T represents a novel species in a novel genus for which the name Fictibacillus phosphorivorans gen. nov., sp. nov. is proposed. The type strain is Ca7T ( = CCM 8426T = LMG 27063T). In addition we propose the reclassification of B. nanhaiensis , B. barbaricus , B. arsenicus , B. rigui , B. macauensis , B. solisalsi and B. gelatini as Fictibacillus nanhaiensis comb. nov., Fictibacillus barbaricus comb. nov., Fictibacillus arsenicus comb. nov., Fictibacillus rigui comb. nov., Fictibacillus macauensis comb. nov., Fictibacillus solisalsi comb. nov. and Fictibacillus gelatini comb. nov., respectively [type strains JSM 082006T ( = DSM 23009T = KCTC 13712T), V2-BIII-A2T ( = CCM 4982T = DSM 14730T), Con a/3T ( = MTCC 4380T = DSM 15822T = JCM 12167T), WPCB074T ( = KCTC 13278T = JCM 16348T), ZFHKF-1T ( = JCM 13285T = DSM 17262T), YC1T ( = KCTC 13181T = CGMCC 1.6854T) and LMG 21881T ( = DSM 15866T), respectively].
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Weissella diestrammenae sp. nov., isolated from the gut of a camel cricket (Diestrammena coreana)
A novel, Gram-stain-positive, non-motile, facultatively anaerobic, rod- or coccoid-shaped bacterium, designated strain ORY33T, was isolated from the gut of a camel cricket (Diestrammena coreana). The 16S rRNA gene sequence analysis showed that strain ORY33T belonged to the genus Weissella , with highest sequence similarity to Weissella koreensis S-5623T (97.7 %). The strain grew optimally at 30 °C and pH 7 in the presence of 0 % (w/v) NaCl. Catalase and oxidase activities were negative. The genomic DNA G+C content of strain ORY33T was 45.1 mol%. DNA–DNA hybridization values between strain ORY33T and closely related members of the genus Weissella were less than 27 %. The major fatty acids of strain ORY33T were C18 : 1ω9c, C16 : 0 and C14 : 0. Based on these phenotypic, phylogenetic and genotypic analyses, strain ORY33T represents a novel species belonging to the genus Weissella , for which the name Weissella diestrammenae sp. nov. is proposed. The type strain is ORY33T ( = KACC 16890T = JCM 18559T).
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Lactobacillus oryzae sp. nov., isolated from fermented rice grain (Oryza sativa L. subsp. japonica)
The taxonomic position of three Lactobacillus -like micro-organisms (strains SG293T, SG296 and SG310) isolated from fermented rice grain (Oryza sativa L. subsp. japonica) in Japan was investigated. These heterofermentative lactic acid bacteria were Gram-stain-positive, rod-shaped, facultatively anaerobic, non-motile, non-spore-forming and did not show catalase activity. 16S rRNA gene sequence analysis of strain SG293T revealed that the type strains of Lactobacillus malefermentans (98.3 %), Lactobacillus odoratitofui (96.2 %), Lactobacillus similis (96.1 %), Lactobacillus kimchicus (96.1 %), Lactobacillus paracollinoides (95.9 %) and Lactobacillus collinoides (95.7 %) were the closest neighbours. Additional phylogenetic analysis on the basis of pheS and rpoA gene sequences, as well as biochemical and physiological characteristics, indicated that these three strains were members of the genus Lactobacillus and that the novel isolates had a unique taxonomic position. The predominant cellular fatty acids were C18 : 1ω9c and C19 : 1 cyclo 9,10. Because low DNA–DNA hybridization values among the isolates and Lactobacillus malefermentans JCM 12497T were observed, it is proposed that these unidentified isolates be classified as a novel species of the genus Lactobacillus , Lactobacillus oryzae sp. nov. The type strain is SG293T ( = JCM 18671T = DSM 26518T).
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Vallitalea guaymasensis gen. nov., sp. nov., isolated from marine sediment
A novel obligately anaerobic, non-spore-forming, rod-shaped mesophilic, halophilic, Gram-stain-negative bacterium, was isolated from sediments of Guaymas Basin. The strain, designated Ra1766G1T, grew at 20–40 °C (optimum, 30–35 °C) and at pH 6.0–8.0 (optimum, pH 6.5–7.5). It required 0.5–7.5 % NaCl (optimum, 2–3 %) for growth. Sulfate, thiosulfate, elemental sulfur, sulfite, fumarate, nitrate and nitrite were not used as terminal electron acceptors. Strain Ra1766G1T used cellobiose, glucose, mannose, maltose, arabinose, raffinose, galactose, ribose, sucrose, pyruvate and xylose as electron donors. The main fermentation product from glucose metabolism was acetate. The predominant cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0, anteiso DMA-C15 : 0 and C16 : 0. The main polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, iso-DMA-C15 : 0 glycolipids and phospholipids. The G+C content of the genomic DNA was 31.2 mol%. The closest phylogenetic relatives of strain Ra1766G1T were Natranaerovirga pectinivora AP3T (92.4 % 16S rRNA gene sequence similarity), Natranaerovirga hydrolytica APP2T(90.2 %) and Defluviitalea saccharophila 6LT2T (88.9 %). On the basis of phylogenetic inference and phenotypic properties, strain Ra1766G1T represents a novel species of a new genus for which the name Vallitalea guaymasensis is proposed. The type strain of the type species is Ra1766G1T ( = DSM 24848T = JCM17997T).
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Bacillus thermocopriae sp. nov., isolated from a compost
More LessA Gram-reaction-positive, facultatively anaerobic, motile, endospore-forming, rod-shaped strain, designated SgZ-7T, was isolated from a windrow compost pile and was characterized by means of a polyphasic approach. Growth occurred with 0–3 % (w/v) NaCl (optimum 1 %), at pH 6.0–10.0 (optimum pH 7.2) and at 40–60 °C (optimum 50 °C). The main respiratory quinone was MK-7. The predominant polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The DNA G+C content was 46.6 mol%. The phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strain SgZ-7T should be assigned to the genus Bacillus and was related most closely to Bacillus drentensis LMG 21831T (sequence similarity 97.2 %). The result of the DNA–DNA hybridization experiment revealed a low relatedness (27.2 %) between the isolate and B. drentensis LMG 21831T. The results of phenotypic, chemotaxonomic and genotypic analyses clearly indicated that strain SgZ-7T represents a novel species, for which the name Bacillus thermocopriae sp. nov. is proposed. The type strain is SgZ-7T ( = CCTCC AB 2012030T = KACC 16700T).
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Bacillus composti sp. nov. and Bacillus thermophilus sp. nov., two thermophilic, Fe(III)-reducing bacteria isolated from compost
More LessTwo novel thermophilic bacteria, designated SgZ-9T and SgZ-10T, were isolated from compost. Cells of the two strains were catalase-positive, endospore-forming and Gram-staining-positive rods. Strain SgZ-9T was oxidase-positive and non-motile, and strain SgZ-10T was oxidase-negative and motile. The highest 16S rRNA gene sequence similarity for both strains SgZ-9T and SgZ-10T was observed with Bacillus fortis (97.5 % and 96.9 %, respectively). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SgZ-9T formed a cluster with B. fortis R-6514T and Bacillus fordii R-7190T, and SgZ-10T formed a cluster with Bacillus farraginis R-6540T. The DNA–DNA pairing studies showed that SgZ-9T displayed 41.6 % and 30.7 % relatedness to the type strains of B. fortis and B. fordii , respectively. The 16S rRNA gene sequence similarity between strains SgZ-9T and SgZ-10T was 97.2 %, and the level of DNA–DNA relatedness between them was 39.2 %. The DNA G+C content of SgZ-9T and SgZ-10T was 45.3 and 47.9 mol%, respectively. Chemotaxonomic analysis revealed that both strains contained the menaquinone 7 (MK-7) as the predominant respiratory quinone. The major cellular fatty acids (>5 %) were iso-C15 : 0, anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and iso-C17 : 0 in SgZ-9T and iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0, anteiso-C17 : 0 and iso-C16 : 0 in SgZ-10T. Based on the phenotypic characteristics, chemotaxonomic features, DNA–DNA hybridization with the nearest phylogenetic neighbours and phylogenetic analysis based on the 16S rRNA gene sequences, the two strains were determined to be two distinct novel species in the genus Bacillus , and the names proposed are Bacillus composti sp. nov. SgZ-9T ( = CCTCC AB2012109T = KACC 16872T) and Bacillus thermophilus sp. nov. SgZ-10T (CCTCC AB2012110T = KACC 16873T).
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Enterococcus alcedinis sp. nov., isolated from common kingfisher (Alcedo atthis)
Two Gram-positive, catalase-negative bacterial strains were isolated from the cloaca of common kingfishers (Alcedo atthis). Repetitive sequence-based PCR fingerprinting using the (GTG)5 primer grouped these isolates into a single cluster separated from all known enterococcal species. The two strains revealed identical 16S rRNA gene sequences placing them within the genus Enterococcus with Enterococcus aquimarinus LMG 16607T as the closest relative (97.14 % similarity). Further taxonomic investigation using sequencing of the genes for the superoxide dismutase (sodA), phenylalanyl-tRNA synthase alpha subunit (pheS) and the RNA polymerase alpha subunit (rpoA) as well as application of whole-cell protein fingerprinting, automated ribotyping and extensive phenotyping confirmed that both strains belong to the same species. Based on data from this polyphasic study, these strains represent a novel species of the genus Enterococcus , for which the name Enterococcus alcedinis sp. nov. is proposed. The type strain is L34T ( = CCM 8433T = LMG 27164T).
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- Other Bacteria
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Ardenticatena maritima gen. nov., sp. nov., a ferric iron- and nitrate-reducing bacterium of the phylum ‘ Chloroflexi ’ isolated from an iron-rich coastal hydrothermal field, and description of Ardenticatenia classis nov.
A novel thermophilic, chemoheterotrophic, Gram-negative-staining, multicellular filamentous bacterium, designated strain 110ST, was isolated from an iron-rich coastal hydrothermal field in Japan. The isolate is facultatively aerobic and chemoheterotrophic. Phylogenetic analysis using 16S rRNA gene sequences nested strain 110ST in a novel class-level clone cluster of the phylum ‘ Chloroflexi ’. The isolate grows by dissimilatory iron- and nitrate-reduction under anaerobic conditions, which is the first report of these abilities in the phylum ‘ Chloroflexi ’. The organism is capable of growth with oxygen, ferric iron and nitrate as a possible electron acceptor, has a wide range of growth temperatures, and tolerates higher NaCl concentrations for growth compared to the other isolates in the phylum. Using phenotypic and phylogenetic data, strain 110ST ( = JCM 17282T = NBRC 107679T = DSM 23922T = KCTC 23289T = ATCC BAA-2145T) is proposed as the type strain of a novel species in a new genus, Ardenticatena maritima gen. nov., sp. nov. In addition, as strain 110ST apparently constitutes a new class of the phylum ‘ Chloroflexi ’ with other related uncultivated clone sequences, we propose Ardenticatenia classis nov. and the subordinate taxa Ardenticatenales ord. nov. and Ardenticatenaceae fam. nov.
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Mesotoga infera sp. nov., a mesophilic member of the order Thermotogales , isolated from an underground gas storage aquifer
Strain VNs100T, a novel mesophilic, anaerobic, rod-coccoid-shaped bacterium, having a sheath-like outer structure (toga), was isolated from a water sample collected in the area of an underground gas storage aquifer. It was non-motile with cells appearing singly (2–4 µm long×1–2 µm wide), in pairs or as long chains and stained Gram-negative. Strain VNs100T was heterotrophic, able to use arabinose, cellobiose, fructose, galactose, glucose, lactose, lactate, mannose, maltose, raffinose, ribose, sucrose and xylose as energy sources only in the presence of elemental sulfur as terminal electron acceptor. Acetate, CO2 and sulfide were the end products of sugar metabolism. Hydrogen was not detected. Elemental sulfur, but not thiosulfate, sulfate or sulfite, were reduced to sulfide. Strain VNs100T grew at temperatures between 30 and 50 °C (optimum 45 °C), at pH values between 6.2 and 7.9 (optimum 7.3–7.5) and at NaCl concentrations between 0 and 15 g l−1 (optimum 2 g l−1). The DNA G+C content was 47.5 mol%. The main cellular fatty acid was C16 : 0. Phylogenetic analysis of the small subunit rRNA gene sequence indicated that strain VNs100T had as its closest relatives ‘ Mesotoga sulfurireducens’ (97.1 % similarity) and Mesotoga prima (similarity of 97.1 % and 97.7 % with each of its two genes, respectively) within the order Thermotogales . Hybridization between strain VNS100T and ‘M. sulfurireducens’ and between strain VNS100T and M. prima showed 12.9 % and 20.6 % relatedness, respectively. Based on phenotypic, phylogenetic and taxonomic characteristics, strain VNs100T is proposed as a representative of a novel species of the genus Mesotoga in the family Thermotogaceae , order Thermotogales . The name Mesotoga infera sp. nov. is proposed. The type strain is VNs100T ( = DSM 25546T = JCM 18154T).
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Brevifollis gellanilyticus gen. nov., sp. nov., a gellan-gum-degrading bacterium of the phylum Verrucomicrobia
More LessThe taxonomic properties of strain DC2c-G4T, a Gram-staining-negative, ovoid, gellan-gum-degrading bacterial isolate, were examined. Phylogenetic analysis based on 16S rRNA gene sequences identified this isolate as a member of the phylum Verrucomicrobia and closest to the genus Prosthecobacter . The 16S rRNA gene sequence similarities between this isolate and any of the type strains of species of the genus Prosthecobacter were less than 95 %. In addition, the absence of a single prostheca and the predominant menaquinone MK-7(H2) supported the differentiation of this isolate from the genus Prosthecobacter . Here, we propose Brevifollis gellanilyticus gen. nov., sp. nov. to accommodate the isolate. The type strain of the type species is DC2c-G4T ( = NBRC 108608T = CIP 110457T).
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- Proteobacteria
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Mesorhizobium sangaii sp. nov., isolated from the root nodules of Astragalus luteolus and Astragalus ernestii
More LessOur previous published data indicated that the two rhizobial strains SCAU7T and SCAU27, which were isolated from the root nodules of Astragalus luteolus and Astragalus ernestii respectively, in Sichuan Province, China, might be novel species of the genus Mesorhizobium . Their exact taxonomic position was determined in the present study by using polyphasic approaches. Comparative analysis of nearly full-length 16S rRNA gene sequences showed that these strains belonged to the genus Mesorhizobium , with Mesorhizobium ciceri USDA 3383T, Mesorhizobium loti NZP 2213T, Mesorhizobium shangrilense CCBAU 65327T and Mesorhizobium australicum WSM2073T as the closest neighbours (>99 % 16S rRNA gene sequence similarity). Phylogenies of the housekeeping genes atpD and recA confirmed their distinct position, showing low similarity with respect to those of M. loti LMG 6125T (96.5 % and 92.3 % similarity respectively), M. ciceri USDA 3383T (96.8 % and 93.3 % similarity, respectively), M. shangrilense CCBAU 65327T (96.5 % and 92.7 % similarity, respectively) and M. australicum WSM2073T (95.4 % and 90.6 % similarity, respectively). The DNA–DNA relatedness values between strain SCAU7T and strain SCAU27 were 83.0 %, showing that they belong to the same species. The DNA–DNA relatedness values of SCAU7T with M. loti NZP 2213T, M. ciceri USDA 3383T and M. shangrilense CCBAU 65327T were 41.1 %, 48.8 % and 23.4 %, respectively, clearly indicating that strain SCAU7T represents a novel species. A series of phenotypic and genotypic tests and comparison of cellular fatty acids indicated that the novel group of isolates was distinct from previously described species. Therefore, we propose that strains SCAU7T and SCAU27 represent a novel species of the genus Mesorhizobium , Mesorhizobium sangaii sp. nov., with strain SCAU7T ( = HAMBI 3318T = ACCC 13218T) as the type strain.
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Iodobacter arcticus sp. nov., a psychrotolerant bacterium isolated from meltwater stream sediment of an Arctic glacier
More LessTwo novel violet-pigmented, Gram-negative, rod-shaped, non-motile bacteria, designated strains M4-16T and M4-9, were isolated from sediment from an Arctic glacier. The predominant fatty acids of both strains were C16 : 1ω7c and/or C16 : 1ω6c (summed feature 3), C16 : 0, C14 : 0 and C18 : 1ω7c and/or C18 : 1ω6c (summed feature 8) and both strains contained ubiquinone-8 as the respiratory quinone. The polar lipids consisted of phosphatidylethanolamine, two unidentified phospholipids and one unidentified aminolipid. 16S rRNA gene sequence analysis indicated that strains M4-16T and M4-9 were members of the genus Iodobacter and closely related to Iodobacter fluviatilis ATCC 33051T with pairwise sequence similarity of 98.9 %. The DNA–DNA relatedness between strains M4-9 and M4-16T was 92.5 %, while strains M4-9 and M4-16T had DNA–DNA relatedness values of 21.5 and 18.2 %, respectively, with Iodobacter fluviatilis JCM 9044T. The RAPD-PCR banding patterns of strains M4-9 and M4-16T were similar but differed from that of Iodobacter fluviatilis JCM 9044T. Based on data from the current polyphasic study, strains M4-16T and M4-9 represent a novel species of the genus Iodobacter , for which the name Iodobacter arcticus sp. nov. is proposed. The type strain of Iodobacter arcticus is M4-16T ( = CIP 1103011T = MTCC 11351T).
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Reclassification of [Glaciecola] lipolytica and [ Aestuariibacter] litoralis in Aliiglaciecola gen. nov., as Aliiglaciecola lipolytica comb. nov. and Aliiglaciecola litoralis comb. nov., respectively
Following phylogenetic analysis based on 16S rRNA gene sequences, together with DNA G+C contents and differential chemotaxonomic and physiological characteristics, a new genus with the name Aliiglaciecola gen. nov. is proposed to more appropriately accommodate two recognized species of the genera Glaciecola and Aestuariibacter . Accordingly, [Glaciecola] lipolytica and [ Aestuariibacter] litoralis should be reassigned to the novel genus as Aliiglaciecola lipolytica comb. nov. (type strain, E3T = JCM 15139T = CGMCC 1.7001T) and Aliiglaciecola litoralis comb. nov. (type strain, KMM 3894T = JCM 15896T = NRIC 0754T), respectively. Aliiglaciecola lipolytica is proposed as the type species of this new genus. Physiologically, the combined characteristics of positive reactions for nitrate reduction and growth at 4 °C and 36 °C distinguish the new genus from the genera Aestuariibacter and Glaciecola by one to three traits. Moreover, the new genus is also distinguished from the genus Glaciecola by the fatty acid profile and distinguished from the genus Aestuariibacter by the differences of major isoprenoid quinone (MK-7 vs Q-8) and DNA G+C content (40.8–43.0 mol% vs 48.0–54.0 mol%).
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Defluviimonas aestuarii sp. nov., a marine bacterium isolated from a tidal flat, and emended description of the genus Defluviimonas Foesel et al. 2011
More LessA novel Gram-staining-negative, strictly aerobic bacterium, designated BS14T, was isolated from a marine tidal flat of the South Sea in Korea. Colonies were opaque, white, smooth and circular on marine agar. Cells were moderately halophilic, non-motile rods showing catalase- and oxidase-positive reactions. Growth of strain BS14T was observed at 5–40 °C (optimum: 30 °C), pH 6.5–9.5 (optimum: 7.0–7.5) and 0–10 % (w/v) NaCl (optimum: 1–1.5 %). The G+C content of the genomic DNA was 61.6 mol%. Strain BS14T contained ubiquinone-10 (Q-10) as the sole respiratory quinone and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c), C18 : 0 3-OH, C10 : 0 3-OH and C18 : 0 as the major fatty acids. The polar lipid pattern comprised phosphatidylethanolamine, diphosphatidylglycerol, an unidentified aminolipid, an unidentified phospholipid and an unidentified polar lipid. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain BS14T formed a tight phylogenetic lineage with Defluviimonas denitrificans D9-3T with a bootstrap value of 100 %. The 16S rRNA gene sequence similarity between strain BS14T and D. denitrificans D9-3T was 97.4 % and their DNA–DNA relatedness was 19.1±3.6 %. Based on the phenotypic and genotypic studies, strain BS14T represents a novel species of the genus Defluviimonas , for which the name Defluviimonas aestuarii sp. nov. is proposed. The type strain is BS14T ( = KACC 16442T = JCM 18630T). An emended description of the genus Defluviimonas Foesel et al. 2011 is also proposed.
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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 34 (1984)
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Volume 29 (1979)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 23 (1973)
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Volume 21 (1971)
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Volume 19 (1969)
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Volume 18 (1968)
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Volume 17 (1967)
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Volume 6 (1956)
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Volume 2 (1952)
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Volume 1 (1951)