- Volume 62, Issue 2, 2012
Volume 62, Issue 2, 2012
- New Taxa
-
- Proteobacteria
-
-
Classification of avian haemolytic Actinobacillus-like organisms (Bisgaard taxon 26) associated with anseriforme birds as Actinobacillus anseriformium sp. nov.
More LessAvian haemolytic Actinobacillus-like organisms have tentatively been named Bisgaard taxon 26. Phenotypic information has been published on 65 strains of this taxon. In the current study, 31 isolates were selected for genotypic characterization. Thirty strains had the same rpoB sequence and only one strain diverged in 1 nt. The highest rpoB similarity to members of other taxa was 89.7 % to the type strain of Actinobacillus equuli subsp. haemolyticus and the similarity to the type strain of the type species, Actinobacillus lignieresii, was 88.2 %. The lowest 16S rRNA gene sequence similarity between strains of the group was determined in previous investigations to be 99.6 % and the highest similarities of 96.4 and 96.2 % outside the group were obtained to the reference strain of Actinobacillus genomospecies 2 and to the type strain of A. equuli subsp. equuli, respectively; 95.8–95.3 % similarity was obtained with the type strain of A. lignieresii. recN gene sequence similarities within the group were from 99.5 % (strains F66T and F64) to 99.8 % (strains F66T and F67) corresponding to genome similarities of 93.9–94.6 %, which are near the upper limit for species compared with other members of the Pasteurellaceae. The highest recN similarity outside the group (83.4 %) was observed to the type strain of Actinobacillus capsulatus, whereas the similarity to the type strain of A. lignieresii was 80.9 %, corresponding to genome similarities of 57.7 and 52.0 %, respectively. All isolates meet the phenotypic characters outlined for Actinobacillus (urease-, phosphatase- and porphyrin-positive, indole-negative, acid production from fructose, sucrose, maltose and dextrin). β-Haemolysis of bovine blood is observed and isolates may demonstrate in vitro satellitic growth, referred to as V-factor or NAD requirement. Isolates have been obtained from the upper respiratory tract of web-footed birds in which they may cause sinusitis, conjunctivitis and septicaemia. Based on the characterization reported, it is proposed that the isolates belong to a novel species, Actinobacillus anseriformium sp. nov., which includes taxon 26 and a V-factor-dependent strain. The major fatty acids of the type strain are C16 : 1ω7c, C14 : 0, C16 : 0 and C14 : 0 3-OH and/or iso-C16 : 1 I, corresponding to the profile observed for the type strain of A. lignieresii. Five to 12 characters separate A. anseriformium from other taxa of Actinobacillus, with Actinobacillus ureae being most closely related; A. anseriformium can be differentiated from A. ureae based on haemolysis, β-glucosidase, and production of acid from (−)-d-sorbitol, trehalose and glycosides. The type strain of A. anseriformium is F66T ( = CCUG 60324T = CCM 7846T), which was isolated from conjunctivitis in a White Pekin duck.
-
-
-
Massilia oculi sp. nov., isolated from a human clinical specimen
More LessA Gram-negative, rod-shaped, non-spore-forming bacterium (strain CCUG 43427AT) was isolated from a patient suffering from endophthalmitis and its taxonomic position was studied. 16S rRNA gene sequence analysis indicated that this strain was a member of the genus Massilia. Strain CCUG 43427AT was most closely related to the type strains of Massilia timonae (97.4 % 16S rRNA gene sequence similarity) and Massilia aurea (97.2 %); levels of similarity to the type strains of all other recognized Massilia species were below 97.0 %. Chemotaxonomic data [Q-8 as major ubiquinone; phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol as major polar lipids; and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0, C18 : 1ω7c, C12 : 0 and C10 : 0 3-OH as major fatty acids] supported the affiliation of the isolate to the genus Massilia. Levels of DNA–DNA relatedness of strain CCUG 43427AT with M. timonae CCUG 45783T and M. aurea AP13T were 60.6 % (reciprocal, 55.8 %) and 58.1 % (reciprocal, 34.0 %), respectively. Strain CCUG 43427AT could be differentiated from its closest phylogenetic neighbours based on a range of phenotypic characteristics. Strain CCUG 43427AT is therefore considered to represent a novel species of the genus Massilia, for which the name Massilia oculi sp. nov. is proposed. The type strain is CCUG 43427AT ( = CCM 7900T).
-
-
-
Idiomarina maris sp. nov., a marine bacterium isolated from sediment
A protease-producing marine bacterium, designated CF12-14T, was isolated from sediment of the South China Sea. Phylogenetic analysis of the 16S rRNA gene sequence revealed that strain CF12-14T formed a separate lineage within the genus Idiomarina (Gammaproteobacteria). The isolate showed the highest 16S rRNA gene sequence similarity with Idiomarina salinarum ISL-52T (94.7 %), Idiomarina seosinensis CL-SP19T (94.6 %) and other members of the genus Idiomarina (91.9–94.6 %). Cells were Gram-negative, aerobic, flagellated, straight or slightly curved, and often formed buds and prosthecae. Strain CF12-14T grew at 4–42 °C (optimum 30–35 °C) and with 0.1–15 % (w/v) NaCl (optimum 2–3 %). The isolate reduced nitrate to nitrite and hydrolysed DNA, but did not produce acids from sugars. The predominant cellular fatty acids were iso-C15 : 0 (27.4 %), iso-C17 : 0 (16.0 %) and iso-C17 : 1ω9c (15.8 %). The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The major respiratory quinone was ubiquinone 8. The DNA G+C content was 50.4 mol%. The phylogenetic, phenotypic and chemotaxonomic data supported the conclusion that CF12-14T represents a novel species of the genus Idiomarina, for which the name Idiomarina maris sp. nov. is proposed. The type strain is CF12-14T ( = CCTCC AB 208166T = KACC 13974T).
-
-
-
Polynucleobacter difficilis sp. nov., a planktonic freshwater bacterium affiliated with subcluster B1 of the genus Polynucleobacter
More LessStrain AM-8B5T, isolated from Lake Sevan in Armenia, was characterized phenotypically, chemotaxonomically and phylogenetically. This chemo-organoheterotrophic, aerobic, facultatively anaerobic, catalase- and oxidase-positive, non-motile strain grew on NSY medium at NaCl concentrations of 0.0–0.2 % (w/v) and at 4–30 °C. Whole-cell fatty acids were dominated by summed feature 3 (including C16 : 1ω7c and iso-C15 : 0 2-OH), C16 : 0 and C18 : 1ω7c. C12 : 0 2-OH and C16 : 1 2-OH were the only hydroxylated fatty acids detected. Phylogenetic analysis as well as phenotypic and chemotaxonomic similarities indicated that the novel isolate was affiliated with the genus Polynucleobacter. 16S rRNA gene similarity values with the four previously described Polynucleobacter species ranged from 96.2 to 98.7 %. DNA–DNA hybridization experiments showed that the isolate did not belong to any of the previously described Polynucleobacter species. The isolate could be distinguished from all previously established Polynucleobacter species based on chemotaxonomic and phenotypic traits. The bacterium possessed a free-living lifestyle and represents a group of bacteria inhabiting the water column of many freshwater lakes. Based on the revealed phylogeny, and chemotaxonomic and phenotypic differences to previously described Polynucleobacter species, it is proposed that the isolate represents a novel species, Polynucleobacter difficilis sp. nov.; the type strain is AM-8B5T ( = DSM 22349T = CIP 110078T).
-
-
-
Pseudomonas litoralis sp. nov., isolated from Mediterranean seawater
Strains 2SM5T and 2SM6, two strictly aerobic chemo-organotrophic gammaproteobacteria, were isolated from Mediterranean seawater off the coast of Vinaroz, Castellón, Spain, in February, 1990. They were extensively characterized by a polyphasic study that placed them in the genus Pseudomonas. Phylogenetic analysis of 16S rRNA gene sequences showed that both strains shared 100 % sequence similarity and were closely related to members of the Pseudomonas pertucinogena clade, with less than 97.3 % similarity to strains of established species; Pseudomonas xiamenensis was the closest relative. Analysis of sequences of three housekeeping genes, rpoB, rpoD and gyrB, further confirmed the phylogenetic assignment of the Mediterranean isolates. Chemotaxonomic traits such as quinone and polar lipid composition also corroborated the placement of strains 2SM5T and 2SM6 in the gammaproteobacteria. Other phenotypic traits, including fatty acid composition, enabled clear differentiation of both isolates from other species of Pseudomonas. We therefore conclude that strains 2SM5T and 2SM6 represent a novel species of Pseudomonas, for which the name Pseudomonas litoralis is proposed; the type strain is 2SM5T ( = CECT 7670T = KCTC 23093T).
-
- Bacteroidetes
-
-
Fodinibius salinus gen. nov., sp. nov., a moderately halophilic bacterium isolated from a salt mine
A novel, moderately halophilic, rod-shaped bacterium, designated strain YIM D17T, was isolated from a sample of sediment from a salt mine in Yunnan, south-western China. The taxonomy of strain YIM D17T was investigated using a polyphasic approach. Strain YIM D17T was Gram-stain-negative, strictly aerobic and non-motile and formed pink colonies on marine agar. Optimal growth occurred at 37 °C, pH 7.5–8.0 and in the presence of 10–15 % (w/v) NaCl. The major menaquinone was MK-7. The polar lipid profile was composed predominantly of diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, one phospholipid, one glycolipid and one aminolipid. Minor amounts of other lipids were also detectable. The predominant cellular fatty acids were iso-C17 : 1ω9c/10-methyl-C16 : 0 (24.0 %), iso-C15 : 0 (23.6 %) and C16 : 1ω7c/C16 : 1ω6c (13.8 %). The DNA G+C content was 43.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that the isolate formed a distinct clade with the genera Gracilimonas and Balneola (both in the phylum Bacteroidetes) and was related to the species Gracilimonas tropica, Balneola vulgaris and Balneola alkaliphila, with sequence similarities of 85.6 %, 83.0 % and 82.8 % to the respective type strains. On the basis of its phenotypic, chemotaxonomic and phylogenetic features, strain YIM D17T represents a novel species of a new genus, for which the name Fodinibius salinus gen. nov., sp. nov. is proposed. The type strain is YIM D17T ( = ACCC 10716T = DSM 21935T).
-
-
-
Algoriphagus jejuensis sp. nov., isolated from seawater
More LessA Gram-negative, pink-pigmented, non-motile, strictly aerobic rod, designated CNU040T, was isolated from seawater from the coast of Jeju Island in Korea. The temperature, pH and NaCl ranges for growth were 4–30 °C, pH 5.5–10.0 and 0–5.0 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain CNU040T belonged to a distinct lineage in the genus Algoriphagus and exhibited high sequence similarity with Algoriphagus terrigena DS-44T (98.3 %) and Algoriphagus alkaliphilus AC-74T (96.6 %) and lower sequence similarity (<96.0 %) with all other members of the genus Algoriphagus. DNA–DNA relatedness between strain CNU040T and A. terrigena KCTC 12545T was 44.5 %. The DNA G+C content of the isolate was 48.5 mol% and the major respiratory quinone was menaquinone-7. The major cellular fatty acids were iso-C15 : 0 (28.6 %) and summed feature 3 (consisting of iso-C15 : 0 2-OH and/or C16 : 1ω7c; 24.0 %). The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, one unknown amino lipid, one unknown aminophospholipid and three unknown polar lipids. On the basis of phenotypic, phylogenetic and genotypic data, strain CNU040T represents a novel species within the genus Algoriphagus, for which the name Algoriphagus jejuensis sp. nov. is proposed. The type strain is CNU040T ( = KCTC 22647T = JCM 16112T).
-
-
-
Tenacibaculum jejuense sp. nov., isolated from coastal seawater
More LessA Gram-staining-negative, strictly aerobic and rod-shaped bacterium, designated strain CNURIC013T, was isolated from seawater collected on the coast of Jeju Island, South Korea. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain CNURIC013T belonged to the genus Tenacibaculum, within the family Flavobacteriaceae. Sequence similarities between the novel strain and the type strains of recognized species of the genus Tenacibaculum were 93.6–96.0 %, the highest value being with Tenacibaculum litopenaei B-IT (96 %). The DNA G+C content of the novel strain was 34.5 mol% and the major respiratory quinone was menaquinone-6. The major fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH; 26.0 %), iso-C15 : 0 (24.4 %), iso-C15 : 1 G (18.5 %) and iso-C17 : 0 3-OH (8.1 %). The polar lipids consisted of phosphatidylethanolamine, one unknown aminophospholipid and nine unknown polar lipids. On the basis of the phenotypic, phylogenetic and genotypic data, strain CNURIC013T represents a novel species within the genus Tenacibaculum, for which the name Tenacibaculum jejuense sp. nov. is proposed. The type strain is CNURIC013T ( = KCTC 22618T = JCM 15975T).
-
-
-
Lutibacter aestuarii sp. nov., isolated from a tidal flat sediment, and emended description of the genus Lutibacter Choi and Cho 2006
More LessA Gram-negative, non-spore-forming, non-motile rod, designated MA-My1T, was isolated from a tidal flat sediment of the South Sea, Korea. Strain MA-My1T grew optimally at pH 7.0–7.5, at 30 °C and with 2.0–3.0 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain MA-My1T clustered with Lutibacter litoralis CL-TF09T and Lutibacter maritimus S7-2T, with which it exhibited 97.3 and 95.3 % 16S rRNA gene sequence similarity, respectively. Strain MA-My1T contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C15 : 0 3-OH and iso-C16 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine and two unidentified lipids. The DNA G+C content was 30.6 mol% and DNA–DNA relatedness between strain MA-My1T and L. litoralis JCM 13034T was 6.3±0.8 %. The differential phenotypic properties, together with phylogenetic and genotypic distinctiveness, distinguished strain MA-My1T from the members of the genus Lutibacter. On the basis of the data presented, strain MA-My1T is considered to represent a novel species of the genus Lutibacter, for which the name Lutibacter aestuarii sp. nov. is proposed. The type strain is MA-My1T ( = KCTC 23499T = CCUG 60022T).
-
-
-
Tenacibaculum dicentrarchi sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from European sea bass
More LessA novel Gram-stain-negative rod-shaped gliding bacterial strain, designated 35/09T, was isolated from diseased European sea bass (Dicentrarchus labrax L.) in Spain. Colonies were pale-yellow-pigmented with uneven edges and did not adhere to the agar. The DNA G+C content of the isolate was 31.3 mol%. 16S rRNA gene sequence analysis indicated affiliation to the genus Tenacibaculum (family Flavobacteriaceae, phylum ‘Bacteroidetes’). Sequence similarities between the isolate and type strains of other members of the genus were 93.1–97.3 %. The major fatty acids (>5 % of the total fatty acids) were iso-C15 : 0 (24.8 %), iso-C15 : 0 3-OH (18.0 %), anteiso-C15 : 0 (8.1 %), C15 : 1ω6c (6.9 %) and iso-C15 : 1 (6.2 %). Genotypic and phenotypic data indicate that strain 35/09T should be classified as a representative of a novel species in the genus Tenacibaculum, for which the name Tenacibaculum dicentrarchi sp. nov. is proposed; the type strain is 35/09T ( = CECT 7612T = NCIMB 14598T).
-
- Other Bacteria
-
-
Telmatobacter bradus gen. nov., sp. nov., a cellulolytic facultative anaerobe from subdivision 1 of the Acidobacteria, and emended description of Acidobacterium capsulatum Kishimoto et al. 1991
A Gram-negative, facultatively anaerobic, chemo-organotrophic, non-pigmented, slow-growing bacterium was isolated from acidic Sphagnum peat and designated strain TPB6017T. Cells of this strain were long rods that multiplied by normal cell division and were motile by means of a single flagellum. Cells grew under reduced oxygen tension and under anoxic conditions and were able to ferment sugars and several polysaccharides, including amorphous and crystalline cellulose. Strain TPB6017T was a psychrotolerant acidophile capable of growth between pH 3.0 and 7.5 (optimum 4.5–5.0) and at 4–35 °C (optimum 20–28 °C). It was extremely sensitive to salt stress; growth was inhibited at NaCl concentrations above 0.1 % (w/v). The major fatty acids were iso-C15 : 0 and iso-C17 : 1ω9c; the polar lipids were phosphatidylethanolamine and a number of phospholipids and aminophospholipids with an unknown structure. The quinone was MK-8. The DNA G+C content was 57.6 mol%. Comparative 16S rRNA gene sequence analysis revealed that strain TPB6017T was a member of subdivision 1 of the phylum Acidobacteria and belonged to a phylogenetic lineage defined by the acidophilic aerobic chemo-organotroph Acidobacterium capsulatum (92.3 % sequence similarity). However, cell morphology, type of flagellation, the absence of pigment, differences in fatty acid and polar lipid composition, possession of a cellulolytic capability, inability to grow under fully oxic conditions and good growth in anoxic conditions distinguished strain TPB6017T from A. capsulatum. Therefore, it is proposed that strain TPB6017T represents a novel acidobacterium species in a new genus, Telmatobacter bradus gen. nov., sp. nov.; strain TPB6017T ( = DSM 23630T = VKM B-2570T) is the type strain.
-
- Eukaryotic Micro-organisms
-
-
Penicillium simile sp. nov. revealed by morphological and phylogenetic analysis
More LessThe morphology of three phenetically identical Penicillium isolates, collected from the bioaerosol in a restoration laboratory in Italy, displayed macro- and microscopic characteristics that were similar though not completely ascribable to Penicillium raistrickii. For this reason, a phylogenetic approach based on DNA sequencing analysis was performed to establish both the taxonomic status and the evolutionary relationships of these three peculiar isolates in relation to previously described species of the genus Penicillium. We used four nuclear loci (both rRNA and protein coding genes) that have previously proved useful for the molecular investigation of taxa belonging to the genus Penicillium at various evolutionary levels. The internal transcribed spacer region (ITS1–5.8S–ITS2), domains D1 and D2 of the 28S rDNA, a region of the tubulin beta chain gene (benA) and part of the calmodulin gene (cmd) were amplified by PCR and sequenced. Analysis of the rRNA genes and of the benA and cmd sequence data indicates the presence of three isogenic isolates belonging to a genetically distinct species of the genus Penicillium, here described and named Penicillium simile sp. nov. (ATCC MYA-4591T = CBS 129191T). This novel species is phylogenetically different from P. raistrickii and other related species of the genus Penicillium (e.g. Penicillium scabrosum), from which it can be distinguished on the basis of morphological trait analysis.
-
-
-
Wickerhamiella pagnoccae sp. nov. and Candida tocantinsensis sp. nov., two ascomycetous yeasts from flower bracts of Heliconia psittacorum (Heliconiaceae)
Two novel yeast species were isolated from nectar of flower bracts of Heliconia psittacorum (Heliconiaceae) collected in a Cerrado ecosystem in the state of Tocantins, northern Brazil. Wickerhamiella pagnoccae sp. nov., which is closely related to Candida jalapaonensis, is heterothallic and produces one spheroid ascospore per ascus. Candida tocantinsensis sp. nov. belongs to the Metschnikowiaceae clade and its nearest relative is Candida ubatubensis, but the sequence identity (%) in the D1/D2 domains of the rRNA gene is low. The type strain of W. pagnoccae is UFMG-F18C1T ( = CBS 12178T = NRRL Y-48735T) and the type strain of C. tocantinsensis is UFMG-F16D1T ( = CBS 12177T = NRRL Y-48734T).
-
- International Committee on Systematics of Prokaryotes
-
- Minutes
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)