- Volume 66, Issue 2, 2016
Volume 66, Issue 2, 2016
- NEW TAXA
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- Firmicutes and related organisms
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Brevibacillus gelatini sp. nov., isolated from a hot spring
More LessTwo Gram-stain-positive, moderately thermophilic, endospore-forming, rod-shaped, motile bacteria designated PDF4T and PDF10, were isolated from Camkoy hot spring in the provinces of Aydın, Turkey and were characterized in order to determine their phylogenetic position. 16S rRNA gene sequence analysis revealed that the two strains belonged to the genus Brevibacillus. Strain PDF4T showed highest 16S rRNA gene sequence similarity to strain PDF10 (99.5 %), Brevibacillus brevis DSM 30T (98.9 %), Brevibacillus parabrevis DSM 8376T (98.6 %) and Brevibacillus formosus DSM 9885T (98.5 %); similarities to other species of the genus Brevibacillus were less than 98.5 %. The predominant fatty acids of strain PDF4T were anteiso-C15 : 0 (60.0 %) and iso-C15 : 0 (22.3 %). The polar lipids of strain PDF4T consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, an unknown phospholipid, two unknown lipid, an unknown aminophospholipid and two unknown aminolipids. MK-7 was detected as a sole respiratory quinone, and the cell wall of strain PDF4T contained meso-diaminopimelic acid. The DNA G+C content of strain PDF4T was 51.7 mol%. DNA–DNA hybridization showed less than 60 % relatedness between strain PDF4T and type strains of the most closely related species given above. Based on these data, the two strains are considered to represent a novel species of the genus Brevibacillus, for which the name Brevibacillus gelatini sp. nov. is proposed. The type strain is PDF4T ( = NCCB 100559T = DSM 100115T).
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Clostridium liquoris sp. nov., isolated from a fermentation pit used for the production of Chinese strong-flavoured liquor
More LessStrain BEY10T was isolated from an old fermentation pit, which had been used for the production of Chinese strong-flavoured liquor for over 20 years. The strain was strictly anaerobic, Gram-stain positive, rod-shaped, non-motile and spore-forming. Strain BEY10T grew at temperatures of 22–47 °C (optimum 37 °C), at pH 5.5–9.0 (optimum pH 7.5–8.5) and with NaCl concentrations of 0–4 % (w/v) (optimum 0 %). The isolate was able to utilize glucose, mannitol, lactose, xylose, maltose, glycerol, cellobiose and trehalose as carbon sources for growth. The major end-products from glucose fermentation were ethanol and butyric acid. The polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, phospholipids, a glycolipid and an aminolipid. The predominant fatty acids (>10 %) were C20 : 0, C18 : 0, C16 : 0, C12 : 0 and C14 : 0. The DNA G+C content was 34.4 mol%. Sequence analysis of the 16S rRNA gene indicated that strain BEY10T belongs to the genus Clostridium in the family Clostridiaceae. The closest phylogenetic neighbour is Clostridium lundense DSM 17049T, showing 97.6 % 16S rRNA gene sequence similarity with strain BEY10T. DNA–DNA relatedness values of strain BEY10T with Clostridium lundense DSM 17049T, Clostridium tetanomorphum DSM 4474T and Clostridium pascui DSM 10365T were 58.8 %, 57.9 % and 42.2 %, respectively. This characterization based on phylogenetic, phenotypic and chemotaxonomic evidence demonstrated that strain BEY10T represents a novel species of the genus Clostridium, for which the name Clostridium liquoris sp. nov. is proposed. The type strain is BEY10T ( = ACCC 00785T = DSM 100320T).
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Paenibacillus marchantiophytorum sp. nov., isolated from the liverwort Herbertus sendtneri
More LessA Gram-stain-positive, aerobic, motile, rod-shaped, endospore-forming bacterium, designated strain R55T, was isolated from the liverwort Herbertus sendtneri growing at Gawalong glacier, Tibet, and characterized by using a polyphasic taxonomic approach. The major fatty acids of strain R55T were anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. Diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol were the predominant polar lipids and occurred along with two unidentified aminophospholipids, one unidentified phospholipid and one unidentified aminolipid. Strain R55T contained MK-7 as the dominant menaquinone and meso-diaminopimelic acid as the major diagnostic diamino acid in the cell-wall peptidoglycan. The G+C content of the genomic DNA was 36.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain R55T was affiliated to species of the genus Paenibacillus, and was related most closely to Paenibacillus ferrarius CY1T (97.1 % similarity). However, the DNA–DNA relatedness between this strain and strain R55T was only 44.1 %. Based on phenotypic, chemotaxonomic and phylogenetic properties, strain R55T is considered to represent a novel species of the genus Paenibacillus, for which the name Paenibacillus marchantiophytorum sp. nov. is proposed. The type strain is R55T ( = CGMCC 1.15043T = DSM 29850T).
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Phylogenetic comparison of Desulfotomaculum species of subgroup 1a and description of Desulfotomaculum reducens sp. nov.
More LessA genome and physiological comparison was made of the type strains of Desulfotomaculum species belonging to subgroup 1a and of ‘Desulfotomaculum reducens’ strain MI-1. Phenotypically, ‘Desulfotomaculum reducens’ strain MI-1 can be distinguished from the other described Desulfotomaculum species of subgroup 1a by its ability to grow with propionate and butyrate. In addition, the strain is able to use a variety of metals as electron acceptors. Metal reduction has not been tested in the other species, but seems likely based on our genome analysis. Phylogenetic 16S rRNA gene sequence analysis and the average nucleotide identity between the genomes of the species of subgroup 1a show that strain MI-1 represents a novel species within the Desulfotomaculum 1a subgroup, Desulfotomaculum reducens sp. nov. The type strain is MI-1T.
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Reclassification of Eubacterium rectale (Hauduroy et al. 1937) Prévot 1938 in a new genus Agathobacter gen. nov. as Agathobacter rectalis comb. nov., and description of Agathobacter ruminis sp. nov., isolated from the rumen contents of sheep and cows
Three strains of a butyrate-producing bacterium were isolated from the rumen contents of grazing sheep and cows. The strains were anaerobic, with Gram-positive cell walls, straight-to-slightly-curved, rod-shaped, non-spore-forming and single flagellate. C14 : 1, C14 : 0, C16 : 0 and C16 : 1 were the predominant fatty acids. The cell-wall peptidoglycan type was A1γ. The DNA G+C content varied from 41.4 to 42.2 mol%. 16S rRNA gene sequence similarities between the isolates and Eubacterium rectale, Roseburia hominis and Roseburia intestinalis were found to be 96, 95 and 95 %, respectively. The phylogenetic tree showed that the strains constituted a different taxon, separate from other taxa with validly published names and forming a cluster with strains of Eubacterium rectale. On the basis of phenotypic, chemotaxonomic and phylogenetic results (16S RNA, dnaK, groEL, atpA genes), the isolates are considered to represent a novel species of a new genus of the family Lachnospiraceae, for which the name Agathobacter ruminis gen. nov., sp. nov. is proposed (type strain JK623T = DSM 29029T = LMG 28559T). We also propose the transfer of Eubacterium rectale to the new genus as Agathobacter rectalis gen. nov., comb nov. This new genus represents saccharoclastic, chemo-organotrophic and obligatory anaerobic, non-spore-forming rods with Gram-positive membrane. The main fermentation products on peptone yeast glucose (PYG) medium were butyrate, acetate, hydrogen and lactate. The type species of the genus is Agathobacter rectalis gen. nov., comb nov. ( Prévot, 1938 ) with type strain ATCC 33656T ( = JCM 17463T).
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Lachnotalea glycerini gen. nov., sp. nov., an anaerobe isolated from a nanofiltration unit treating anoxic groundwater
A strictly anaerobic bacterium, strain DLD10T, was isolated from a biofilm that developed on a nanofiltration membrane treating anoxic groundwater using glycerol as substrate. Cells were straight to slightly curved rods 0.2–0.5 μm in diameter and 1–3 μm in length, non-motile and non-spore-forming. The optimum temperature and pH for growth were 30 °C and pH 7.0. Strain DLD10T was able to grow in the presence of 0.03–4.5 % (w/v) NaCl. Substrates utilized by strain DLD10T included glycerol and various carbohydrates (glucose, sucrose, fructose, mannose, arabinose, pectin, starch, xylan), which were mainly converted to ethanol, acetate, H2 and formate. Thiosulphate, sulphur and Fe(III) were used as electron acceptors, but sulphate, fumarate and nitrate were not. The predominant membrane fatty acids were C16 : 0, iso-C17 : 1 and C17 : 1ω8c. The DNA G+C content was 36.4 mol%. Strain DLD10T belongs to the family Lachnospiraceae and is distantly related to Clostridium populeti DSM 5832T, Hespellia porcina DSM 15481T and Robinsoniella peoriensis CCUG 48729T (93 % 16S rRNA gene sequence similarity). Physiological characteristics and phylogenetic analysis indicated that strain DLD10T is a representative of a novel species of a new genus, for which the name Lachnotalea glycerini gen. nov., sp. nov. is proposed. The type strain of Lachnotalea glycerini is DLD10T ( = DSM 28816T = JCM 30818T).
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Bacillus oceani sp. nov., isolated from seawater
More LessTwo Gram-staining-positive, endospore-forming, rod-shaped bacterial strains, designated strain SW109T and strain W006, were isolated from a seawater sample collected from the Indian Ocean. The strains were strictly aerobic, catalase- and oxidase-positive and motile by peritrichous flagella. The predominant cellular fatty acids (>10 %) were anteiso-C15 : 0, iso-C15 : 0 and iso-C14 : 0. The major menaquinone was menaquinone-7 (MK-7) and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The genomic DNA G+C content of strain SW109T and strain W006 was 46.3 and 46.1 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the two strains represented a novel member of the genus Bacillus, showing the highest similarity with Bacillus halodurans LMG 7121T and Bacillus okuhidensis DSM 13666T (96.4 and 96.2 % sequence similarity, respectively). On the basis of phylogenetic inference and phenotypic characteristics, it is proposed that the two strains represent a novel species of the genus Bacillus, for which the name Bacillus oceani sp. nov. is proposed. The type strain is SW109T ( = CGMCC 1.12347T = DSM 100579T).
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Paenibacillus etheri sp. nov., able to grow on media supplemented with methyl tert-butyl ether (MTBE) and isolated from hydrocarbon-contaminated soil
More LessA bacterial strain, designated SH7T, was isolated from the hydrocarbon-contaminated soil of a pilot plant (Granada, Spain). The strain was selected for its capacity to grow in media supplemented with methyl tert-butyl ether (MTBE) as sole energy and carbon source. Strain SH7T was a Gram-stain-positive, facultatively anaerobic, spore-forming, rod-shaped bacterium. Phylogenetic analysis using 16S rRNA gene sequences showed that strain SH7T belongs to a cluster comprising species of the genus Paenibacillus and was closely related to Paenibacillus borealis KK19T (97 % 16S rRNA gene sequence similarity) and Paenibacillus odorifer TOD45T (98 %). DNA–DNA hybridization tests showed low relatedness of strain SH7T with the type strains of Paenibacillus borealis (16.9 ± 1.5 %) and Paenibacillus odorifer (16.6 ± 2.1 %). The cell wall of strain SH7T contained meso-diaminopimelic acid. The predominant respiratory quinone was MK-7, and anteiso-C15 : 0 (32.9 %) and C16 : 0 (29.0 %) were the predominant cellular fatty acids. Phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and three unknown aminophospholipids were the major phospholipids. The DNA G+C content was 44.3 mol%. Data obtained in this study indicate that strain SH7T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus etheri sp. nov. is proposed. The type strain is SH7T ( = CECT 8558T = DSM 29760T).
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Paenibacillus nasutitermitis sp. nov., isolated from a termite gut
More LessA Gram-stain-positive, non-motile, aerobic and terminal-endospore-forming rod-shaped bacterium, strain P5-1T, was isolated from the hindgut of a wood-feeding higher termite, Nasutitermes sp. Phylogenetic analysis of 16S rRNA gene sequences showed that the strain was closely related to Paenibacillus sepulcri CCM 7311T (97.5 % similarity). Growth was observed at 10–40 °C (optimum, 30 °C) and at pH 5.5–9.0 (optimum, pH 7.5). The DNA G+C content of strain P5-1T was 48.9 mol%. Cells contained menaquinone 7 (MK-7) as the sole respiratory quinone and the major fatty acids were anteiso-C15 : 0 and iso-C15 : 0. The cellular polar lipids comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, one unidentified phospholipid, one unidentified glycolipid and one unidentified aminophospholipid. The diamino acid of the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on the phylogenetic, chemotaxonomic and phenotypic data obtained within this study, strain P5-1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus nasutitermitis sp. nov. is proposed. The type strain is P5-1T ( = CGMCC 1.15178T = NBRC 111536T).
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Advenella alkanexedens sp. nov., an alkane-degrading bacterium isolated from biogas slurry samples
More LessA novel aerobic bacterium, designated strain LAM0050T, was isolated from a biogas slurry sample, which had been enriched with diesel oil for 30 days. Cells of strain LAM0050T were gram-stain-negative, non-motile, non-spore-forming and coccoid-shaped. The optimal temperature and pH for growth were 30–35 °C and 8.5, respectively. The strain did not require NaCl for growth, but tolerated up to 5.3 % (w/v) NaCl. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain LAM0050T was a member of the genus Advenella, and was most closely related to Advenella faeciporci KCTC 23732T, Advenella incenata CCUG 45225T, Advenella kashmirensis DSM 17095T and Advenella mimigardefordensis DSM 17166T, with 98.1, 96.6, 96.6 and 96.3 % sequence similarity, respectively. The DNA–DNA hybridization relatedness between strain LAM0050T and A. faeciporci KCTC 23732T was 41.7 ± 2.4 %. The genomic DNA G+C content was 51.2 mol%, as determined by the T m method. The major fatty acids of strain LAM0050T were C16 : 0, C17 : 0 cyclo, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The predominant ubiquinone was Q-8. The main polar lipids were diphosphatidyglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine and four unidentified phospholipids. Based on the phenotypic and genotypic properties, strain LAM0050T is suggested to represent a novel species of the genus Advenella, for which the name Advenella alkanexedens sp. nov., is proposed, the type strain is LAM0050T ( = ACCC 06485T = JCM 30465T).
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Sellimonas intestinalis gen. nov., sp. nov., isolated from human faeces
More LessA Gram-stain-positive and obligately anaerobic bacterial strain, BR72T, forming ivory yellow colonies was isolated from a faecal sample of a healthy Korean woman. 16S rRNA gene sequence analysis indicated that strain BR72T belongs to Clostridium cluster XIVa and represents a distinct phyletic line within the family Lachnospiraceae. The most closely related strains were Clostridium nexile DSM 1787T (94.1 % 16S rRNA gene sequence similarity), Coprococcus comes ATCC 27758T (93.5 %), Ruminococcus torques ATCC 27756T (93.5 %), Ruminococcus lactaris ATCC 29176T (93.5 %), Clostridium aerotolerans DSM 5434T (93.1 %) and Eubacterium fissicatena DSM 3598T (92.9 %). The DNA G+C content of strain BR72T based on its genome sequence was 45.3 mol%. The major cellular fatty acids were C16 : 0, C14 : 0, and iso-C17 : 1 I and/or anteiso-C17 : 1 B. Acetic acid was produced from glucose fermentation. Other physiological and biochemical comparisons allowed the phenotypic differentiation of strain BR72T from the members of the family Lachnospiraceae. Based on the phylogenetic and phenotypic findings, this strain is considered to represent a novel species of a new genus belonging to the family Lachnospiraceae and the name Sellimonas intestinalis gen. nov., sp. nov. is proposed. The type strain of Sellimonas intestinalis is BR72T ( = KCTC 15479T = JCM 30749T).
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Description of Domibacillus iocasae sp. nov., isolated from deep-sea sediment, and emended description of the genus Domibacillus
Qing-Lei Sun and Li SunIn this study, we report a novel Gram-stain-positive bacterium, designated strain S6T, isolated from deep-sea sediment in Okinawa Trough. Growth of strain S6T occurred at 10–45 °C (optimum, 35 °C), at pH 6.0–11.0 (optimum, 8.0) and with 0–8 % (w/v) NaCl (optimum, 3 %). Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain S6T belonged to the genus Domibacillus. The closest phylogenetic neighbours of strain S6T were Domibacillus robiginosus WS 4628T ( = DSM 25058T) (98.6 %16S rRNA gene sequence similarity), D. indicus SD111T ( = DSM 28032T) (97.6 %), D. enclensis NIO-1016T ( = DSM 25145T) (97.6 %), and ‘D. tundrae’ PAMC 80007 ( = DSM 29572) (97.6 %). Levels of similarity between strain S6T and other close relatives were below 96 %. The levels of DNA–DNA relatedness between strain S6T and its closest relatives in the genus Domibacillus were well below 70 %. The genomic DNA G+C content of strain S6T was 44.4 mol%. The major menaquinone was MK-6. The polar lipids of strain S6T contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol mannosides, phosphatidylethanolamine and three unknown phospholipids. Strain S6T harboured meso-diaminopimelic acid as the diagnostic diamino acid and an A1γ type of peptidoglycan. The major cell-wall sugars of strain S6T were xylose and glucose. Phylogenetic, physiological, biochemical and morphological analyses suggest that this strain represents a novel species of the genus Domibacillus, for which the name Domibacillus iocasae sp. nov. is proposed. The type strain is S6T ( = DSM 29979T = CCTCC AB 2015183T). An emended description of the genus Domibacillus is also provided.
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Proposal to restrict the genus Clostridium Prazmowski to Clostridium butyricum and related species
More LessThe genus Clostridium as presently constituted is phylogenetically and phenotypically incoherent. Data from polyphasic taxonomic studies indicate that the genus comprises a collection of very heterogeneous species. Numerous phylogenetic studies, principally based on sequencing of the 16S rRNA gene, indicate that the genus Clostridium should be restricted to Clostridium cluster I as Clostridium sensu stricto. Despite these findings, authors continue to add novel species to the genus Clostridium that do not fall within the radiation of cluster I and the type species Clostridium butyricum, thus perpetuating the confusion associated with the taxonomy of this group. Here, we formally propose that members of the genus Clostridium Prazmowski be restricted to the type species C. butyricum and cluster I species. Eubacterium moniliforme, Eubacterium tarantellae, Sarcina maxima and Sarcina ventriculi should be transferred to the genus Clostridium as Clostridium moniliforme comb. nov., Clostridium tarantellae comb. nov., Clostridium maximum comb. nov. and Clostridium ventriculi comb. nov. A novel genus, Hathewaya gen. nov., is proposed for the species Clostridium histolyticum, Clostridium limosum and Clostridium proteolyticum as Hathewaya histolytica gen. nov. comb. nov., Hathewaya limosa comb. nov. and Hathewaya proteolytica comb. nov. The type species of the genus Hathewaya is Hathewaya histolytica.
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Bacillus cucumis sp. nov. isolated from the rhizosphere of cucumber (Cucumis sativus)
A facultative anaerobic, Gram-positive staining, endospore-forming bacterium, isolated from the rhizosphere of cucumber (Cucumis sativus), was taxonomically investigated. Based on 16S rRNA gene sequence similarity comparisons, strain AP-6T clustered together with other species of the genus Bacillus and showed highest similarities with Bacillus drentensis LMG 21831T (99.1 %), Bacillus vireti LMG 21834T (98.7 %) and Bacillus soli LMG 21838T (98.5 %). The 16S rRNA gene sequence similarity to the sequences of the type strains of other species of the genus Bacillus was 98.5 % or less. Chemotaxonomic features supported the grouping of the strain in the genus Bacillus; for example, the major fatty acids were anteiso-C15 : 0, iso-C15 : 0 and C16 : 0, the polar lipid profile contained the major components diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and an unidentified glycolipid, the major quinone was menaquinone MK-7 and the major compound in the polyamine pattern was spermidine. Additionally, DNA–DNA hybridization with B. drentensis LMG 21831T, B. vireti LMG 21834T and B. soli LMG 21838T resulted in relatedness values that were clearly below 70 %. Physiological and biochemical test results were also different from those of the most closely related species. As a consequence, AP-6T represents a novel species of the genus Bacillus, for which the name Bacillus cucumis sp. nov. is proposed, with AP-6T ( = CIP 110974T = CCM 8651T) as the type strain.
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Streptococcus oricebi sp. nov., isolated from the oral cavity of tufted capuchin
More LessA Gram-stain-positive, catalase-negative, coccus-shaped organism was isolated from the oral cavity of tufted capuchin (Cebus apella). Comparative 16S rRNA gene sequence analysis suggested classification of the organism within the genus Streptococcus. Strain M8T was related most closely to Streptococcus oralis ATCC 35037T (96.17 % similarity) followed by Streptococcus massiliensis CCUG 49690T (95.90 %) based on the 16S rRNA gene. Strain M8T was related most closely to S. massiliensis CCUG 49690T (86.58 %) based on the RNA polymerase β subunit-encoding gene (rpoB), and to Streptococcus tigurinus AZ_3aT (81.26 %) followed by S. massiliensis CCUG 49690T (80.45 %) based on the 60 kDa heat-shock protein gene (groEL). The phylogenetic trees of 16S rRNA, rpoB and groEL gene sequences showed that strain M8T was most closely related to S. massiliensis. Based on phenotypic characterization as well as 16S rRNA gene and housekeeping gene (rpoB and groEL) sequence data, a novel taxon, Streptococcus oricebi sp. nov. (type strain M8T = JCM 30719T = DSM 100101T), is proposed.
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- Proteobacteria
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Description of ‘Candidatus Berkiella aquae’ and ‘Candidatus Berkiella cookevillensis’, two intranuclear bacteria of freshwater amoebae
Two novel bacteria of the phylum Proteobacteria were isolated during searches for amoeba-resistant micro-organisms in natural and constructed water systems. Strain HT99 was isolated from amoebae found in the biofilm of an outdoor hot tub in Cookeville, Tennessee, USA, and strain CC99 was isolated from amoebae in the biofilm of a cooling tower in the same city. Both bacteria were Gram-stain-negative cocci to coccobacilli, unculturable on conventional laboratory media, and were found to be intranuclear when maintained in Acanthamoeba polyphaga. The genomes of both isolates were completely sequenced. The genome of CC99 was found to be 3.0 Mbp with a 37.9 mol% DNA G+C content, while the genome of HT99 was 3.6 Mbp with a 39.5 mol% DNA G+C content. The 16S rRNA gene sequences of the two isolates were 94 % similar to each other. Phylogenetic comparisons of the 16S rRNA, mip and rpoB genes, the DNA G+C content and the fatty acid composition demonstrated that both bacteria are members of the order Legionellales, and are most closely related to Coxiella burnetii. The phenotypic and genetic evidence supports the proposal of novel taxa to accommodate these strains; however, because strains HT99 and CC99 cannot be cultured outside of the amoeba host, the respective names ‘Candidatus Berkiella aquae’ and ‘Candidatus Berkiella cookevillensis’ are proposed.
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Arcobacter pacificus sp. nov., isolated from seawater of the South Pacific Gyre
More LessA Gram-stain-negative, rod-shaped, slightly curved, non-spore-forming strain, designated SW028T, was isolated from surface seawater (26° 29′ S 137° 56′ W) of the South Pacific Gyre during the Integrated Ocean Drilling Program Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SW028T belonged to the genus Arcobacter and it showed the highest sequence similarity with Arcobacter molluscorum LMG 25693T (95.50 %). The dominant fatty acids of strain SW028T were C18 : 1ω7c, C16 : 1ω7c and C16 : 0. The only respiratory quinone detected was menaquinone-6. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The DNA G+C content was 27.1 mol%. The phylogenetic position of the novel strain was further confirmed by analysis of the housekeeping genes rpoB, gyrB and atpA. On the basis of phenotypic, chemotaxonomic and phylogenetic analyses, strain SW028T represents a novel species of the genus Arcobacter, for which the name Arcobacter pacificus is proposed. The type strain is SW028T ( = DSM 25018T = JCM 17857T = LMG 26638T = CGMCC NO.1.11011T).
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Testudinibacter aquarius gen. nov., sp. nov., a member of the family Pasteurellaceae isolated from the oral cavity of freshwater turtles
A total of 13 Pasteurellaceae isolates from healthy freshwater turtles were characterized by genotypic and phenotypic tests. Phylogenetic analysis of partial 16S rRNA and rpoB gene sequences showed that the isolates investigated formed a monophyletic group. The closest related species based on 16S rRNA gene sequencing was Chelonobacter oris CCUG 55632T with 94.4 % similarity and the closest related species based on rpoB gene sequence comparison was [Pasteurella] testudinis CCUG 19802T with 91.5 % similarity. All the investigated isolates exhibited phenotypic characteristics of the family Pasteurellaceae. However, they could be separated from existing genera of the Pasteurellaceae by the following test results: indole, ornithine decarboxylase and Voges–Proskauer positive; and methyl red, urease and PNPG (α-glucosidase) negative. No X- or V-factor requirement was observed. A zone of β-haemolysis surrounded the colonies after 24 h of incubation on bovine blood agar at 37 °C. Acid was produced from l-arabinose, dulcitol, d-mannitol, sucrose and trehalose. Representative strain ELNT2xT had a fatty acid profile that was characteristic for members of the Pasteurellaceae. ELNT2xT expressed only one respiratory quinone, ubiquinone-8 (100 %). The DNA G+C content of strain ELNT2xT was 42.8 mol%. On the basis of both phylogenetic and phenotypic evidence, it is proposed that the strains should be classified as representatives of a novel species of a new genus, Testudinibacter aquarius gen. nov., sp. nov. The type strain of Testudinibacter aquarius is ELNT2xT ( = CCUG 65146T = DSM 28140T), which was isolated from the oral cavity of a captive eastern long-necked turtle (Chelodina longicollis) in Denmark in 2012.
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Thalassobius abyssi sp. nov., a marine bacterium isolated from cold-seep sediment
More LessA novel marine bacterial strain, designated JAMH 043T, was isolated from cold-seep sediment in Sagami Bay, Japan. Cells were Gram-stain-negative, rod-shaped, non-motile and aerobic chemo-organotrophs. The isolate grew optimally at 25 °C, at pH 7.0–7.5 and with 3 % (w/v) NaCl. The major respiratory quinone was ubiquinone-10 (Q-10). The predominant fatty acid was C18 : 1ω7c. On the basis of 16S rRNA gene sequence analysis, the isolated strain was closely affiliated to members of the genus Thalassobius in the class Alphaproteobacteria, and 16S rRNA gene sequence similarity of the novel isolate with the type strain of its closest related species, Thalassobius aestuarii JC2049T, was 98.4 %. The DNA G+C content of the novel strain was 58.0 mol%. The hybridization values for DNA–DNA relatedness between strain JAMH 043T and reference strains belonging to the genus Thalassobius were less than 14.1 ± 2.2 %. Based on differences in taxonomic characteristics, the isolated strain represents a novel species of the genus Thalassobius, for which the name Thalassobius abyssi sp. nov. is proposed. The type strain is JAMH 043T ( = JCM 30900T = DSM 100673T).
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Tagaea marina gen. nov., sp. nov., a marine bacterium isolated from shallow coastal water
More LessA Gram-negative, heterotrophic, marine bacterium, designated strain TT1T, was isolated from seawater collected from the shallow coastal region of Anping Harbour, Tainan, Taiwan. Cells grown in broth cultures were straight rods that were motile by means of a single polar flagellum. The isolate required NaCl for growth and exhibited optimal growth at 30–35 °C, 2–4 % NaCl and pH 7–8. Strain TT1T grew aerobically and was not capable of anaerobic growth by fermentation of glucose or other carbohydrates. Q-10 was the sole major isoprenoid quinone. Cellular fatty acids were dominated by C18 : 1ω7c (47.5 %), C18 : 1 2-OH (16.3 %) and C19 : 0ω8c cyclo (10.6 %). The DNA G+C content was 56.4 mol%. Phylogeny based on 16S rRNA gene sequences showed that strain TT1T formed a distinct genus-level lineage in the family Rhodospirillaceae of the class Alphaproteobacteria and exhibited the highest sequence similarity with species of the genera Thalassobaculum (89.9–90.0 % 16S rRNA gene sequence similarity), Oceanibaculum (89.4–89.9 %) and Nisaea (89.1–89.7 %). Strain TT1T could be distinguished from species of these phylogenetically closest genera based on differences in DNA G+C contents (56.4 mol% vs 60.0–68.0 mol%), fatty acid profiles and some physiological characteristics. On the basis of the polyphasic taxonomic data from this study, strain TT1T is considered to represent a novel species of a new genus in the family Rhodospirillaceae, for which the name Tagaea marina gen. nov., sp. nov. is proposed. The type strain of the type species is TT1T ( = JCM 18659T = BCRC 80493T).
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Volumes and issues
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Volume 75 (2025)
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Volume 74 (2024)
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Volume 73 (2023)
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Volume 72 (2022 - 2023)
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Volume 71 (2020 - 2021)
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Volume 70 (2020)
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Volume 69 (2019)
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Volume 68 (2018)
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Volume 67 (2017)
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Volume 66 (2016)
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Volume 65 (2015)
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Volume 64 (2014)
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Volume 63 (2013)
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Volume 62 (2012)
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Volume 61 (2011)
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Volume 60 (2010)
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Volume 59 (2009)
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Volume 58 (2008)
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Volume 57 (2007)
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Volume 56 (2006)
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Volume 55 (2005)
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Volume 54 (2004)
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Volume 53 (2003)
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Volume 52 (2002)
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Volume 51 (2001)
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Volume 50 (2000)
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Volume 49 (1999)
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Volume 48 (1998)
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Volume 47 (1997)
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Volume 46 (1996)
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Volume 45 (1995)
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Volume 44 (1994)
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Volume 43 (1993)
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Volume 42 (1992)
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Volume 41 (1991)
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Volume 40 (1990)
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Volume 39 (1989)
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Volume 38 (1988)
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Volume 37 (1987)
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Volume 36 (1986)
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Volume 35 (1985)
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Volume 34 (1984)
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Volume 33 (1983)
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Volume 32 (1982)
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Volume 31 (1981)
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Volume 30 (1980)
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Volume 29 (1979)
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Volume 28 (1978)
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Volume 27 (1977)
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Volume 26 (1976)
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Volume 25 (1975)
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Volume 24 (1974)
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Volume 23 (1973)
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Volume 22 (1972)
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Volume 21 (1971)
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Volume 20 (1970)
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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 16 (1966)
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Volume 15 (1965)
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Volume 14 (1964)
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Volume 13 (1963)
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Volume 12 (1962)
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Volume 11 (1961)
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Volume 10 (1960)
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Volume 9 (1959)
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Volume 8 (1958)
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Volume 7 (1957)
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Volume 6 (1956)
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Volume 5 (1955)
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Volume 4 (1954)
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Volume 3 (1953)
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Volume 2 (1952)
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Volume 1 (1951)