scholarly journals Sphingobacterium detergens sp. nov., a surfactant-producing bacterium isolated from soil

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3036-3041 ◽  
Author(s):  
Ana M. Marqués ◽  
César Burgos-Díaz ◽  
Francisco José Aranda ◽  
José Antonio Teruel ◽  
Àngels Manresa ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Genotypic Characteristics ◽  
Sequence Similarities

A novel Gram-negative-staining strain, designated 6.2ST, was isolated from a soil sample and identified as a biosurfactant producer. Its taxonomic position was investigated using a polyphasic approach. The cells were non-motile, non-spore-forming rods. The organism grew optimally at 30-37 °C, with 0–3 % (w/v) NaCl, and at pH 7.0. Based on 16S rRNA gene sequence analysis, strain 6.2ST was found to be a member of the genus Sphingobacterium and was most closely related to four type species of the genus, showing sequence similarities of 96.8–98.9 %. Partial chaperonin 60 (cpn60) gene sequence analysis was useful in resolving the phylogenetic relationships between strain 6.2ST and closely related taxa, with similarities ranging from 85.5 % (with Sphingobacterium thalpophilum DSM 11723T) to 90.3 % (with Sphingobacterium canadense CR11T and Sphingobacterium multivorum JCM 21156T). The results of DNA–DNA hybridization experiments between the novel strain and its closest relatives gave a DNA–DNA relatedness value of less than 70 %, and consequently confirmed that this new strain did not belong to a previously described species of the genus Sphingobacterium . The major fatty acids were summed feature 3 (iso-C15 : 0 2 OH and/or C16 : 1ω7c); iso-C15 : 0; iso-C17 : 0 3-OH and C16 : 0. The G+C content of the genomic DNA was 40.0 mol%. According to its phenotypic and genotypic characteristics and the phylogenetic data, strain 6.2ST represents a novel species of the genus Sphingobacterium , for which the name Sphingobacterium detergens sp. nov. is proposed. The type strain is 6.2ST ( = CECT 7938T = LMG 26465T).

Kaistia defluvii sp. nov., isolated from river sediment

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2878-2882 ◽  
Author(s):  
Long Jin ◽  
Kwang Kyu Kim ◽  
Hyung-Gwan Lee ◽  
Chi-Yong Ahn ◽  
Hee-Mock Oh
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
River Sediment ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A Gram-stain-negative, aerobic, non-motile, rod- and coccus-shaped bacterium, designated strain B6-12T, was isolated from sediment collected from the River Geumho in South Korea. In comparative 16S rRNA gene sequence analysis, the novel strain appeared to be affiliated with the class Alphaproteobacteria and to be most closely related to Kaistia adipata KCTC 12095T, Kaistia dalseonensis DSM 18800T, Kaistia geumhonensis DSM 18799T, Kaistia granuli KCTC 12575T, Kaistia soli KACC 12605T and Kaistia terrae KACC 12910T, with sequence similarities of 96.2–99.1 %. The predominant ubiquinone in the isolate was Q-10, major fatty acids were C18 : 0, C18 : 1ω7c and C19 : 0ω8c cyclo, and genomic DNA G+C content was 63.0 mol%. Based on the phylogenetic and chemotaxonomic evidence and the results of DNA–DNA hybridizations, strain B6-12T represents a novel species in the genus Kaistia , for which the name Kaistia defluvii sp. nov. is proposed. The type strain is B6-12T ( = KCTC 23766T  = JCM 18034T).

Lactobacillus heilongjiangensis sp. nov., isolated from Chinese pickle

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 4094-4099 ◽  
Author(s):  
Chun Tao Gu ◽  
Chun Yan Li ◽  
Li Jie Yang ◽  
Gui Cheng Huo
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A Gram-stain-positive bacterial strain, S4-3T, was isolated from traditional pickle in Heilongjiang Province, China. The bacterium was characterized by a polyphasic approach, including 16S rRNA gene sequence analysis, pheS gene sequence analysis, rpoA gene sequence analysis, dnaK gene sequence analysis, fatty acid methyl ester (FAME) analysis, determination of DNA G+C content, DNA–DNA hybridization and an analysis of phenotypic features. Strain S4-3T showed 97.9–98.7 % 16S rRNA gene sequence similarities, 84.4–94.1 % pheS gene sequence similarities and 94.4–96.9 % rpoA gene sequence similarities to the type strains of Lactobacillus nantensis , Lactobacillus mindensis , Lactobacillus crustorum , Lactobacillus futsaii , Lactobacillus farciminis and Lactobacillus kimchiensis . dnaK gene sequence similarities between S4-3T and Lactobacillus nantensis LMG 23510T, Lactobacillus mindensis LMG 21932T, Lactobacillus crustorum LMG 23699T, Lactobacillus futsaii JCM 17355T and Lactobacillus farciminis LMG 9200T were 95.4, 91.5, 90.4, 91.7 and 93.1 %, respectively. Based upon the data obtained in the present study, a novel species, Lactobacillus heilongjiangensis sp. nov., is proposed and the type strain is S4-3T ( = LMG 26166T = NCIMB 14701T).

scholarly journals Planobispora takensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1180-1185 ◽  
Author(s):  
Wipaporn Ngaemthao ◽  
Chanwit Suriyachadkun ◽  
Suwanee Chunhametha ◽  
Nantawan Niemhom ◽  
Chitti Thawai ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Diaminopimelic Acid ◽  
Evergreen Forest ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Genotypic Characteristics

A novel Gram-stain–positive, filamentous bacterial strain (A-T 7458T) was isolated from soil collected from hill evergreen forest in Thailand. The strain developed cylindrical sporangia containing a longitudinal pair of motile spores, on short ramifications of aerial mycelia. From a taxonomic study using a polyphasic approach, strain A-T 7458T had typical characteristics of members of the genus Planobispora . 16S rRNA gene sequence analysis indicated that the isolate was closely related to Planobispora siamensis A-T 4600T (98.5 %), Planobispora rosea JCM 3166T (97.6 %) and Planobispora longispora NBRC 13918T (97.6 %). The DNA–DNA relatedness values, which differentiated the novel strain from the closest species, were significantly below 70 %. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The whole-cell sugars contained ribose, madurose, mannose and glucose. The predominant menaquinone was MK-9(H2). The diagnostic phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylinositol, phosphatidylinositol-mannoside and aminophosphoglycolipid. The predominant cellular fatty acids were unsaturated C17 : 1 and C18 : 1, and saturated C16 : 0 and C17 : 0. Following an evaluation of phenotypic, chemotaxonomic and genotypic characteristics, the novel isolate is proposed to represent a novel species of the genus Planobispora , to be named Planobispora takensis sp. nov. The type strain is A-T 7458T ( = BCC 48396T = NBRC 109077T).

Enterococcus xiangfangensis sp. nov., isolated from Chinese pickle

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 1012-1017 ◽  
Author(s):  
Chun Yan Li ◽  
Fen Tian ◽  
Ya Dong Zhao ◽  
Chun Tao Gu
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A Gram-stain-positive bacterial strain, 11097T, was isolated from traditional pickle in Heilongjiang Province, China. The bacterium was characterized using a polyphasic approach, including 16S rRNA gene sequence analysis, phenylalanyl-tRNA synthase (pheS) gene sequence analysis, RNA polymerase α subunit (rpoA) gene sequence analysis, fatty acid methyl ester (FAME) analysis, determination of DNA G+C content, DNA–DNA hybridization and an analysis of phenotypic features. Strain 11097T was phylogenetically related to Enterococcus devriesei , E. pseudoavium , E. viikkiensis , E. avium , E. malodoratus , E. gilvus and E. raffinosus . Strain 11097T had 99.1–99.9 % 16S rRNA gene sequence similarities, 78.2–83.2 % pheS gene sequence similarities and 93.8–96.6 % rpoA gene sequence similarities with type strains of phylogenetically related species. Based upon polyphasic characterization data obtained in the present study, a novel species of the genus Enterococcus , Enterococcus xiangfangensis sp. nov., is proposed with the type strain 11097T ( = LMG 27495T = NCIMB 14834T).

Patulibacter medicamentivorans sp. nov., isolated from activated sludge of a wastewater treatment plant

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2588-2593 ◽  
Author(s):  
Bárbara Almeida ◽  
Ivone Vaz-Moreira ◽  
Peter Schumann ◽  
Olga C. Nunes ◽  
Gilda Carvalho ◽  
...  
Keyword(s):  
Wastewater Treatment ◽  
Sequence Analysis ◽  
Type Species ◽  
Gene Sequence ◽  
Treatment Plant ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis

A Gram-positive, aerobic, non-motile, non-endospore-forming rod-shaped bacterium with ibuprofen-degrading capacity, designated strain I11T, was isolated from activated sludge from a wastewater treatment plant. The major respiratory quinone was demethylmenaquinone DMK-7, C18 : 1 cis9 was the predominant fatty acid, phosphatidylglycerol was the predominant polar lipid, the cell wall contained meso-diaminopimelic acid as the diagnostic diamino acid and the G+C content of the genomic DNA was 74.1 mol%. On the basis of 16S rRNA gene sequence analysis, the closest phylogenetic neighbours of strain I11T were Patulibacter ginsengiterrae CECT 7603T (96.8 % similarity), Patulibacter minatonensis DSM 18081T (96.6 %) and Patulibacter americanus DSM 16676T (96.6 %). Phenotypic characterization supports the inclusion of strain I11T within the genus Patulibacter (phylum Actinobacteria) . However, distinctive features and 16S rRNA gene sequence analysis suggest that is represents a novel species, for which the name Patulibacter medicamentivorans sp. nov. is proposed. The type strain is I11T ( = DSM 25962T = CECT 8141T).

Nibribacter koreensis gen. nov., sp. nov., isolated from estuarine water

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4663-4668 ◽  
Author(s):  
Ji Young Kang ◽  
Jeesun Chun ◽  
Kwang Yeop Jahng
Keyword(s):  
Type Species ◽  
New Genus ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis

A Gram-reaction-negative, rod-shaped, non-motile, red-pigmented bacterium, designated strain GSR3061T, was isolated from a water sample of the Mangyung estuary enclosed by the Saemangeum Embankment in JEOLlabuk-do of South Korea, and characterized using a polyphasic approach. 16S rRNA gene sequence analysis of strain GSR3061T indicated that the isolate belonged to the phylum Bacteroidetes and exhibited similarity levels of 94.7 % to Rufibacter tibetensis NRRL B-51285T, 92.4 % to Adhaeribacter terreus KACC 14257T and 91.9 % to Pontibacter korlensis KACC 15371T. Growth was observed at 15–40 °C and pH 6.5–9.5. The major cellular fatty acids of the novel strain were summed feature 4 (comprising iso-C17 : 1 I and/or anteiso-C17 : 1 B), iso-C15 : 0, C17 : 1ω6c and iso-C16 : 1 H. Flexirubin-type pigments were absent. The DNA G+C content of strain GSR3061T was 44.9 mol% and the major quinone was MK-7. The polar lipid profile consisted mainly of phosphatidylethanolamine; three unidentified lipids, two unknown aminolipids, two unknown phospholipids, an unknown aminophospholipid and an unknown glycolipid were also present. On the basis of the evidence presented, it is concluded that strain GSR3061T represents a novel species of a new genus, for which the name Nibribacter koreensis gen. nov., sp. nov. is proposed. The type strain of Nibribacter koreensis is GSR3061T ( = KACC 16450T = JCM 17917T).

scholarly journals Plantactinospora veratri sp. nov., an actinomycete isolated from black false hellebore root (Veratrum nigrum L.)

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1799-1804 ◽  
Author(s):  
He Xing ◽  
Chongxi Liu ◽  
Yuejing Zhang ◽  
Junwei Zhao ◽  
Chuang Li ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Mycolic Acids ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Sequence Similarities

A novel actinomycete, designated strain NEAU-FHS4T, was isolated from the root of black false hellebore (Veratrum nigrum L.). Strain NEAU-FHS4T formed single spores with smooth surfaces on substrate mycelium. The novel strain contained meso-diaminopimelic as amino acid of the peptidoglycan and xylose and glucose as whole-cell sugars. The predominant menaquinones were MK-10(H6) and MK-10(H8). Mycolic acids were not detected. The diagnostic phospholipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylinositol. The predominant cellular fatty acids were iso-C16 : 0, C16 : 0, C18 : 0 and anteiso-C17 : 0. Phenotypic and chemotaxonomic analysis showed that the novel isolate had characteristics typical of members of the genus Plantactinospora . 16S rRNA gene sequence analysis also indicated that strain NEAU-FHS4T belonged to the genus Plantactinospora , with highest sequence similarities to Plantactinospora mayteni YIM 61359T (98.88 %) and Plantactinospora endophytica YIM 68255T (98.85 %). The results of DNA–DNA hybridization and physiological and biochemical tests allowed genotypic and phenotypic differentiation of the novel strain from the most closely related strains. Based on morphological, chemotaxonomic and phylogenetic data, strain NEAU-FHS4T is considered to represent a novel species of the genus Plantactinospora , for which the name Plantactinospora veratri sp. nov. is proposed. The type strain is NEAU-FHS4T ( = CGMCC 4.7143T = DSM 46718T).

scholarly journals Taxonomic revision of the genus Geobacillus : emendation of Geobacillus , G. stearothermophilus , G. jurassicus , G. toebii , G. thermodenitrificans and G. thermoglucosidans (nom. corrig., formerly ‘thermoglucosidasius’); transfer of Bacillus thermantarcticus to the genus as G. thermantarcticus comb. nov.; proposal of Caldibacillus debilis gen. nov., comb. nov.; transfer of G. tepidamans to Anoxybacillus as A. tepidamans comb. nov.; and proposal of Anoxybacillus caldiproteolyticus sp. nov.

2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1470-1485 ◽  
Author(s):  
An Coorevits ◽  
Anna E. Dinsdale ◽  
Gillian Halket ◽  
Liesbeth Lebbe ◽  
Paul De Vos ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
Type Strain ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis

Sixty-two strains of thermophilic aerobic endospore-forming bacteria were subjected to polyphasic taxonomic study including 16S rRNA gene sequence analysis, polar lipid and fatty acid analysis, phenotypic characterization, and DNA–DNA hybridization experiments. Distinct clusters of the species Geobacillus stearothermophilus , Geobacillus thermodenitrificans , Geobacillus toebii and Geobacillus thermoglucosidasius were formed, allowing their descriptions to be emended, and the distinctiveness of the poorly represented species Geobacillus jurassicus , Geobacillus subterraneus and Geobacillus caldoxylosilyticus was confirmed. It is proposed that the name Geobacillus thermoglucosidasius be corrected to Geobacillus thermoglucosidans nom. corrig. Bacillus thermantarcticus clustered between Geobacillus species on the basis of 16S rRNA gene sequence analysis, and its transfer to the genus Geobacillus as Geobacillus thermantarcticus comb. nov. (type strain LMG 23032T = DSM 9572T = strain M1T = R-35644T) is proposed. The above-mentioned species, together with Geobacillus thermoleovorans and Geobacillus thermocatenulatus , form a monophyletic cluster representing the genus Geobacillus . The distinctiveness of ‘Geobacillus caldoproteolyticus’ was confirmed and it is proposed that it be accommodated, along with Geobacillus tepidamans , in the genus Anoxybacillus as Anoxybacillus caldiproteolyticus sp. nov. (type strain DSM 15730T = ATCC BAA-818T = LMG 26209T = R-35652T) and Anoxybacillus tepidamans comb. nov. (type strain LMG 26208T = ATCC BAA-942T = DSM 16325T = R-35643T), respectively. The type strain of Geobacillus debilis was not closely related to any members of the genera Anoxybacillus and Geobacillus , and it is proposed that this species be placed in the new genus Caldibacillus as Caldibacillus debilis gen. nov. comb. nov. The type strain of the type species, Caldibacillus debilis, is LMG 23386T ( = DSM 16016T = NCIMB 13995T = TfT = R-35653T).

scholarly journals Microbispora bryophytorum sp. nov., an actinomycete isolated from moss (Bryophyta)

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1274-1279 ◽  
Author(s):  
Chuang Li ◽  
Yuejing Zhang ◽  
Chongxi Liu ◽  
Haiyan Wang ◽  
Junwei Zhao ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Morphological Characteristics ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A novel endophytic actinomycete, designated strain NEAU-TX2-2T, was isolated from moss and characterized using a polyphasic approach. The isolate was found to have morphological characteristics typical of the genus Microbispora . The isolate formed longitudinally paired spores on the tips of short sporophores that branched from aerial hyphae. Analysis of the 16S rRNA gene sequence supported the assignment of the novel strain to the genus Microbispora , and strain NEAU-TX2-2T exhibited 99.08 and 98.62 % gene sequence similarities to Microbispora amethystogenes JCM 3021T and Microbispora rosea subsp. rosea JCM 3006T, respectively. However two tree-making algorithms supported the position that strain NEAU-TX2-2T formed a distinct clade with M. rosea subsp. rosea JCM 3006T. A low level of DNA–DNA relatedness allowed the isolate to be differentiated from M. amethystogenes JCM 3021T and M. rosea subsp. rosea JCM 3006T. Moreover, strain NEAU-TX2-2T could also be distinguished from its closest phylogenetic relatives by morphological and physiological characteristics. Therefore, it is proposed that strain NEAU-TX2-2T represents a novel species of the genus Microbispora for which the name Microbispora bryophytorum sp. nov. is proposed. The type strain is NEAU-TX2-2T ( = CGMCC 4.7138T = DSM 46710T).

Mycetocola miduiensis sp. nov., a psychrotolerant bacterium isolated from Midui glacier

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2661-2665 ◽  
Author(s):  
Lang Zhu ◽  
Qing Liu ◽  
Hongcan Liu ◽  
Yuguang Zhou ◽  
Yuhua Xin ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Psychrotolerant Bacterium ◽  
Sequence Similarities

An aerobic, asporous, flagellated, Gram-stain-positive, rod-shaped bacterium MD-T1-10-2T was isolated from the topsoil of Midui Glacier, Tibet Province, China. Phylogenetic analysis based on 16S rRNA gene sequence analysis placed the strain in a clade containing Mycetocola manganoxydans CCTCC AB 209002T, Mycetocola reblochoni DSM 18580T, Mycetocola tolaasinivorans JCM 11656T, Mycetocola lacteus JCM 11654T and Mycetocola saprophilus JCM 11655T, with the sequence similarities of 99.2, 98.1, 96.7, 96.6 and 96.4 %, respectively. DNA–DNA hybridization analysis indicated that strain MD-T1-10-2T represented a new member of this genus. The optimal ranges of temperature and pH for growth were 20–25 °C and 7.0–9.0, respectively; the strain could even grow at 0 °C. The major cellular fatty acids were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. The predominant menaquinones were MK-10 and MK-11. The cell wall amino acids were lysine, alanine, glycine and glutamic acids. The DNA G+C content was 65.9 mol%. Based on the genotypic and phenotypic data, strain MD-T1-10-2T for which the name Mycetocola miduiensis sp. nov. is proposed; the type strain is MD-T1-10-2T ( = CGMCC 1.11101T = NBRC 107877T).

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