- Volume 64, Issue Pt_8, 2014
Volume 64, Issue Pt_8, 2014
- New Taxa
-
- Bacteroidetes
-
-
Gramella oceani sp. nov., a zeaxanthin-producing bacterium of the family Flavobacteriaceae isolated from marine sediment
More LessA Gram-staining-negative, yellow-pigmented, strictly aerobic, zeaxanthin-producing, rod-shaped, non-endospore-forming, appendaged bacterial strain that exhibits gliding motility, designated CC-AMSZ-TT, was isolated from marine sediment off coastal Kending, Taiwan. Strain CC-AMSZ-TT shared 94.9 % and 96.7–94.1 % 16S rRNA gene sequence similarities with Gramella echinicola KMM 6050T and other species of the genus Gramella , respectively, and formed a distinct phyletic lineage in phylogenetic trees. The major (≥5 % of the total) fatty acids were C16 : 0, iso-C15 : 0, anteiso-C15 : 0, C16 : 1ω6c and/or C16 : 1ω7c and iso-C17 : 1ω9c and/or C16 : 0 10-methyl. Phosphatidylethanolamine, six unidentified lipids and three unidentified aminolipids were the polar lipid components. The DNA G+C content was 38.6 mol%. The predominant respiratory quinone was menaquinone-6 (MK-6). Based on the phylogenetic distinctiveness and distinguishing phenotypic characteristics, strain CC-AMSZ-TT represents a novel species of the genus Gramella , for which the name Gramella oceani sp. nov. is proposed. The type strain is CC-AMSZ-TT ( = JCM 18809T = BCRC 80547T).
-
-
-
Description of Chishuiella changwenlii gen. nov., sp. nov., isolated from freshwater, and transfer of Wautersiella falsenii to the genus Empedobacter as Empedobacter falsenii comb. nov.
More LessA Gram-reaction-negative, strictly aerobic, non-pigmented, non-gliding, rod-shaped bacterium, designated strain BY4T, was isolated from freshwater. Cells were catalase- and oxidase-positive and indole was produced. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain BY4T belonged to the family Flavobacteriaceae and showed 91.6–95.9 % sequence similarities to the most closely related strains. The major respiratory quinone was MK-6 and the major polar lipid was phosphatidylethanolamine. The major polyamine was homospermidine and the major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c). The DNA G+C content was 30.0 mol%. On the basis of phenotypic, phylogenetic and genotypic features, strain BY4T is suggested to represent a novel species in a new genus within the family Flavobacteriaceae , for which the name Chishuiella changwenlii gen. nov., sp. nov. is proposed. The type strain of this type species is BY4T ( = CGMCC 1.12707T = JCM 19633T). On the basis of data collected from previous and present studies, it is proposed to reclassify Wautersiella falsenii to the genus Empedobacter as the new combination Empedobacter falsenii comb. nov. (type strain NF 993T = CCUG 51536T = CIP 108861T).
-
-
-
Flavobacterium faecale sp. nov., an agarase-producing species isolated from stools of Antarctic penguins
More LessTaxonomic studies were performed on an agarase-producing strain, designated WV33T, isolated from faeces of Antarctic penguins. Cells of strain WV33T were Gram-staining-negative, strictly aerobic, orange and rod-shaped. Strain WV33T displayed agarase activity and was able to utilize galactose as a sole carbon source. 16S rRNA gene sequence analysis revealed that strain WV33T was closely related to Flavobacterium algicola TC2T (98.0 % similarity), F. frigidarium ATCC 700810T (96.9 %) and F. frigoris LMG 21922T (96.1 %). The predominant cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0, C15 : 0, C16 : 0 and summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c). Menaquinone 6 (MK-6) was the sole quinone identified, and the major pigment was zeaxanthin. The major polar lipid was phosphatidylethanolamine. DNA–DNA relatedness of strain WV33T with respect to its closest phylogenetic neighbours was 25 % for F. algicola NBRC 102673T, 23 % for F. frigidarium DSM 17623T and 21 % for F. frigoris DSM 15719T. The DNA G+C content of strain WV33T was 37±0.6 mol%. Based on the phenotypic, chemotaxonomic and phylogenetic data, strain WV33T is concluded to represent a novel species of the genus Flavobacterium , for which the name Flavobacterium faecale sp. nov. is proposed. The type strain is WV33T ( = KCTC 32457T = CECT 8384T).
-
-
-
Tamlana sedimentorum sp. nov., isolated from shallow sand sediments of the Sea of Japan
More LessAn aerobic, Gram-stain-negative, saffron-pigmented, non-motile bacterial strain KMM 9545T, was isolated from a marine sand sediment sample obtained from the Sea of Japan seashore and characterized in a taxonomic study using a polyphasic approach. The 16S rRNA gene sequence of strain KMM 9545T showed a high level of similarity to species of the genus Gaetbulibacter (95.1–96.2 %), the type strains of species of the genus Tamlana (94.9–96.1 %) and members of the genus Algibacter (94.8–96.1 %). Phylogenetic analysis based on the 16S rRNA gene sequences positioned strain KMM 9545T as a distinct lineage in the cluster comprising species of the genus Tamlana . Strain KMM 9545T grew at temperatures between 5–36 °C and in the presence of 2–4 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C15 : 1, iso-C17 : 1 3-OH, iso-C15 : 0 3-OH and iso-C15 : 0 2-OH as the major fatty acids. The genomic DNA G+C content was 31.3 mol%. On the basis of the phenotypic characteristics and phylogenetic distance, it can be concluded that strain KMM 9545T represents a novel species of the genus Tamlana , for which the name Tamlana sedimentorum sp. nov. is proposed. The type strain is KMM 9545T ( = NRIC 0921T = JCM 19808T).
-
-
-
Flavihumibacter solisilvae sp. nov., isolated from forest soil
A Gram-stain-positive, strictly aerobic, yellow colony-forming bacterium, designated strain 3-3T, was isolated from forest soil of Bac Kan Province in Vietnam. Cells were non-motile rods without gliding motility, showing oxidase- and catalase-positive reactions. Growth was observed at 20–37 °C (optimum, 28 °C) and pH 5.5–9.5 (optimum, pH 7.5). The major cellular fatty acids were iso-C15 : 0, iso-C15 : 1 G and summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c). Strain 3-3T contained phosphatidylethanoamine, three unidentified aminolipids and three unidentified lipids. The G+C content of the genomic DNA was 49.5 mol% and the only isoprenoid quinone detected was menaquinone 7 (MK-7). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 3-3T formed a tight phylogenetic lineage with Flavihumibacter petaseus T41T with a bootstrap value of 100 %. Strain 3-3T was related most closely to F. petaseus T41T with 97.3 % 16S rRNA gene sequence similarity and the level of DNA–DNA relatedness between the two was 9.4±1.2 %. Based on phenotypic, chemotaxonomic and molecular features, strain 3-3T represents a novel species of the genus Flavihumibacter , for which the name Flavihumibacter solisilvae sp. nov. is proposed. The type strain is 3-3T ( = KACC 17917T = JCM 19891T).
-
- Other Bacteria
-
-
Thermomicrobium carboxidum sp. nov., and Thermorudis peleae gen. nov., sp. nov., carbon monoxide-oxidizing bacteria isolated from geothermally heated biofilms
C. E. King and G. M. KingTwo thermophilic, Gram-stain-positive, rod-shaped, non-spore-forming bacteria (strains KI3T and KI4T) were isolated from geothermally heated biofilms growing on a tumulus in the Kilauea Iki pit crater on the flank of Kilauea Volcano (Hawai‘i, USA). Strain KI3T grew over an examined temperature range of 50–70 °C (no growth at 80 °C) and a pH range of 6.0–9.0, with optimum growth at 70 °C and pH 7.0. Strain KI4T grew at temperatures of 55–70 °C and a pH range of 5.8–8.0, with optimum growth at 65 °C and pH 6.7–7.1. The DNA G+C contents of strains KI3T and KI4T were 66.0 and 60.7 mol%, respectively. The major fatty acid for both strains was 12-methyl C18 : 0. Polar lipids in strain KI3T were dominated by glycolipids and phosphatidylinositol, while phosphatidylinositol and phosphoglycolipids dominated in strain KI4T. Strain KI3T oxidized carbon monoxide [6.7±0.8 nmol CO h−1 (mg protein)−1], but strain KI4T did not. 16S rRNA gene sequence analyses determined that the strains belong to the class Thermomicrobia , and that strains KI3T and KI4T are related most closely to Thermomicrobium roseum DSM 5159T (96.5 and 91.1 % similarity, respectively). 16S rRNA gene sequence similarity between strain KI3T and strain KI4T was 91.4 %. Phenotypic features and phylogenetic analyses supported the affiliation of strain KI3T to the genus Thermomicrobium , while results of chemotaxonomic, physiological and biochemical assays differentiated strains KI3T and KI4T from Thermomicrobium roseum . Strain KI3T ( = DSM 27067T = ATCC BAA-2535T) is thus considered to be the type strain of a novel species, for which the name Thermomicrobium carboxidum sp. nov. is proposed. Additionally, the characterization and phylogenetic position of strain KI4T showed that it represents a novel species of a new genus, for which the name Thermorudis peleae gen. nov., sp. nov. is proposed. The type strain of Thermorudis peleae is KI4T ( = DSM 27169T = ATCC BAA-2536T).
-
-
-
Granulicella cerasi sp. nov., an acidophilic bacterium isolated from cherry bark
More LessA novel acidobacterial strain, Sakura1T, was isolated from pieces of cherry bark. Cells of strain Sakura1T were non-motile, rod-shaped and stained Gram-negative. This strictly aerobic isolate was mesophilic but was able to grow at temperatures as low as 10 °C. Colonies were pink due to production of carotenoids, and its pigmentation was more pronounced in cells grown at lower temperature. This strain had endoglucanase activity. The main respiratory quinone was menaquinone-8, and major cellular fatty acids were iso-C15 : 0, C16 : 1ω7c and C16 : 0. Phylogenetic analysis of 16S rRNA gene sequences revealed that the strain was closely related to species of the genus Granulicella in subdivision 1 of the phylum Acidobacteria . The closest relative was Granulicella paludicola OB1010T (97.1 % 16S rRNA gene sequence similarity). While common characteristics were found among the isolate and species of the genus Granulicella, there were obvious differences between them such as their cell morphology, cellulolytic activity, and tolerance to low temperature and NaCl concentration. Based on phylogenetic and phenotypic findings, a novel species is proposed in the genus Granulicella with the name Granulicella cerasi sp. nov. The type strain is Sakura1T ( = NBRC 107139T = DSM 23641T).
-
-
-
Spirochaeta psychrophila sp. nov., a psychrophilic spirochaete isolated from subseafloor sediment, and emended description of the genus Spirochaeta
More LessAn obligately anaerobic, psychrophilic spirochaete, strain MO-SPC1T, was isolated from a methanogenic microbial community grown in a continuous-flow bioreactor. Originally, this community was obtained from subseafloor sediments off the Shimokita Peninsula of Japan in the north-western Pacific Ocean. The cells were motile, Gram-stain-negative, helical, 0.25–0.55×3.6–15 µm, with a wavelength of approximately 0.5–0.6 µm. Strain MO-SPC1T grew at 0–18 °C (optimally at 15 °C), at pH 6.0–7.5 (optimally at pH 6.8–7.0) and in 20–70 g NaCl l−1 (optimally at 30–40 NaCl l−1). The strain grew chemo-organotrophically with mono-, di- and polysaccharides. The major end products of glucose fermentation were acetate, ethanol, hydrogen and carbon dioxide. The abundant polar lipids of strain MO-SPC1T were diphosphatidylglycerol, phosphatidylglycerol, unknown phospholipids and an unknown lipid. The major cellular fatty acids (>5 % of the total) were C14 : 0, C16 : 0, iso-C13 : 0, iso-C14 : 0, iso-C15 : 0, anteiso-C13 : 0 and anteiso-C15 : 0. To the best of our knowledge, this is the first report of the fatty acids iso-C13 : 0 and anteiso-C13 : 0 from a species of the genus Spirochaeta . Isoprenoid quinones were not found. The G+C content of the genomic DNA was 39.8 mol%. 16S rRNA gene sequence-based phylogenetic analysis showed that strain MO-SPC1T was affiliated with the genus Spirochaeta , and its closest relatives were Spirochaeta isovalerica MA-2T (95.6 % sequence identity) and Spirochaeta litoralis R1T (89.4 %). Based on its phenotypic characteristics and phylogenetic traits, strain MO-SPC1T is placed in a separate taxon at the level of a novel species within the genus Spirochaeta, for which the name Spirochaeta psychrophila sp. nov. is proposed, reflecting its true psychrophilic physiology. The type strain is MO-SPC1T ( = JCM 17280T = DSM 23951T). To our knowledge, this is the first report of an isolate of the phylum Spirochaetes from a deep-sea sedimentary environment, and of an obligately psychrophilic nature.
-
-
-
Paludibaculum fermentans gen. nov., sp. nov., a facultative anaerobe capable of dissimilatory iron reduction from subdivision 3 of the Acidobacteria
A facultatively anaerobic, non-pigmented, non-spore-forming bacterium was isolated from a littoral wetland of a boreal lake located on Valaam Island, northern Russia, and designated strain P105T. Cells of this isolate were Gram-negative, non-motile rods coated by S-layers with p2 lattice symmetry. Sugars were the preferred growth substrates. Under anoxic conditions, strain P105T was capable of fermentation and dissimilatory Fe(III) reduction. End products of fermentation were acetate, propionate and H2. Strain P105T was a mildly acidophilic, mesophilic organism, capable of growth at pH 4.0–7.2 (optimum pH 5.5–6.0) and at 4–35 °C (optimum at 20–28 °C). The major fatty acids were iso-C15 : 0 and C16 : 1ω7c; the cells also contained significant amounts of 13,16-dimethyl octacosanedioic acid (isodiabolic acid). The major polar lipids were phosphocholine and phosphoethanolamine; the quinone was MK-8. The G+C content of the DNA was 60.5 mol%. 16S rRNA gene sequence analysis showed that strain P105T belongs to subdivision 3 of the Acidobacteria and is only distantly related (90 % sequence similarity) to the only currently characterized member of this subdivision, Bryobacter aggregatus . The novel isolate differs from Bryobacter aggregatus in its cell morphology and ability to grow under anoxic conditions and in the presence of iron- and nitrate-reducing capabilities as well as quinone and polar lipid compositions. These differences suggest that strain P105T represents a novel genus and species, for which the name Paludibaculum fermentans gen. nov., sp. nov., is proposed. The type strain of Paludibaculum fermentans is P105T ( = DSM 26340T = VKM B-2878T).
-
- Eukaryotic Micro-organisms
-
-
Lipomyces chichibuensis sp. nov., isolated in Japan, and reidentification of the type strains of Lipomyces kononenkoae and Lipomyces spencermartinsiae
More LessWe isolated two strains of a novel Lipomyces species from soil collected in Chichibu forest, Saitama prefecture, Japan. Based on their morphological and biochemical characteristics, along with multilocus sequence typing using the D1/D2 domain of the large-subunit (LSU) rRNA gene, the internal transcribed spacer (ITS) region and the translation elongation factor 1 alpha gene (EF-1α), the two strains were shown to represent a novel species of the genus Lipomyces, described as Lipomyces chichibuensis sp. nov. (type strain CB08-2T = NBRC 109582T = CBS 12929T; Mycobank no. MB808164). In addition, we reidentified the type strains of Lipomyces kononenkoae and Lipomyces spencermartinsiae maintained in culture collections based on phenotypic characters and/or DNA–DNA hybridization to ensure correct future identification of species of the genus Lipomyces. The correct type strains of L. kononenkoae and L. spencermartinsiae are NBRC 107661T ( = CBS 2514T) and NBRC 10376T ( = CBS 5608T), respectively.
-
-
-
Morphology, morphogenesis and molecular phylogeny of a novel soil ciliate, Pseudouroleptus plestiensis n. sp. (Ciliophora, Oxytrichidae), from the uplands of Colfiorito, Italy
More LessThe terrestrial oxytrichid ciliate Pseudouroleptus plestiensis n. sp., isolated from soil samples collected from the uplands of Colfiorito (Umbria region, Italy), was investigated using live observation and protargol impregnation. The morphology, morphogenesis and molecular phylogeny inferred from small-subunit (SSU) rRNA gene sequences were studied. The novel species is mainly characterized by the following: a cell size of about 145×35 µm in vivo; two ellipsoidal macronuclear nodules and two to four micronuclei; adoral zone about 26 % of body length with a mean of 30 membranelles; about 40 cirri in the right marginal row and 38 in the left marginal row; left fronto-ventral row consisting of about 27–40 cirri, right fronto-ventral row of about three to seven cirri forming a short row to the right of the rear portion of the left fronto-ventral row; one parabuccal cirrus ( = III/2), one buccal and one post-peristomial cirrus; and four dorsal kineties with caudal cirri at the end of kineties 1 and 2. The morphogenesis of the novel species is similar to that of Pseudouroleptus caudatus. Phylogenetic analyses based on SSU rRNA gene sequences consistently placed the novel species within the family Oxytrichidae Ehrenberg, 1838, clustering with P. caudatus and the genus Strongylidium. The results from the present study contribute to the expanding knowledge of the diversity of ciliates in Italian soil.
-
-
-
Leiothecium cristatum sp. nov. and Aspergillus posadasensis sp. nov., two species of Eurotiales from rainforest soils in South America
More LessWe describe two novel fungi isolated from soil samples collected in Northern Argentina and belonging to the family Aspergillaceae of the order Eurotiales: Leiothecium cristatum sp. nov. and Aspergillus posadasensis sp. nov. Leiothecium cristatum sp. nov., represented by the ex-type strain FMR 11998T ( = CBS 134260T = NBRC 109843T), is distinguishable morphologically from the type species of the genus, Leiothecium ellipsoideum, by the presence of irregular reticulate ascospores with two prominent equatorial crests, and Aspergillus posadasensis sp. nov., represented by the ex-type strain FMR 12168T ( = CBS 134259T = NBRC 109845T), is differentiated from Aspergillus acanthosporus, the nearest species phylogenetically, by its non-sclerotioid ascomata and a lack of an asexual stage on all culture media tested. The taxonomic proposals are supported by the analysis of the sequences of the internal transcribed spacer region, the D1–D2 domains of the 28S rRNA gene, the fragments of the RNA polymerase II largest subunit, and the putative chaperonin complex related to TCP-1, β-tubulin and calmodulin genes.
-
-
-
Hagleromyces gen. nov., a yeast genus in the Saccharomycetaceae, and description of Hagleromyces aurorensis sp. nov., isolated from water tanks of bromeliads
More LessThree strains of a novel yeast species were isolated from water tanks (phytotelmata) of a bromeliad species collected in the state of Tocantins, Brazil. Analysis of sequences for the region spanning the SSU rRNA gene, the internal transcribed spacer, the 5.8S rRNA gene and the D1/D2 domains of the LSU rRNA gene and RNA polymerase II gene showed that these novel yeasts belong to a species that is distinct from all recognized ascomycetous yeast species. Based on the results of gene sequence analyses, a novel species representing a new genus in the Saccharomycetaceae is proposed. The novel species is assigned to the genus Hagleromyces gen. nov. The three isolates of the novel yeast species failed to form sexual spores alone or in mixtures. The name Hagleromyces aurorensis sp. nov. is proposed to accommodate these isolates. The type strain of H. aurorensis sp. nov. is UFMG-CM-Y311T ( = CBS 13264T).
-
- Taxonomic Note
-
-
-
Fulvimarina manganoxydans sp. nov., isolated from a deep-sea hydrothermal plume in the south-west Indian Ocean
Fei Ren, Limin Zhang, Lei Song, Shiyao Xu, Lijun Xi, Li Huang, Ying Huang and Xin DaiAn aerobic, Mn(II)-oxidizing, Gram-negative bacterium, strain 8047T, was isolated from a deep-sea hydrothermal vent plume in the south-west Indian Ocean. The strain was rod-shaped and motile with a terminal flagellum, and formed yellowish colonies. It produced catalase and oxidase, hydrolysed gelatin and reduced nitrate. 16S rRNA gene sequence analysis showed that strain 8047T belonged to the order Rhizobiales of the class Alphaproteobacteria , and was phylogenetically most closely related to the genus Fulvimarina , sharing 94.4 % sequence identity with the type strain of the type species. The taxonomic affiliation of strain 8047T was supported by phylogenetic analysis of four additional housekeeping genes, gyrB, recA, rpoC and rpoB. The predominant respiratory lipoquinone of strain 8047T was Q-10, the major fatty acid was C18 : 1ω7c and the DNA G+C content was 61.7 mol%. On the basis of the phenotypic and genotypic characteristics determined in this study, strain 8047T represents a novel species within the genus Fulvimarina , for which the name Fulvimarina manganoxydans sp. nov. is proposed. The type strain is strain 8047T ( = CGMCC1.10972T = JCM 18890T).
-
-
- Erratum
-
Volumes and issues
-
Volume 74 (2024)
-
Volume 73 (2023)
-
Volume 72 (2022 - 2023)
-
Volume 71 (2020 - 2021)
-
Volume 70 (2020)
-
Volume 69 (2019)
-
Volume 68 (2018)
-
Volume 67 (2017)
-
Volume 66 (2016)
-
Volume 65 (2015)
-
Volume 64 (2014)
-
Volume 63 (2013)
-
Volume 62 (2012)
-
Volume 61 (2011)
-
Volume 60 (2010)
-
Volume 59 (2009)
-
Volume 58 (2008)
-
Volume 57 (2007)
-
Volume 56 (2006)
-
Volume 55 (2005)
-
Volume 54 (2004)
-
Volume 53 (2003)
-
Volume 52 (2002)
-
Volume 51 (2001)
-
Volume 50 (2000)
-
Volume 49 (1999)
-
Volume 48 (1998)
-
Volume 47 (1997)
-
Volume 46 (1996)
-
Volume 45 (1995)
-
Volume 44 (1994)
-
Volume 43 (1993)
-
Volume 42 (1992)
-
Volume 41 (1991)
-
Volume 40 (1990)
-
Volume 39 (1989)
-
Volume 38 (1988)
-
Volume 37 (1987)
-
Volume 36 (1986)
-
Volume 35 (1985)
-
Volume 34 (1984)
-
Volume 33 (1983)
-
Volume 32 (1982)
-
Volume 31 (1981)
-
Volume 30 (1980)
-
Volume 29 (1979)
-
Volume 28 (1978)
-
Volume 27 (1977)
-
Volume 26 (1976)
-
Volume 25 (1975)
-
Volume 24 (1974)
-
Volume 23 (1973)
-
Volume 22 (1972)
-
Volume 21 (1971)
-
Volume 20 (1970)
-
Volume 19 (1969)
-
Volume 18 (1968)
-
Volume 17 (1967)
-
Volume 16 (1966)
-
Volume 15 (1965)
-
Volume 14 (1964)
-
Volume 13 (1963)
-
Volume 12 (1962)
-
Volume 11 (1961)
-
Volume 10 (1960)
-
Volume 9 (1959)
-
Volume 8 (1958)
-
Volume 7 (1957)
-
Volume 6 (1956)
-
Volume 5 (1955)
-
Volume 4 (1954)
-
Volume 3 (1953)
-
Volume 2 (1952)
-
Volume 1 (1951)