Cohaesibacter haloalkalitolerans sp. nov., isolated from a soda lake, and emended description of the genus Cohaesibacter

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 4271-4276 ◽  
Author(s):  
Vishnuvardhan Reddy Sultanpuram ◽  
Tushar Dilipchand Lodha ◽  
Venkata Ramana Chintalapati ◽  
Sasikala Chintalapati

Two novel Gram-stain-negative, motile, catalase-negative and oxidase-positive strains of bacteria (JC131T and JC112) were isolated from Lonar, a soda lake in India. Based on 16S rRNA gene sequence similarity studies, strains JC131T and JC112 belong to the family Cohaesibacteraceae of the class Alphaproteobacteria and were most closely related to Cohaesibacter marisflavi DQHS21T (98.0 %) and Cohaesibacter gelatinilyticus CL-GR15T (96.0 %). Polar lipids of strains JC131T and JC112 include phosphatidylglycerol, phosphatidylethnolamine, phosphatidylmonomethylethanolamine, diphosphatidylglycerol and two unidentified lipids (L1 and L2). Both strains have diplopterol, diploptene, an unidentified hopane (UH) and bacteriohopane derivatives (BHD1 and 2) as major hopanoids and an unidentified pigment (P1). The predominant isoprenoid quinone of both strains was ubiquinone-10 (Q10). Whole-cell fatty acid analysis of both strains revealed that C18 : 1ω7c was the predominant cellular fatty acid and significant proportions of C16 : 0, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), 11-methyl C18 : 1ω7c, C18 : 1ω9c, C18 : 0 and C20 : 1ω7c were also detected. The DNA G+C content of strains JC131T and JC112 was 54.6 and 53.8 mol%, respectively. The genome reassociation (based on DNA–DNA hybridization) of strains JC131T and JC112 with Cohaesibacter marisflavi NCCB 100300T ( = DQHS21T) was about 58 %, while between JC131T and JC112 it was about 87 %. On the basis of physiological, biochemical and chemotaxonomical properties, strains JC131T and JC112 are differentiated from the other two members of the genus Cohaesibacter . Strains JC131T and JC112 represent a novel species of the genus Cohaesibacter , for which the name Cohaesibacter haloalkalitolerans sp. nov. is proposed. The type strain is JC131T ( = KCTC 32038T = NBRC 109022T). An emended description of the genus Cohaesibacter is presented.

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2223-2228 ◽  
Author(s):  
S. Vishnuvardhan Reddy ◽  
S. Aspana ◽  
D. L. Tushar ◽  
Ch. Sasikala ◽  
Ch. V. Ramana

Two helical-shaped bacteria (strains JC133T and JC143), which stain Gram-negative, were isolated from an alkaline soda lake, Lonar, India. Both strains were obligate anaerobes, mesophilic and required halo-alkaline conditions for growth. Both strains were resistant to rifampicin and kanamycin, but sensitive to gentamicin, tetracycline, ampicillin and chloramphenicol. Both strains had phosphatidylglycerol (PG), diphosphotidylglycerol (DPG), glycolipid (GL) and four unidentified lipids (L1–4) as the major polar lipids. C18 : 1ω7c was the predominant cellular fatty acid with significant proportions of C16 : 0, C18 : 1ω9c, C14 : 0, C18 : 0, C16 : 1ω5c, C18 : 1ω5c and C20 : 1ω9c. The DNA G+C contents of strain JC131T and JC143 were 58.2 and 58.5 mol%, respectively, and the two strains showed DNA reassociation >85 % (based on DNA–DNA hybridization). Based on the 16S rRNA gene sequence analysis, both strains were identified as belonging to the genus Spirochaeta with Spirochaeta alkalica Z-7491T (99.6 % sequence similarity), Spirochaeta americana ASpG1T (99 %) and other members of the genus Spirochaeta (<93 %) as their closest phylogenetic neighbours. However, strain JC133T and JC143 displayed less than 53.5 % binding (based on DNA–DNA hybridization) with S. alkalica Z-7491T and S. americana ASpG1T. On the basis of physiological, biochemical, chemotaxonomic and molecular properties, strains JC133T and JC143 can be differentiated from other members of the genus Spirochaeta and represent a novel species of the genus Spirochaeta , for which the name Spirochaeta sphaeroplastigenens sp. nov. is proposed. The type strain is JC133T ( = KCTC 15220T = NBRC 109056T).


2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 839-843 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Soo-Young Lee ◽  
Yong-Taek Jung ◽  
Jung-Sook Lee ◽  
...  

A Gram-stain-negative, non-motile, non-spore-forming, aerobic, rod-shaped bacterial strain, designated DPG-28T, was isolated from seawater on the southern coast of Korea. Strain DPG-28T grew optimally at 30 °C and in the presence of 2 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain DPG-28T formed a coherent cluster with members of the genera Marivita and Gaetbulicola , with which it exhibited sequence similarity values of 97.8–98.5 %. The DNA G+C content of strain DPG-28T was 65.1 mol%. The predominant ubiquinone of strain DPG-28T was ubiquinone-10 (Q-10), consistent with data for the genera Marivita and Gaetbulicola . The cellular fatty acid profiles of strain DPG-28T and the type strains of Marivita cryptomonadis , Marivita litorea and Gaetbulicola byunsanensis were essentially similar in that the common predominant fatty acid was C18 : 1ω7c. Major polar lipids found in strain DPG-28T and the type strains of M. cryptomonadis , M. litorea and G. byunsanensis were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and an unidentified aminolipid. From these data, it is proposed that Gaetbulicola byunsanensis be reclassified as a member of the genus Marivita , for which the name Marivita byunsanensis comb. nov. is proposed, with the type strain SMK-114T ( = CCUG 57612T  = KCTC 22632T), and that strain DPG-28T be classified in the genus Marivita . Differential phenotypic properties and genetic distinctiveness of strain DPG-28T demonstrated that this strain is distinguishable from M. cryptomonadis , M. litorea and G. byunsanensis . On the basis of the data presented, strain DPG-28T is considered to represent a novel species of the genus Marivita , for which the name Marivita hallyeonensis sp. nov. is proposed. The type strain is DPG-28T ( = KCTC 23421T  = CCUG 60522T). An emended description of the genus Marivita is also provided.


2020 ◽  
Vol 70 (3) ◽  
pp. 1843-1849 ◽  
Author(s):  
Bora Shin ◽  
Chulwoo Park ◽  
Byoung-Hee Lee ◽  
Ki-Eun Lee ◽  
Woojun Park

A novel bacterial strain, designated AK13T (=KACC 21401T=DSM 109981T), was isolated from the rhizosphere of Miscanthus sacchariflorus. Strain AK13T was found to be an aerobic, Gram-stain–positive, endospore-forming and rod-shaped bacterium. It formed yellow circular colonies with smooth convex surfaces. The genomic DNA G+C content of strain AK13T was estimated to be 40 mol%. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that this strain was most closely related to Bacillus lehensis MLB2T (99.4 %), Bacillus oshimensis K11T (98.8 %) and Bacillus patagoniensis PAT 05T (96.6 %). The average nucleotide identity values between strain AK13T and B. lehensis MLB2T, B. oshimensis K11T and B. patagoniensis PAT 05T were 90.93, 91.05 and 71.87 %, respectively, with the digital DNA–DNA hybridization values of 42.7, 42.6 and 18.8 %, respectively. Cells grew at 5–40 °C (optimum, 28–35 °C), pH 6.5–13 (optimum, pH 8–9) and in the presence of 0–13.0 % (w/v) NaCl (optimum, 1 %). The cell wall of strain AK13T contained meso-diaminopimelic acid, and the major isoprenoid quinone was MK-7. Results of fatty acid methyl ester analysis revealed that iso-C15 : 0 was the predominant cellular fatty acid. Two-dimensional thin-layer chromatography analysis indicated that the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and glycolipid. The genotypic and phenotypic characteristics suggested that strain AK13T represented a novel species of the genus Bacillus , and thus the name Bacillus miscanthi sp. nov. is proposed.


2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 867-872 ◽  
Author(s):  
Herbert Seiler ◽  
Mareike Wenning ◽  
Verena Schmidt ◽  
Siegfried Scherer

A novel Gram-staining-positive, rod-shaped, motile, strictly aerobic, endospore-forming bacterium, designated WCC 4585T, was isolated from a pharmaceutical production line. The organism grew optimally at 30 °C, at pH 8 and in the presence of 0.5 % (w/v) NaCl. Oval endospores were formed subterminally and terminally in swollen sporangia. The cell-wall diamino acid was meso-diaminopimelic acid (type A1γ) and the genomic DNA G+C content was 38.7 mol%. The major menaquinone was MK-7. The cellular fatty acid profile contained major amounts of iso-C15 : 0, anteiso-C15 : 0 and anteiso-C17 : 0, and the cellular phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and aminophospholipid. The isolate was most closely related to Bacillus oceanisediminis H2T, Bacillus infantis SMC 4352-1T, Bacillus firmus NCIMB 9366T, Bacillus circulans ATCC 4513T and Bacillus horneckiae DSM 23495T with which it shared less than 98.0 % 16S rRNA gene sequence similarity. DNA–DNA relatedness values between strain WCC 4585T and five type strains of related species were ≤27 % and sequence similarity values based on groEL sequences were ≤88.7 %. On the basis of the characteristics presented, strain WCC 4585T is proposed to represent a novel species, Bacillus gottheilii sp. nov. The type strain is WCC 4585T( = DSM 23668T = CCUG 59876T = LMG 25856T).


Author(s):  
Yan Gao ◽  
Guangyu Li ◽  
Chen Fang ◽  
Zongze Shao ◽  
Yue-Hong Wu ◽  
...  

A Gram-stain-negative, rod-shaped and aerobic bacterial strain, named Ery12T, was isolated from the overlying water of the Lau Basin in the Southwest Pacific Ocean. Strain Ery12T showed high 16S rRNA gene sequences similarity to Tsuneonella flava MS1-4T (99.9 %), T. mangrovi MCCC 1K03311T (98.1 %), Altererythrobacter ishigakiensis NBRC 107699T (97.3 %) and exhibited ≤97.0 % sequence similarity with other type strains of species with validly published names. Growth was observed in media with 0–10.0 % NaCl (optimum 0–1.0 %, w/v), pH 5.0–9.5 (optimum 6.0–7.0) and 10–42 °C (optimum 30–37 °C). The predominant respiratory quinone was ubiquinone 10 (Q-10). The major cellular fatty acid was summed feature 8 (C18 : 1  ω7c and/or C18 : 1  ω6c). The major polar lipids were sphingoglycolipid, phosphatidyglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, three unidentified glycolipids, one unidentified aminoglycolipid and one unidentified lipid. The DNA G+C content was 60.8 %. The ANI and in silico DDH values between strain Ery12T and the type strains of its closely related species were 71.0- 91.8 % and 19.5- 44.6 %, respectively. According to the phenotypic, chemotaxonomic, phylogenetic and genomic data, strain Ery12T represents a novel species of the genus Tsuneonella , for which the name Tsuneonella suprasediminis is proposed. The type strain is Ery12T (=CGMCC 1.16500 T=MCCC 1A04421T=KCTC 62388T). We further propose to reclassify Altererythrobacter rhizovicinus and Altererythrobacter spongiae as Pelagerythrobacter rhizovicinus comb. nov. and Altericroceibacterium spongiae comb. nov., respectively.


Author(s):  
Hiroyuki Sawada ◽  
Takashi Fujikawa ◽  
Shigeru Osada ◽  
Mamoru Satou

Five phytopathogenic bacterial strains, MAFF 301449T, MAFF 301450, MAFF 301451, MAFF 301452, and MAFF 301453, which were isolated from bud blight lesions of cyclamen (Cyclamen persicum Mill.) in Miyagi, Japan, were subjected to polyphasic taxonomic characterisation. The cells were Gram-reaction-negative, aerobic, non-spore-forming, motile with one to five polar flagella, and rod-shaped. Analysis of 16S rRNA gene sequences showed that they belong to the genus Pseudomonas , with Pseudomonas extremaustralis 14-3T (99.79 % sequence similarity), Pseudomonas trivialis DSM 14937T (99.79 %), Pseudomonas poae DSM 14936T (99.72 %), and Pseudomonas antarctica CMS 35T (99.72 %) as their relatives. The genomic DNA G+C content was 60.3 mol% and the major fatty acids (>5 % of the total fatty acids) were C16 : 0, summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c), summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), and C17 : 0 cyclo. Phylogenetic analysis using the rpoD gene sequences and phylogenomic analyses based on the whole genome sequences demonstrated that the strains are members of the Pseudomonas fluorescens subgroup, but form a monophyletic and robust clade separated from their relatives. Average nucleotide identity and digital DNA–DNA hybridisation analyses with the closely related Pseudomonas species corroborated their novel species status. The strains were differentiated from their relatives by phenotypic characteristics, pathogenicity towards cyclamen, cellular fatty acid composition, and whole-cell MALDI-TOF mass spectrometry profiles. Based on the phenotypic, chemotaxonomic, and genotypic data obtained, we conclude that the strains represent a novel Pseudomonas species, for which we propose the name Pseudomonas cyclaminis sp. nov.; the type strain is MAFF 301449T (=ICMP 23720T).


2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1613-1618 ◽  
Author(s):  
Chakkiath Paul Antony ◽  
Nina V. Doronina ◽  
Rich Boden ◽  
Yuri A. Trotsenko ◽  
Yogesh S. Shouche ◽  
...  

A moderately haloalkaliphilic methylotrophic bacterium possessing the ribulose monophosphate pathway for carbon assimilation, designated MPLT, was isolated from Lonar Lake sediment microcosms that were oxidizing methane for two weeks. The isolate utilized methanol and was an aerobic, Gram-negative, asporogenous, motile, short rod that multiplied by binary fission. The isolate required NaHCO3 or NaCl for growth and, although not auxotrophic for vitamin B12, had enhanced growth with vitamin B12. Optimal growth occurred with 0.5–2 % (w/v) NaCl, at 28–30 °C and at pH 9.0–10.0. The cellular fatty acid profile consisted primarily of straight-chain saturated C16 : 0 and unsaturated C16 : 1ω7c and C18 : 1ω7c. The major ubiquinone was Q-8. The dominant phospholipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Cells accumulated ectoine as the main compatible solute. The DNA G+C content was 50.0 mol%. The isolate exhibited 94.0–95.4 % 16S rRNA gene sequence similarity with the type strains of methylotrophs belonging to the genus Methylophaga and 31 % DNA–DNA relatedness with the reference strain, Methylophaga alcalica VKM B-2251T. It is proposed that strain MPLT represents a novel species, Methylophaga lonarensis sp. nov. (type strain MPLT = VKM B-2684T = MCC 1002T).


2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4038-4042 ◽  
Author(s):  
Keun Sik Baik ◽  
Mi Sun Kim ◽  
Ji Hee Lee ◽  
Sang Suk Lee ◽  
Wan-Taek Im ◽  
...  

A non-motile and rod-shaped bacterium, designated strain 02SUJ3T, was isolated from freshwater collected from the Juam Reservoir (Republic of Korea). Cells were Gram-stain-negative, aerobic, oxidase-negative and catalase-positive. The major fatty acids were iso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH. The strain contained MK-7 as the major isoprenoid quinone. The main polar lipid was phosphatidylethanolamine. The DNA G+C content was 46.4 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain 02SUJ3T forms an independent lineage within the genus Flavisolibacter with low sequence similarity to Flavisolibacter ginsengiterrae Gsoil 492T and Flavisolibacter ginsengisoli Gsoil 643T (95.7 %). Phenotypic characteristics distinguished strain 02SUJ3T from members of the genus Flavisolibacter . On the basis of the evidence presented in this study, strain 02SUJ3T is considered to represent a novel species, for which the name Flavisolibacter rigui sp. nov. is proposed. The type strain is 02SUJ3T ( = JCM 17515T = KCTC 23328T). An emended description of the genus Flavisolibacter is also provided.


2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 832-838 ◽  
Author(s):  
Matthew W. Maune ◽  
Ralph S. Tanner

A novel anaerobic, moderately thermophilic, NaCl-requiring fermentative bacterium, strain OS1T, was isolated from oil production water collected from Alaska, USA. Cells were Gram-negative, non-motile, non-spore-forming rods (1.7–2.7 × 0.4–0.5 µm). The G+C content of the genomic DNA of strain OS1T was 46.6 mol%. The optimum temperature, pH and NaCl concentration for growth of strain OS1T were 55 °C, pH 7 and 10 g l−1, respectively. The bacterium fermented d-fructose, d-glucose, maltose, d-mannose, α-ketoglutarate, l-glutamate, malonate, pyruvate, l-tartrate, l-asparagine, Casamino acids, l-cysteine, l-histidine, l-leucine, l-phenylalanine, l-serine, l-threonine, l-valine, inositol, inulin, tryptone and yeast extract. When grown on d-glucose, 3.86 mol hydrogen and 1.4 mol acetate were produced per mol substrate. Thiosulfate, sulfur and l-cystine were reduced to sulfide, and crotonate was reduced to butyrate with glucose as the electron donor. 16S rRNA gene sequence analysis indicated that strain OS1T was related to Anaerobaculum thermoterrenum (99.7 % similarity to the type strain), a member of the phylum Synergistetes . DNA–DNA hybridization between strain OS1T and A. thermoterrenum DSM 13490T yielded 68 % relatedness. Unlike A. thermoterrenum , strain OS1T fermented malonate, maltose, tryptone, l-leucine and l-phenylalanine, but not citrate, fumarate, lactate, l-malate, glycerol, pectin or starch. The major cellular fatty acid of strain OS1T was iso-C15 : 0 (91 % of the total). Strain OS1T also contained iso-C13 : 0 3-OH (3 %), which was absent from A. thermoterrenum , and iso-C13 : 0 (2 %), which was absent from Anaerobaculum mobile . On the basis of these results, strain OS1T represents a novel species of the genus Anaerobaculum , for which the name Anaerobaculum hydrogeniformans sp. nov. is proposed. The type strain is OS1T ( = DSM 22491T  = ATCC BAA-1850T). An emended description of the genus Anaerobaculum is also given.


2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1241-1244 ◽  
Author(s):  
Mitsuo Sakamoto ◽  
Moriya Ohkuma

Strains of the recently proposed species Bacteroides chinchillae share more than 99.4 % 16S rRNA gene sequence similarity with the type strain of Bacteroides sartorii although these two species do not appear to be similar from their published descriptions. The aim of this study was to perform phenotypic and genetic analyses of both species to clarify their taxonomic position. B. chinchillae JCM 16497T exhibited high hsp60 gene sequence similarity with B. sartorii JCM 17136T (100 %) as well as B. chinchillae JCM 16498 (100 %). The hsp60 gene sequence analysis and levels of DNA–DNA relatedness observed demonstrated B. sartorii JCM 17136T, B. chinchillae JCM 16497T, and B. chinchillae JCM 16498 are members of a single species. Based on these data, we propose Bacteroides chinchillae as a later heterotypic synonym of Bacteroides sartorii . An emended description of B. sartorii is provided.


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