- Volume 62, Issue Pt_10, 2012
Volume 62, Issue Pt_10, 2012
- Notification List
-
-
-
Notification that new names and new combinations have appeared in volume 62, part 7, 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.
-
-
- New Taxa
-
- Actinobacteria
-
-
Herbidospora mongoliensis sp. nov., isolated from soil, and reclassification of Herbidospora osyris and Streptosporangium claviforme as synonyms of Herbidospora cretacea
More LessA Gram-reaction-positive aerobic actinomycete, designated strain MN08-A0118T, which produced short chains of non-motile spores on the tips of long sporophores and formed yellow–brown colonies with branched substrate mycelium, was studied in detail to determine its taxonomic position. On the basis of 16S rRNA gene sequence analyses, strain MN08-A0118T was grouped into the genus Herbidospora , being most closely related to Streptosporangium claviforme (98.2 %), Herbidospora osyris (98.2 %), Herbidospora daliensis (98.2 %), Herbidospora cretacea (97.9 %) and Herbidospora yilanensis (97.4 %). Chemotaxonomic data supported allocation of the strain to the genus Herbidospora . MK-10(H4) was the predominant menaquinone with minor amounts of MK-10(H6), MK-10(H2) and MK-9(H4); the fatty acid profile contained major amounts of iso-C16 : 0, C17 : 0 10-methyl, iso-C14 : 0 and iso-C16 : 0 2-OH; the phospholipid profile contained phosphatidylethanolamine, phosphatidylmethylethanolamine and glucosamine-containing phospholipids; and the whole-cell sugars included ribose, glucose, galactose, madurose and rhamnose (trace). The phylogenetic data, phenotypic and genotypic properties and DNA–DNA hybridization differentiated this strain from its closely related strains, S. claviforme (35–54 % DNA–DNA relatedness), H. osyris (39–51 %), H. daliensis (3–16 %), H. cretacea (34–39 %) and H. yilanensis (34–42 %). Thus, MN08-A0118T represents a novel species of the genus Herbidospora , for which the name Herbidospora mongoliensis sp. nov. is proposed, with MN08-A0118T ( = NBRC 105882T = VTCC D9-22T) as the type strain. In addition, DNA–DNA hybridization results showed that S. claviforme and H. osyris are synonyms of H. cretacea .
-
-
-
Lentzea jiangxiensis sp. nov., isolated from acidic soil
More LessA novel actinomycete, designated strain FXJ1.034T, was isolated from acidic soil collected in Jiangxi Province, South-east China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain FXJ1.034T belonged to the genus Lentzea and showed high sequence similarities to Lentzea kentuckyensis NRRL B-24416T (98.5 %) and Lentzea albida NBRC 16102T (98.3 %). Morphological and chemotaxonomic characteristics supported its assignment to the genus Lentzea . The results of DNA–DNA hybridization, physiological and biochemical tests allowed genotypic and phenotypic differentiation of the novel strain from closely related species. Based on the evidence presented here, strain FXJ1.034T represents a novel species of the genus Lentzea , for which the name Lentzea jiangxiensis sp. nov. is proposed. The type strain is FXJ1.034T ( = CGMCC 4.6609T = NBRC 106680T).
-
-
-
Gryllotalpicola gen. nov., with descriptions of Gryllotalpicola koreensis sp. nov., Gryllotalpicola daejeonensis sp. nov. and Gryllotalpicola kribbensis sp. nov. from the gut of the African mole cricket, Gryllotalpa africana, and reclassification of Curtobacterium ginsengisoli as Gryllotalpicola ginsengisoli comb. nov.
Strains RU-16T, RU-28, RU-04T and PU-02T were isolated from the gut of the African mole cricket, Gryllotalpa africana. Phylogenetic analyses based on 16S rRNA gene sequences revealed that the strains belonged to the family Microbacteriaceae . All four strains were most closely related to Curtobacterium ginsengisoli DCY26T (below 97 % 16S rRNA gene sequence similarity). These isolates were Gram-stain-positive, motile (by gliding), rod-shaped and exhibited ivory-coloured colonies. Their chemotaxonomic properties included MK-11 as the major respiratory quinone, ornithine as the cell-wall diamino acid, acetyl as the acyl type of the peptidoglycan, cyclohexyl-C17 : 0 as the major fatty acid and phosphatidylglycerol and diphosphatidylglycerol as the major polar lipids. On the basis of phenotypic, chemotaxonomic and phylogenetic analyses, we propose a new genus in the family Microbacteriaceae , Gryllotalpicola gen. nov., with three novel species, Gryllotalpicola daejeonensis sp. nov. (type strain RU-04T = KCTC 13809T = JCM 17590T), Gryllotalpicola koreensis sp. nov. (type strain RU-16T = KCTC 13810T = JCM 17591T) and Gryllotalpicola kribbensis sp. nov. (type strain PU-02T = KCTC 13808T = JCM 17593T). Gryllotalpicola koreensis is the type species of the genus. Additionally, we propose that Curtobacterium ginsengisoli should be reclassified in the genus as Gryllotalpicola ginsengisoli comb. nov. (type strain DCY26T = KCTC 13163T = JCM 14773T).
-
-
-
Streptomyces glycovorans sp. nov., Streptomyces xishensis sp. nov. and Streptomyces abyssalis sp. nov., isolated from marine sediments
Strains YIM M 10366T, YIM M 10378T and YIM M 10400T were isolated from marine sediments collected from the Xisha Islands in the South China Sea. All three isolates were able to grow optimally at pH 7.0, 28–37 °C and 0–3 % (w/v) NaCl. Comparison of 16S rRNA gene sequences showed that these strains are members of the genus Streptomyces , exhibiting moderately high 16S rRNA gene sequence similarities of 97.0–98.8 % to members of the most closely related Streptomyces species. Morphological characteristics, physiological characteristics and compositions of whole-cell sugars and phospholipids are consistent with the diagnostic characteristics of the genus Streptomyces , but still allowed differentiation amongst the three strains and their neighbours. Based on 16S rRNA gene sequence analysis, DNA–DNA relatedness, phenotypic characteristics and chemotaxonomic data, strains YIM M 10366T, YIM M 10378T and YIM M 10400T were identified as members of three novel species of the genus Streptomyces , for which the names Streptomyces glycovorans sp. nov. (type strain YIM M 10366T = DSM 42021T = CCTCC AA2010005T), Streptomyces xishensis sp. nov. (type strain YIM M 10378T = DSM 42022T = CCTCC AA 2010006T) and Streptomyces abyssalis sp. nov. (type strain YIM M 10400T = DSM 42024T = CCTCC AA 2010008T) are proposed.
-
-
-
Pseudonocardia xishanensis sp. nov., an endophytic actinomycete isolated from the roots of Artemisia annua L.
More LessA Gram-positive, non-motile, endophytic actinomycete, designated strain YIM 63638T, was isolated from the surface-sterilized roots of Artemisia annua L. The isolate grew optimally with 1–3 % (w/v) NaCl, at pH 6.0–7.0 and at 20–37 °C. Comparative analysis of the 16S rRNA gene sequence showed that the isolate belonged to the genus Pseudonocardia and showed highest sequence similarity with Pseudonocardia oroxyli D10T (98.9 %), Pseudonocardia ailaonensis YIM 45505T (98.3 %) and Pseudonocardia halophobica IMSNU 21327T (98.0 %). Phylogenetic distance from other type strains of species with validly published names within the genus Pseudonocardia was greater than 2.3 %. Strain YIM 63638T had a genomic DNA G+C content of 72.1 mol% and MK-8(H4) as the predominant respiratory quinone. The major fatty acids were iso-C16 : 0 (36.32 %) and 10-methyl-C16 : 0 (19.78 %). On the basis of phenotypic properties and phylogenetic distinctiveness, strain YIM 63638T represents a novel species of the genus Pseudonocardia , for which the name Pseudonocardia xishanensis sp. nov. is proposed. The type strain is YIM 63638T ( = JCM 17906T = KCTC 29005T).
-
-
-
Conexibacter arvalis sp. nov., isolated from a cultivated field soil sample
More LessTwo bacterial strains, designated KV-962T and KV-963, were isolated from soil collected from a field in Japan. Cells of both strains were Gram-staining-positive, non-spore-forming, short rod-shaped and motile. Phylogenetic analysis based on 16S rRNA gene sequences indicated that these strains were related to Conexibacter woesei DSM 14684T, with a similarity value of 98.6 %. These strains possessed MK-7 (H4) as the sole menaquinone and contained C18 : 1ω9c, C17 : 1ω6c and iso-C16 : 0 as the major fatty acids. On the basis of genotypic and phenotypic characteristics, strain KV-962T and KV-963 were indicated as a novel species of the genus Conexibacter , for which the name Conexibacter arvalis sp. nov. is proposed. The type strain is KV-962T ( = DSM 23288T = NBRC 106558T)
-
-
-
Georgenia satyanarayanai sp. nov., an alkaliphilic and thermotolerant amylase-producing actinobacterium isolated from a soda lake
More LessA Gram-stain-positive, oxidase-negative, starch-hydrolysing, actinobacterium (strain JC82T) was isolated from a soda lake in Lonar, India. Based on 16S rRNA gene sequence similarity studies, strain JC82T belonged to the genus Georgenia and was most closely related to Georgenia muralis 1A-CT (96.8 %) and other members of the genus Georgenia (<96.5 %). The DNA G+C content of strain JC82T was 73.4 mol%. The cell-wall amino acids were alanine, glutamic acid and lysine with peptidoglycan type A4α. Polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides, an unidentified lipid (L1) and an unidentified glycolipid (GL3). The predominant isoprenoid quinone was menaquinone MK-8(H4). Anteiso-C15 : 0 was the predominant fatty acid and significant proportions of iso-C14 : 0, C14 : 0, C16 : 0, iso-C15 : 0 and iso-C16 : 0 were also detected. Strain JC82T produced thermostable alkaline amylase. The results of physiological and biochemical tests allowed a clear phenotypic differentiation of strain JC82T from all other members of the genus Georgenia . Based on these data, strain JC82T represents a novel species of the genus Georgenia , for which the name Georgenia satyanarayanai sp. nov. is proposed. The type strain is JC82T ( = KCTC 19802T = NBRC 107612T).
-
-
-
Compostimonas suwonensis gen. nov., sp. nov., isolated from spent mushroom compost
A Gram-positive, aerobic, non-motile, short rod, designated SMC46T, was isolated from a spent mushroom compost sample collected in the Suwon region, South Korea. 16S rRNA gene sequence analysis revealed that strain SMC46T was a member of the family Microbacteriaceae ; however, the isolate formed a branch separate from other genera within the family. Sequence similarity between strain SMC46T and other members of the family Microbacteriaceae was ≤97 %, the highest sequence similarity being with Frigoribacterium faeni 801T and Frondihabitans australicus E1HC-02T (both 97.0 %). Some chemotaxonomic properties of strain SMC46T were consistent with those of the family Microbacteriaceae : MK-11 and MK-12 as the predominant menaquinones, anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0 as the major cellular fatty acids and diphosphatidylglycerol, phosphatidylglycerol and an unidentified glycolipid as the polar lipids. However, strain SMC46T contained a B-type peptidoglycan not previously found in the family Microbacteriaceae . The DNA G+C content was 68 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic distinctiveness, strain SMC46T was considered to represent a novel genus and species in the family Microbacteriaceae , for which the name Compostimonas suwonensis gen. nov., sp. nov. is proposed. The type strain of the type species is SMC46T ( = KACC 13354T = NBRC 106304T).
-
-
-
Thermocatellispora tengchongensis gen. nov., sp. nov., a new member of the family Streptosporangiaceae
A novel Gram-positive, aerobic, spore-forming, thermophilic actinomycete, designated strain YIM 77521T, was isolated from a sandy soil sample collected at Rehai National Park, Tengchong, Yunnan province, south-west China. The strain formed branched substrate mycelia and no fragmentation was found. Masses of short, straight or irregular chains of three to eight warty ornamented spores were borne from aerial mycelia. The strain contained meso-diaminopimelic acid in the cell wall and the whole-cell sugars contained mannose, galactose, glucose and ribose. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H8). The diagnostic polar lipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, hydroxyphosphatidylmonomethylethanolamine and N-acetylglucosamine-containing phospholipids. The major fatty acids were iso-C16 : 0, C17 : 0 10-methyl and C18 : 0. The DNA G+C content of strain YIM 77521T was 73.3 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 77521T fell within the radiation of the suborder Streptosporangineae and formed a distinct monophyletic lineage adjacent to the family Streptosporangiaceae with a high bootstrap value. On the basis of combined data from the phenotypic and phylogenetic analyses, strain YIM 77521T represents a novel genus and species within the family Streptosporangiaceae , for which the name Thermocatellispora tengchongensis gen. nov., sp. nov. is proposed. The type strain is YIM 77521T ( = DSM 45615T = CCTCC AA 2011013T).
-
-
-
Microbispora hainanensis sp. nov., isolated from rhizosphere soil of Excoecaria agallocha in a mangrove
Strain 211020T was isolated from rhizosphere soil of Excoecaria agallocha in a mangrove in Hainan, China. The strain produced longitudinal pair spores branching from aerial hyphae. 16S rRNA gene sequence analysis showed that the isolate belonged to the genus Microbispora , exhibiting the highest 16S rRNA gene sequence similarity (98.75 %) to Microbispora corallina JCM 10267T with a low DNA–DNA relatedness value (13±0.6 %). The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid but madurose was not detected. The predominant menaquinones were MK-9(H4), MK-9(H2) and MK-9(H0), and the major fatty acids were iso-C16 : 0, iso-C15 : 0 and C17 : 0. The phospholipid profile of strain 211020T comprised phosphatidylinositol mannoside, phosphatidylethanolamine, diphosphatidylglycerol and phospholipids of unknown structure containing glucosamine. The DNA G+C content was 70.8 mol%. On the basis of phenotypic and genotypic data, strain 211020T can be distinguished as a novel species of the genus Microbispora , for which the name Microbispora hainanensis sp. nov., is proposed. The type strain is 211020T ( = CGMCC 4.5595T = DSM 45428T).
-
-
-
Plantactinospora endophytica sp. nov., an actinomycete isolated from Camptotheca acuminata Decne., reclassification of Actinaurispora siamensis as Plantactinospora siamensis comb. nov. and emended descriptions of the genus Plantactinospora and Plantactinospora mayteni
A novel endophytic actinomycete, designated strain YIM 68255T, was isolated from healthy leaves of Camptotheca acuminata Decne. collected in Yunnan province, south-west China and characterized by using a polyphasic approach. The strain formed well-developed substrate mycelium, but no aerial mycelium. It grew at 10–45 °C, at pH 5–10 (optimum pH 7) and in the presence of 0–3 % (w/v) NaCl. The DNA G+C content was 73.0 mol%. Phylogenetic analyses showed that strain YIM 68255T belonged to the genus Plantactinospora . However, it exhibited some differences from Plantactinospora mayteni YIM 61359T and the level of DNA–DNA relatedness was 42.7±1.3 %. Based on comparative analysis of physiological and chemotaxonomic data, it is proposed that strain YIM 68255T represents a novel species of the genus Plantactinospora , Plantactinospora endophytica sp. nov., with strain YIM 68255T ( = DSM 45387T = CCTCC AA 209047T) as the type strain. In addition, it is also proposed that Actinaurispora siamensis Thawai et al. 2010 be transferred to the genus Plantactinospora as Plantactinospora siamensis comb. nov. [type strain CM2-8T ( = JCM 15677T = BCC 34762T)] based on chemotaxonomic characteristics and phylogenetic analysis. Emended descriptions of the genus Plantactinospora and Plantactinospora mayteni are also provided.
-
-
-
Cryptosporangium mongoliense sp. nov., isolated from soil
More LessA Gram-positive, aerobic, non-motile actinomycete, strain MN08-A0264T, was isolated from soil sampled in Mongolia. The isolate formed pale to moderate yellowish brown colonies and branched substrate mycelium. On the basis of 16S rRNA gene sequence analysis, strain MN08-A0264T belonged to the genus Cryptosporangium and exhibited 97.9 % 16S rRNA gene sequence similarity with Cryptosporangium aurantiacum IMSNU 22120T, 97.7 % with C. minutisporangium IFO 15962T, 97.2 % with C. arvum IFO 15965T and 96.8 % with C. japonicum IFO 15966T. The allocation of the isolate to the genus Cryptosporangium was supported by chemotaxonomic data: menaquinone MK-9(H6) with minor amounts of MK-9(H8) and MK-9(H4), major amounts of iso-C16 : 0, C18 : 19c and C17 : 0 10-methyl, a polar lipid profile comprising phosphatidylethanolamine, phosphatidylinositol, diphosphatidylglycerol, phosphatidylglycerol and glycolipids, and whole-cell sugars glucose, galactose, acofriose (3-0 methylrhamnose), mannose, ribose, arabinose, xylose and rhamnose (trace). DNA–DNA relatedness (5–20 %) differentiated the isolate from its closest neighbours. The physiological and biochemical tests allowed the differentiation of strain MN08-A0264T from members of the genus Cryptosporangium . Thus, strain MN08-A0264T represents a novel species, for which the name Cryptosporangium mongoliense sp. nov. is proposed. The type strain is MN08-A0264T ( = NBRC 105887T = VTCC D9-27T).
-
-
-
Oceanitalea nanhaiensis gen. nov., sp. nov., an actinobacterium isolated from seawater
More LessA Gram-positive, motile, short-rod-shaped bacterium, designated strain JLT1488T, was isolated from the South China Sea and investigated in a taxonomic study using a polyphasic approach. The peptidoglycan type determined for strain JLT1488T was A4α with lysine as the diagnostic cell-wall diamino acid and an interpeptide bridge of l-Lys–l-Glu. The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides, an unknown glycolipid and an unknown phospholipid. The only detected menaquinone was MK-8(H4), and the major fatty acids were summed feature 8 (C18 : 1ω7c/C18 : 1ω6c) , C16 : 0 and summed feature 3 (C16 : 1ω7c/C16 : 1ω6c); significant amounts of C12 : 0 3-OH, C10 : 0 and C19 : 0 cyclo ω8c were also present. The G+C content of the genomic DNA was 62.3 mol%. Comparison of the 16S rRNA gene sequence of strain JLT1488T with those of related type strains demonstrated that it represented a novel lineage within the family Bogoriellaceae , suborder Micrococcineae , being closely related to species of the genera Georgenia , Bogoriella and Cellulomonas (94.6–96.8 % sequence similarity). These results demonstrate that strain JLT1488T is a member of a new genus, for which the name Oceanitalea nanhaiensis gen. nov., sp. nov. is proposed. The type strain of the type species is JLT1488T ( = JCM 17755T = CGMCC 1.10826T).
-
-
-
Rhodococcus nanhaiensis sp. nov., an actinobacterium isolated from marine sediment
More LessIn this study, two strains (SCSIO 10187T and SCSIO 10197) were isolated from a sediment sample collected from the South China Sea and characterized by using a polyphasic approach. Growth was observed at 15–35 °C (optimum 28 °C) and pH 5.0–8.0 (optimum pH 6.0). Based on 16S rRNA gene sequence analysis, the strains were identified as members of the genus Rhodococcus . Phylogenetic analysis showed that the two strains clustered together and the 16S rRNA gene sequence similarities between them and other members of the genus Rhodococcus were 93.2–97.7 %. The menaquinone type was MK-8(H2). Major cellular fatty acids were C16 : 0, C18 : 1ω9c, C17 : 0, 10-methyl C18 : 0, C18 : 0, C19 : 0 and C17 : 1ω8c. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside. The DNA G+C contents of strains SCSIO 10187T and SCSIO 10197 were 63.7 and 63.2 mol%, respectively. The combined genotypic and phenotypic data showed that the two strains represent a novel species of the genus Rhodococcus , for which the name Rhodococcus nanhaiensis is proposed; the type strain is SCSIO 10187T ( = DSM 45608T = CCTCC AB 2011024T), with SCSIO 10197 ( = DSM 45609 = CCTCC AB 2011025) as a reference strain.
-
-
-
Actinoplanes atraurantiacus sp. nov., isolated from soil
More LessA Gram-positive-staining bacterium, designated Y16T, was isolated from a soil sample from Yunnan Province, China. The isolate grew optimally at 25–30 °C, grew at pH 6.0–9.0 and could grow with 3 % NaCl. Strain Y16T had cell-wall peptidoglycan based on meso-diaminopimelic acid. The predominant menaquinones were MK-9(H4) and MK-9(H2). The major fatty acid methyl esters were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and C16 : 0. These chemotaxonomic characteristics suggested that the organism belonged to the genus Actinoplanes . Strain Y16T shared 98.7, 98.3 and 97.9 % 16S rRNA gene sequence similarity with Actinoplanes deccanensis IFO 13994T, A. abujensis A4029T and A. brasiliensis DSM 43805T, respectively. The DNA G+C content of the isolate was 70.8 mol%. DNA–DNA relatedness between the novel isolate and the type strains of A. deccanensis , A. abujensis and A. brasiliensis was 35.2, 32.0 and 22.3 %, respectively. In addition, the pattern of phenotypic properties distinguished strain Y16T from its closest phylogenetic neighbours. It is therefore concluded that strain Y16T ( = CGMCC 4.6857T = JCM 17700T) represents a novel species of the genus Actinoplanes , for which the name Actinoplanes atraurantiacus sp. nov. is proposed.
-
- Firmicutes and Related Organisms
-
-
Cellulosibacter alkalithermophilus gen. nov., sp. nov., an anaerobic alkalithermophilic, cellulolytic-xylanolytic bacterium isolated from soil of a coconut garden
An obligately anaerobic, cellulolytic-xylanolytic bacterium, designated strain A6T, was isolated from soil of a coconut garden in the Bangkuntien district of Bangkok, Thailand. The strain was Gram-stain positive, catalase-negative, endospore-forming, motile and rod-shaped with a cell size of 0.2–0.3×2.0–3.0 µm. Optimal growth of strain A6T occurred at pH55 °C 9.5, 55 °C. Strain A6T fermented various carbohydrates, and the end products from the fermentation of cellobiose were acetate, ethanol, propionate and a small amount of butyrate. The major cellular fatty acids were iso-C14 : 0 3-OH, iso-C15 : 0, iso-C16 : 0 and C16 : 0. The cell-wall peptidoglycan contained meso-diaminopimelic acid. No respiratory quinones were detected. The DNA G+C content was 30.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the strain represented a new phyletic sublineage within the family Clostridiaceae , with <93.0 % 16S rRNA gene sequence similarity to recognized species of this family. On the basis of phenotypic, genotypic and physiological evidence, strain A6T represents a novel species of a new genus, for which the name Cellulosibacter alkalithermophilus gen. nov., sp. nov. is proposed. The type strain of the type species is A6T ( = TISTR 1915T = KCTC 5874T).
-
-
-
Peptoniphilus duerdenii sp. nov. and Peptoniphilus koenoeneniae sp. nov., isolated from human clinical specimens
More LessTwo previously uncharacterized strains of Gram-reaction-positive, anaerobic, coccus-shaped bacteria, designated strains WAL 18896T and WAL 18898T, were recovered from human wound specimens and characterized using phenotypic, chemotaxonomic and molecular taxonomic methods. Comparative 16S rRNA gene sequence analysis and chemotaxonomic and biochemical characteristics demonstrated that these organisms are genotypically and phenotypically distinct and represent previously unidentified sublines within the order Clostridiales in the phylum Firmicutes. Pairwise sequence analysis demonstrated that the novel organisms had 91.9 % sequence similarity to each other and were most closely related to members of the genus Peptoniphilus. The major long-chain fatty acids of both strains were C16 : 0, C18 : 0, C18 : 1ω9c and C18 : 2ω6,9c. Based on the phenotypic and phylogenetic findings, strains WAL 18896T ( = CCUG 56065T = ATCC BAA-1640T) and WAL 18898T ( = CCUG 56067T = ATCC BAA-1638T = DSM 22616T) represent two novel species, for which the names Peptoniphilus duerdenii sp. nov. and Peptoniphilus koenoeneniae sp. nov. are proposed, respectively.
-
-
-
Description of Lysinibacillus sinduriensis sp. nov., and transfer of Bacillus massiliensis and Bacillus odysseyi to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov. with emended description of the genus Lysinibacillus
A Gram-positive, rod-shaped, endospore-forming bacterium, designated strain BLB-1T, was isolated from samples of tidal flat sediment from the Yellow Sea. 16S rRNA gene sequence analysis demonstrated that the isolate belonged to the Bacillus rRNA group 2 and was closely related to Bacillus massiliensis CIP 108446T (97.4 %), Bacillus odysseyi ATCC PTA-4993T (96.7 %), Lysinibacillus fusiformis DSM 2898T (96.2 %) and Lysinibacillus boronitolerans DSM 17140T (95.9 %). Sequence similarities with related species in other genera, including Caryophanon , Sporosarcina and Solibacillus , were <96.1 %. Chemotaxonomic data supported the affiliation of strain BLB-1T with the genus Lysinibacillus . The major menaquinone was MK-7, the cell-wall sugars were glucose and xylose, the cell-wall peptidoglycan type was A4α (l-Lys–d-Asp), the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown phospholipids, and the major fatty acids were anteiso-C15 : 0 (35.6 %), iso-C15 : 0 (25.6 %) and anteiso-C17 : 0 (16.5 %). The most closely related species, Bacillus massiliensis and Bacillus odysseyi , were also assigned to this genus based on phylogenetic analysis and phenotypic data. The results of DNA–DNA hybridizations and phenotypic tests supported the differentiation of all three taxa from species of the genus Lysinibacillus with validly published names. Thus, strain BLB-1T ( = KCTC 13296T = JCM 15800T) represents a novel species, for which the name Lysinibacillus sinduriensis sp. nov. is proposed. It is also proposed that Bacillus massiliensis CIP 108446T ( = 4400831T = CCUG49529T = KCTC 13178T) and Bacillus odysseyi NBRC 100172T ( = 34hs-1T = ATCC PTA-4993T = NRRL B-30641T = DSM 18869T = CIP 108263T = KCTC 3961T) be transferred to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov., respectively.
-
-
-
Reclassification of Lactobacillus kimchii and Lactobacillus bobalius as later subjective synonyms of Lactobacillus paralimentarius
More LessCharacterization and identification of strain CW 1 ( = JCM 17161) isolated from corn silage were performed. Strain CW 1 was a Gram-positive, catalase-negative and homofermentative rod that produced the dl-form of lactic acid. This strain exhibited more than 99.6 % 16S rRNA gene sequence similarity and greater than 82 % DNA–DNA reassociation with type strains of Lactobacillus kimchii , L. bobalius and L. paralimentarius . To clarify the taxonomic positions of these type strains, phenotypic characterization, 16S rRNA gene sequencing, ribotyping and DNA–DNA relatedness were examined. The three type strains displayed different l-arabinose, lactose, melibiose, melezitose, raffinose and N-acetyl-β-glucosaminidase fermentation patterns. Phylogenetic analysis showed that L. paralimentarius is a closer neighbour of L. kimchii and L. bobalius , sharing 99.5–99.9 % 16S rRNA gene sequence similarity, which was confirmed by the high DNA–DNA relatedness (≥82 %) between L. paralimentarius JCM 10415T, L. bobalius JCM 16180T and L. kimchii JCM 10707T. Therefore, it is proposed that L. kimchii and L. bobalius should be reclassified as later synonyms of L. paralimentarius .
-
-
-
Anaerosalibacter bizertensis gen. nov., sp. nov., a halotolerant bacterium isolated from sludge
A strictly anaerobic, halotolerant and thermotolerant strain, designated C5BELT, was isolated in north Tunisia from storage tanks holding waste generated by the recycling of discarded motor oils. Cells of strain C5BELT were Gram-stain-positive, motile by laterally inserted flagella, straight, and spore-forming. Their two major fatty acids were iso-C15 : 0 and iso-C15 : 0 dimethyl acetal. Growth was observed at temperatures of 25–55 °C (optimum, 40 °C) and at pH 6–9 (optimum, pH 7.5). The salinity range for growth was 0–100 g l−1 NaCl (optimum, 5 g l−1). Yeast extract was required for growth. Strain C5BELT was heterotrophic, able to use glucose, pyruvate, succinate, yeast extract, bio-trypticase and peptone, but unable to grow on Casamino acids. Sulfate, thiosulfate, sulfite, elemental sulfur, fumarate, nitrate and nitrite were not reduced. The DNA G+C content of strain C5BELT was 31.1 mol%. 16S rRNA gene sequence analysis indicated that strain C5BELT was a member of the family Clostridiaceae , class Clostridia , phylum Firmicutes and was most closely related to Sporanaerobacter acetigenes Lup33T ( = DSM 13106T) (92.4 % similarity). On the basis of 16S rRNA gene sequence comparisons and physiological characteristics, strain C5BELT can be classified as a novel species in a new genus, for which the name Anaerosalibacter bizertensis gen. nov., sp. nov. is proposed. The type strain of the type species is C5BELT ( = DSM 23801T = JCM 17239T).
-
-
-
Reclassification of Bacillus beijingensis Qiu et al. 2009 and Bacillus ginsengi Qiu et al. 2009 as Bhargavaea beijingensis comb. nov. and Bhargavaea ginsengi comb. nov. and emended description of the genus Bhargavaea
We have carried out a polyphasic taxonomic characterization of Bacillus beijingensis DSM 19037T and Bacillus ginsengi DSM 19038T, which are closely related phylogenetically to Bhargavaea cecembensis LMG 24411T. All three strains are Gram-stain-positive, non-motile, moderately halotolerant and non-spore-forming. 16S rRNA gene sequence analyses showed that the strains constituted a coherent cluster, with sequence similarities between 99.7 and 98.7 %. The percentage similarity on the basis of amino acid sequences deduced from partial gyrB gene nucleotide sequences of these three type strains was 96.1–92.7 %. Phylogenetic trees based on the 16S rRNA gene and GyrB amino acid sequences, obtained by using three different algorithms, were consistent and showed that these three species constituted a deeply rooted cluster separated from the clades represented by the genera Bacillus , Planococcus , Planomicrobium , Sporosarcina , Lysinibacillus , Viridibacillus , Kurthia and Geobacillus , supporting their placement in the genus Bhargavaea . All three type strains have menaquinone MK-8 as the major respiratory quinone and showed similar fatty acid profiles. The main polar lipids present in the three type strains were diphosphatidylglycerol and phosphatidylglycerol, and the three strains showed peptidoglycan type A4α with l-lysine as the diagnostic diamino acid. The DNA G+C contents of Bacillus beijingensis DSM 19037T, Bacillus ginsengi DSM 19038T and Bhargavaea cecembensis LMG 24411T were 53.1, 50.2 and 53.7 mol%, respectively. The level of DNA–DNA hybridization among the three strains was 57–39 %, indicating that they are members of different species of the genus Bhargavaea . The phenotypic data are consistent with the placement of these three species in a single genus and support their differentiation at the species level. On the basis of these data, we have emended the description of the genus Bhargavaea and propose the reclassification of Bacillus beijingensis and Bacillus ginsengi to the genus Bhargavaea , as Bhargavaea beijingensis comb. nov. (type strain ge10T = DSM 19037T = CGMCC 1.6762T) and Bhargavaea ginsengi comb. nov. (type strain ge14T = DSM 19038T = CGMCC 1.6763T).
-
- Proteobacteria
-
-
Delftia litopenaei sp. nov., a poly-β-hydroxybutyrate-accumulating bacterium isolated from a freshwater shrimp culture pond
More LessA Gram-negative, short-rod-shaped, motile, non-spore-forming and poly-β-hydroxybutyrate-accumulating bacterial strain, designated wsw-7T, was isolated from a freshwater shrimp culture pond in Taiwan and was characterized using a polyphasic taxonomic approach. Phylogenetic analyses based on 16S rRNA gene sequences showed that the closest relatives of strain wsw-7T were Delftia lacustris 332T, Delftia tsuruhatensis T7T and Delftia acidovorans ATCC 15668T, with sequence similarities of 98.5, 98.4 and 97.9 %, respectively. Phylogenetic trees obtained with 16S rRNA gene sequences or the polyhydroxyalkanoate synthase (phaC) gene sequences revealed that strain wsw-7T and these three closest relatives formed an independent phylogenetic clade within the order Burkholderiales . Strain wsw-7T contained summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c as predominant fatty acids. The major isoprenoid quinone was Q-8 and the DNA G+C content was 67.6 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, an uncharacterized aminolipid and several uncharacterized phospholipids. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain wsw-7T represents a novel species in the genus Delftia , for which the name Delftia litopenaei sp. nov. is proposed; the type strain is wsw-7T ( = BCRC 80212T = LMG 25724T).
-
-
-
Massilia tieshanensis sp. nov., isolated from mining soil
Yan Du, Xiang Yu and Gejiao WangA bacterial isolate, designated strain TS3T, was isolated from soil collected from a metal mine in Tieshan District, Daye City, Hubei Province, in central China. Cells of this strain were Gram-negative, motile and rod-shaped. The strain had ubiquinone Q-8 as the predominant respiratory quinone, phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol as the major polar lipids and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0 and C18 : 1ω7c as the major fatty acids. The G+C content was 65.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain TS3T was most closely related to Massilia niastensis 5516S-1T (98.5 %), Massilia consociata CCUG 58010T (97.6 %), Massilia aerilata 5516S-11T (97.4 %) and Massilia varians CCUG 35299T (97.2 %). DNA–DNA hybridization revealed low relatedness between strain TS3T and M. niastensis KACC 12599T (36.5 %), M. consociata CCUG 58010T (27.1 %), M. aerilata KACC 12505T (22.7 %) and M. varians CCUG 35299T (46.5 %). On the basis of phenotypic and phylogenetic characteristics, strain TS3T belongs to the genus Massilia , but is clearly differentiated from other members of the genus. The strain represents a novel species, for which the name Massilia tieshanensis sp. nov. is proposed. The type strain is TS3T ( = CCTCC AB 2010202T = KACC 14940T).
-
-
-
Tropicimonas sediminicola sp. nov., isolated from marine sediment
More LessA novel Gram-negative, obligately aerobic, non-motile, rod-shaped bacterium, strain M97T, was isolated from marine sediment of a cage-cultured ark clam farm on the south coast of Korea. Strain M97T was positive for oxidase and catalase. Optimal growth occurred at 37 °C, with 1–2 % (w/v) NaCl and at pH 7–8. The main cellular fatty acids were C16 : 0, C18 : 1ω7c, C12 : 0 3-OH and cyclo-C19 : 0ω8c. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, an unknown aminolipid and three unknown lipids. The predominant respiratory quinone was ubiquinone-10 (Q-10). Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain M97T belongs to the genus Tropicimonas , with highest sequence similarity to Tropicimonas aquimaris DPG-21T (99.0 %). The DNA G+C content of strain M97T was 68.5 mol%. Mean DNA–DNA relatedness between strain M97T and T. aquimaris DPG-21T was 46±10 %. Based on phylogenetic, phenotypic and genotypic analyses, strain M97T is considered to represent a novel species of the genus Tropicimonas , for which the name Tropicimonas sediminicola sp. nov. is proposed. The type strain is M97T ( = KACC 15544T = JCM 17731T).
-
-
-
Magnetospira thiophila gen. nov., sp. nov., a marine magnetotactic bacterium that represents a novel lineage within the Rhodospirillaceae ( Alphaproteobacteria )
A marine, magnetotactic bacterium, designated strain MMS-1T, was isolated from mud and water from a salt marsh in Woods Hole, Massachusetts, USA, after enrichment in defined oxygen-concentration/redox-gradient medium. Strain MMS-1T is an obligate microaerophile capable of chemoorganoheterotrophic and chemolithoautotrophic growth. Optimal growth occurred at pH 7.0 and 24–26 °C. Chemolithoautotrophic growth occurred with thiosulfate as the electron donor and autotrophic carbon fixation was via the Calvin–Benson–Bassham cycle. The G+C content of the DNA of strain MMS-1T was 47.2 mol%. Cells were Gram-negative and morphologically variable, with shapes that ranged from that of a lima bean to fully helical. Cells were motile by means of a single flagellum at each end of the cell (amphitrichous). Regardless of whether grown in liquid or semi-solid cultures, strain MMS-1T displayed only polar magnetotaxis and possessed a single chain of magnetosomes containing elongated octahedral crystals of magnetite, positioned along the long axis of the cell. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain MMS-1T belongs to the family Rhodospirillaceae within the Alphaproteobacteria , and is distantly related to species of the genus Magnetospirillum . Strain MMS-1T is therefore considered to represent a novel species of a new genus, for which the name Magnetospira thiophila gen. nov., sp. nov. is proposed. The type strain of Magnetospira thiophila is MMS-1T ( = ATCC BAA-1438T = JCM 17960T).
-
-
-
Brenneria goodwinii sp. nov., associated with acute oak decline in the UK
A group of nine Gram-negative staining, facultatively anaerobic bacterial strains isolated from native oak trees displaying symptoms of acute oak decline (AOD) in the UK were investigated using a polyphasic approach. 16S rRNA gene sequencing and phylogenetic analysis revealed that these isolates form a distinct lineage within the genus Brenneria , family Enterobacteriaceae , and are most closely related to Brenneria rubrifaciens (97.6 % sequence similarity to the type strain). Multilocus sequence analysis based on four housekeeping genes (gyrB, rpoB, infB and atpD) confirmed their position within the genus Brenneria , while DNA–DNA hybridization indicated that the isolates belong to a single taxon. The isolates can be differentiated phenotypically from their closest phylogenetic neighbours. The phylogenetic and phenotypic data demonstrate that these isolates from oak with symptoms of AOD represent a novel species in the genus Brenneria , for which the name Brenneria goodwinii sp. nov. (type strain FRB 141T = R-43656T = BCC 845T = LMG 26270T = NCPPB 4484T) is proposed.
-
-
-
Rhodanobacter denitrificans sp. nov., isolated from nitrate-rich zones of a contaminated aquifer
Bacterial strains 2APBS1T and 116-2 were isolated from the subsurface of a nuclear legacy waste site where the sediments are co-contaminated with large amounts of acids, nitrate, metal radionuclides and other heavy metals. A combination of physiological and genetic assays indicated that these strains represent the first member of the genus Rhodanobacter shown to be capable of complete denitrification. Cells of strain 2APBS1T and 116-2 were Gram-negative, non-spore-forming rods, 3–5 µm long and 0.25–0.5 µm in diameter. The isolates were facultative anaerobes, and had temperature and pH optima for growth of 30 °C and pH 6.5; they were able to tolerate up to 2.0 % NaCl, although growth improved in its absence. Strains 2APBS1T and 116-2 contained fatty acid and quinone (ubiquinone-8; 100 %) profiles that are characteristic features of the genus Rhodanobacter . Although strains 2APBS1T and 116-2 shared high 16S rRNA gene sequence similarity with Rhodanobacter thiooxydans LCS2T (>99 %), levels of DNA–DNA relatedness between these strains were substantially below the 70 % threshold used to designate novel species. Thus, based on genotypic, phylogenetic, chemotaxonomic and physiological differences, strains 2APBS1T and 116-2 are considered to represent a single novel species of the genus Rhodanobacter , for which the name Rhodanobacter denitrificans sp. nov. is proposed. The type strain is 2APBS1T ( = DSM 23569T = JCM 17641T).
-
-
-
Deferrisoma camini gen. nov., sp. nov., a moderately thermophilic, dissimilatory iron(III)-reducing bacterium from a deep-sea hydrothermal vent that forms a distinct phylogenetic branch in the Deltaproteobacteria
A moderately thermophilic, anaerobic, dissimilatory iron(III)-reducing bacterium (strain S3R1T) was isolated from a deep-sea hydrothermal vent chimney located on the Eastern Lau Spreading Centre in the Pacific Ocean at a depth of about 2150 m. Cells of strain S3R1T were ovals to short rods with a single polar flagellum, Gram-stain-negative, 0.5–0.6 µm in diameter and 0.8–1.3 µm long, growing singly or in pairs. The temperature range for growth was 36–62 °C, with an optimum at 50 °C. The pH range for growth was 5.5–7.5, with an optimum at pH 6.5. Growth of strain S3R1T was observed at NaCl concentrations ranging from 1.0 to 5.0 % (w/v), with an optimum at 2.0–2.5 % (w/v). The isolate used acetate, fumarate, malate, maleinate, succinate, propanol, palmitate, stearate, peptone and yeast extract as electron donors for growth and iron(III) reduction. All electron donors were oxidized completely to CO2 and H2O. Iron(III) (in the form of ferrihydrite, ferric citrate or ferric nitrilotriacetate) and elemental sulfur (S0) were the electron acceptors that supported growth. The DNA G+C content was 64.4 mol%. Results of 16S rRNA gene sequence analysis showed that the novel bacterium was related to representatives of the orders Desulfuromonadales and Syntrophobacterales with 84–86 % sequence similarity and formed a distinct phylogenetic branch in the Deltaproteobacteria . On the basis of its physiological properties and results of phylogenetic analyses, it is proposed that the new isolate represents the sole species of a novel genus, Deferrisoma camini gen. nov., sp. nov. The type strain of Deferrisoma camini is S3R1T ( = DSM 24185T = VKM B-2672T).
-
-
-
Brevundimonas viscosa sp. nov., isolated from saline soil
More LessA Gram-negative, rod-shaped bacterial strain, designated F3T, was isolated from a saline soil sample in China and studied by using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain F3T was affiliated with the genus Brevundimonas , with Brevundimonas kwangchunensis KSL-102T (98.4 % similarity) and Brevundimonas alba DSM 4736T (98.2 %) as its closest relatives. Strain F3T contained ubiquinone-10 (Q-10) as the predominant ubiquinone and C18 : 1ω7c, C17 : 1ω8c and C16 : 0 as the major fatty acids. The DNA G+C content of strain F3T was 66.7 mol%. Levels of DNA–DNA relatedness between strain F3T and the type strains of closely related Brevundimonas species were below 22 %. On the basis of phenotypic characteristics and genotypic distinctiveness, strain F3T should be classified as representing a novel species of the genus Brevundimonas , for which the name Brevundimonas viscosa sp. nov. is proposed. The type strain is F3T ( = CGMCC 1.10683T = JCM 17426T).
-
-
-
Microbulbifer taiwanensis sp. nov., isolated from coastal soil
More LessA Gram-negative, non-spore-forming rod (CC-LN1-12T) was isolated from coastal soil samples of Lutao Island (Green Island), Taiwan, and its taxonomic position was studied. 16S rRNA gene sequence analysis showed that isolate CC-LN1-12T was grouped into the Microbulbifer cluster, with the highest similarities to Microbulbifer okinawensis ABABA23T (97.9 %), Microbulbifer maritimus TF-17T (97.7 %) and Microbulbifer donghaiensis CN85T (97.7 %), similarities to all other species of the genus Microbulbifer were lower than 96.8 %. The polyamine pattern contained the major compounds spermidine and cadaverine. The fatty acid profile, comprising the major fatty acids iso-C15 : 0, iso-C17 : 1ω9c, C18 : 1ω7c and iso-C11 : 0 3-OH as the major hydroxylated fatty acid, supported the affiliation of strain CC-LN1-12T to the genus Microbulbifer . DNA–DNA hybridizations between strain CC-LN1-12T and Microbulbifer okinawensis ABABA23T, M. donghaiensis CN85T and M. maritimus JCM 12187T resulted in relatedness values of 21.5 % (14.3 %, reciprocal analysis), 35.9 % (48.5 %, reciprocal analysis) and 48.1 % (52.1 %, reciprocal analysis), respectively. From these data, as well as from physiological and biochemical tests, strain CC-LN1-12T could be clearly differentiated from the most closely related species of the genus Microbulbifer . It is concluded that strain CC-LN1-12T represents a novel species, for which the name Microbulbifer taiwanensis sp. nov. is proposed. The type strain is CC-LN1-12T ( = LMG 26125T = CCM 7856T).
-
-
-
Multilocus sequence analysis of Bosea species and description of Bosea lupini sp. nov., Bosea lathyri sp. nov. and Bosea robiniae sp. nov., isolated from legumes
More LessGram-negative, rod-shaped bacteria were isolated from root nodules of Lupinus polyphyllus, Lathyrus latifolius and Robinia pseudoacacia. Based on the 16S rRNA gene phylogeny, they were closely related to Bosea species (100–97 % similarity), belonging to the class Alphaproteobacteria , family Bradyrhizobiaceae . The closest relatives of LMG 26383T, LMG 26379T and LMG 26381T were respectively the type strains of Bosea thiooxidans (99.6 %), B. eneae (98.3 %) and B. minatitlanensis (99.0 %). Chemotaxonomic data, including major fatty acid profiles, supported the assignment of our strains to the genus Bosea . Analysis of the concatenated sequences of five housekeeping genes (atpD, dnaK, gyrB, recA and rpoB) and the results of DNA–DNA hybridizations and physiological and biochemical tests allowed genotypic and phenotypic differentiation of our strains from each other and from the five Bosea species with validly published names. No nodA or nodC genes could be amplified, while nifH PCR gave non-specific products. On the basis of genotypic and phenotypic data, three novel species, Bosea lupini sp. nov. (type strain LMG 26383T = CCUG 61248T = R-45681T), Bosea lathyri sp. nov. (type strain LMG 26379T = CCUG 61247T = R-46060T) and Bosea robiniae sp. nov. (type strain LMG 26381T = CCUG 61249T = R-46070T), are proposed.
-
-
-
Aquamicrobium ahrensii sp. nov. and Aquamicrobium segne sp. nov., isolated from experimental biofilters
More LessTwo groups of Gram-negative, aerobic bacterial strains previously isolated from experimental biofilters were investigated to determine their taxonomic position. Based on their 16S rRNA gene sequences, these isolates formed two distinct groups within the genus Aquamicrobium . The gene sequence similarities of the new isolates to the type strains of Aquamicrobium species were below 98.3 %. The presence of ubiquinone-10, C18 : 1 cis 11 as the predominant fatty acid and a polar lipid pattern with phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol and phosphatidylethanolamine was in accordance with the characteristics of this genus. The results of DNA–DNA hybridization, biochemical tests and chemotaxonomic properties allowed genotypic and phenotypic differentiation of the strains from all recognized species of the genus Aquamicrobium . Therefore, the isolates were assigned to two novel species of this genus for which the names Aquamicrobium ahrensii sp. nov. (type strain 905/1T = DSM 19730T = CCUG 55251T) and Aquamicrobium segne sp. nov. (type strain 1006/1T = DSM 19714T = CCUG 55250T) are proposed. An emended description of the genus Aquamicrobium is also presented.
-
-
-
Rhodovulum bhavnagarense sp. nov., a phototrophic alphaproteobacterium isolated from a pink pond
More LessAn oval to rod-shaped, Gram-stain-negative, phototrophic bacterium, strain JA738T, was isolated from a sediment sample collected from a pink pond. Strain JA738T was non-motile and had vesicular-type intracellular photosynthetic membranes. Bacteriochlorophyll a and carotenoids of the spheroidene series were present as the major photosynthetic pigments. Strain JA738T required thiamine and pantothenate for growth. The major cellular fatty acids were C18 : 1ω7c, C18 : 1ω5c, C18 : 0 and C18 : 1ω7c11-methyl; minor amounts of C10 : 0 3-OH and C16 : 0 were also present. The major quinone was Q-10 and major polar lipids were phosphatidylglycerol, phosphatidylethanolamine and two unidentified sulfolipids (SL1–2). Phylogenetic analysis on the basis of 16S rRNA gene sequences showed that strain JA738T clustered with species of the genus Rhodovulum in the class Alphaproteobacteria . Strain JA738T was most closely related to Rhodovulum adriaticum DSM 2781T (96.4 % 16S rRNA gene sequence similarity) and other members of the genus Rhodovulum (<96.1 %). On the basis of phenotypic and molecular genetic evidence, it is proposed that strain JA738T should be classified as a novel species of the genus Rhodovulum for which the name Rhodovulum bhavnagarense sp. nov. is proposed. The type strain is JA738T ( = DSM 24766T = KCTC 15110T).
-
- Bacteroidetes
-
-
Flavobacterium dankookense sp. nov., isolated from a freshwater reservoir, and emended descriptions of Flavobacterium cheonanense , F. chungnamense , F. koreense and F. aquatile
More LessA novel yellow-pigmented bacterial strain, designated ARSA-19T, was isolated from a freshwater reservoir in Cheonan, Korea. Cells were Gram-staining-negative, rod-shaped, strictly aerobic and positive for catalase and oxidase. The phylogenetic tree based on 16S rRNA gene sequences showed that strain ARSA-19T belonged to the genus Flavobacterium and was related to Flavobacterium macrobrachii an-8T (96.5 % sequence similarity), F. koreense KACC 14969T (96.2 %), F. chungnamense KACC 14971T (96.1 %), F. cheonanense KACC 14972T (96.4 %) and F. aquatile ATCC 11947T (95.6 %). The isolate contained MK-6 as the predominant menaquinone and iso-C15 : 0 (21.8 %), iso-C16 : 0 3-OH (10.4 %), iso-C15 : 1 G (9.3 %), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c; 8.2 %), iso-C15 : 0 3-OH (7.7 %) and iso-C16 : 0 (7.3 %) as the major fatty acids. The polar lipids of strain ARSA-19T were phosphatidylethanolamine, four unknown aminolipids and two unidentified polar lipids. The DNA G+C content of strain ARSA-19T was 33.3 mol%. Based on its phenotypic and genotypic characteristics and on the phylogenetic evidence presented, strain ARSA-19T is considered to represent a novel species in the genus Flavobacterium , for which the name Flavobacterium dankookense sp. nov. is proposed. The type strain is ARSA-19T ( = KCTC 23179T = JCM 17065T = KACC 14968T). Emended descriptions of Flavobacterium cheonanense , Flavobacterium chungnamense , Flavobacterium koreense and Flavobacterium aquatile are also proposed.
-
-
-
Macellibacteroides fermentans gen. nov., sp. nov., a member of the family Porphyromonadaceae isolated from an upflow anaerobic filter treating abattoir wastewaters
A novel obligately anaerobic, non-spore-forming, rod-shaped mesophilic bacterium, which stained Gram-positive but showed the typical cell wall structure of Gram-negative bacteria, was isolated from an upflow anaerobic filter treating abattoir wastewaters in Tunisia. The strain, designated LIND7HT, grew at 20–45 °C (optimum 35–40 °C) and at pH 5.0–8.5 (optimum pH 6.5–7.5). It did not require NaCl for growth, but was able to grow in the presence of up to 2 % NaCl. Sulfate, thiosulfate, elemental sulfur, sulfite, nitrate and nitrite were not used as terminal electron acceptors. Strain LIND7HT used cellobiose, glucose, lactose, mannose, maltose, peptone, rhamnose, raffinose, sucrose and xylose as electron donors. The main fermentation products from glucose metabolism were lactate, acetate, butyrate and isobutyrate. The predominant cellular fatty acids were anteiso-C15 : 0, C15 : 0, C17 : 0 2-OH and a summed feature consisting of C18 : 2ω6,9c and/or anteiso-C18 : 0, and the major menaquinones were MK-9, MK-9(H2) and MK-10. The G+C content of the genomic DNA was 41.4 mol%. Although the closest phylogenetic relatives of strain LIND7HT were Parabacteroides merdae , Parabacteroides goldsteinii and Parabacteroides gordonii , analysis of the hsp60 gene sequence showed that strain LIND7HT was not a member of the genus Parabacteroides . On the basis of phylogenetic inference and phenotypic properties, strain LIND7HT ( = CCUG 60892T = DSM 23697T = JCM 16313T) is proposed as the type strain of a novel species in a new genus within the family Porphyromonadaceae , Macellibacteroides fermentans gen. nov., sp. nov.
-
- Other Bacteria
-
-
Phorcysia thermohydrogeniphila gen. nov., sp. nov., a thermophilic, chemolithoautotrophic, nitrate-ammonifying bacterium from a deep-sea hydrothermal vent
A novel hyperthermophilic, anaerobic, chemolithoautotrophic bacterium, designated strain HB-8T, was isolated from the tube of Alvinella pompejana tubeworms collected from the wall of an actively venting sulfide structure on the East Pacific Rise at 13° N. The cells were Gram-negative rods, approximately 1.0–1.5 µm long and 0.5 µm wide. Strain HB-8T grew between 65 and 80 °C (optimum 75 °C), 15 and 35 g NaCl l−1 (optimum 30 g l−1) and pH 4.5 and 8.5 (optimum pH 6.0). Generation time under optimal conditions was 26 min. Growth occurred under chemolithoautotrophic conditions with H2 as the energy source and CO2 as the carbon source. Nitrate and sulfur were used as electron acceptors, with concomitant formation of ammonium or hydrogen sulfide, respectively. The presence of lactate, formate, acetate or tryptone in the culture medium inhibited growth. The G+C content of the genomic DNA was 47.8 mol%. Phylogenetic analysis of the 16S rRNA gene and of the alpha subunit of the ATP citrate lyase of strain HB-8T indicated that this organism formed a novel lineage within the class Aquificae , equally distant from the type strains of the type species of the three genera that represent the family Desulfurobacteriaceae : Thermovibrio ruber ED11/3LLK8T, Balnearium lithotrophicum 17ST and Desulfurobacterium thermolithotrophum BSAT. The polar lipids of strain HB-8T differed substantially from those of other members of the Desulfurobacteriaceae , and this bacterium produced novel quinones. On the basis of phylogenetic, physiological and chemotaxonomic characteristics, it is proposed that the organism represents a novel genus and species within the family Desulfurobacteriaceae , Phorcysia thermohydrogeniphila gen. nov., sp. nov. The type strain of Phorcysia thermohydrogeniphila is HB-8T ( = DSM 24425T = JCM 17384T).
-
- Eukaryotic Micro-organisms
-
-
Metschnikowia proteae sp. nov., a nectarivorous insect-associated yeast species from Africa
A collection of yeasts isolated from nectar of flowers of Protea caffra (Proteaceae) and associated scarab beetles (Atrichelaphinis tigrina, Cyrtothyrea marginalis, Trichostetha fascicularis and Heterochelus sp.) and drosophilid flies in South Africa, contained 28 isolates that could not be assigned to known species. Comparisons of the D1/D2 domains of the large subunit rRNA gene demonstrated the existence of three separate phylotypes with an affinity to the genus Metschnikowia and more specifically to the beetle-associated large-spored Metschnikowia clade. Twenty-six strains that had similar D1/D2 sequences were mixed in all pairwise combinations. They were found to mate and give rise to large asci typical of those in the clade. The name Metschnikowia proteae sp. nov. (type strain EBDT1Y1T = CBS 12522T = NRRL Y-48784T; allotype strain EBDC2Y2 = CBS 12521 = NRRL Y-48785) is proposed to accommodate this novel species. The ecology of this novel yeast species is discussed in relation to its potential plant and insect host species. The additional two single strains isolated from Heterochelus sp. represent two novel undescribed species (Candida sp. 1 EBDM2Y3 and Candida sp. 2 EBDM8Y1). As these single strains are probably haploid mating types of Metschnikowia species, their description is deferred until the species are sufficiently well sampled to permit meaningful descriptions.
-
- International Committee on Systematics of Prokaryotes
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)