Massilia yuzhufengensis sp. nov., isolated from an ice core

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1285-1290 ◽  
Author(s):  
Liang Shen ◽  
Yongqin Liu ◽  
Ninglian Wang ◽  
Tandong Yao ◽  
Nianzhi Jiao ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Ice Core ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Bacterium Strain ◽  
Type Strains

A Gram-negative, rod-shaped, aerobic, motile bacterium, strain Y1243-1T, was isolated from an ice core drilled from Yuzhufeng Glacier, Tibetan Plateau, China. Cells had polar flagella. The novel strain shared 94.7–97.6 % 16S rRNA gene sequence similarity with the type strains of species of the genus Massilia . The novel isolate is thus classified in the genus Massilia . The major fatty acids of strain Y1243-1T were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) (43.98 %), C16 : 0 (27.86 %), C10 : 0 3-OH (7.10 %), C18 : 0 (6.95 %) and C18 : 1ω7c (5.01 %). The predominant isoprenoid quinone was Q-8. The DNA G+C content of strain Y1243-1T was 65.7 mol% (T m). The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. A number of phenotypic characteristics distinguished the novel isolate from the type strains of recognized Massilia species. Furthermore, in DNA–DNA hybridization tests, strain Y1243-1T shared 45 % relatedness with its closest phylogenetic relative, Massilia consociata CCUG 58010T. From the genotypic and phenotypic data, it is evident that strain Y1243-1T represents a novel species of the genus Massilia , for which the name Massilia yuzhufengensis sp. nov. is proposed. The type strain is Y1243-1T ( = KACC 16569T = CGMCC 1.12041T).

Dyadobacter tibetensis sp. nov., isolated from glacial ice core

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3636-3639 ◽  
Author(s):  
Liang Shen ◽  
Yongqin Liu ◽  
Tandong Yao ◽  
Ninglian Wang ◽  
Baiqing Xu ◽  
...  
Keyword(s):  
Ice Core ◽  
Rrna Gene ◽  
The Tibetan Plateau ◽  
The Novel ◽  
Phenotypic Data ◽  
Glacial Ice ◽  
Content Type ◽  
Link Type ◽  
Type Strains ◽  
The 16S Rrna Gene

A Gram-stain-negative, rod-shaped, aerobic, non-motile bacterium, designated Y620-1T, was isolated from a glacier on the Tibetan Plateau, China. The 16S rRNA gene sequence of the novel isolate shared 93.6–95.1 % similarity with type strains of species of the genus Dyadobacter . The major fatty acids of strain Y620-1T were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), iso-C15 : 0, C16 : 1ω5c and iso-C17 : 0 3-OH. The predominant isoprenoid quinone and polar lipid were MK-7 and phosphatidylethanolamine (PE), respectively. The DNA G+C content was 44.4±0.3 mol% (T m). Flexirubin-type pigment was produced. The novel isolate was classified in the genus Dyadobacter , but a number of phenotypic characteristics distinguished the novel isolate from type strains of species of the genus Dyadobacter . From these genotypic and phenotypic data, it is evident that strain Y620-1T represents a novel species of the genus Dyadobacter , for which the name Dyadobacter tibetensis sp. nov. is proposed. The type strain is Y620-1T ( = JCM 18589T = CGMCC 1.12215T).

Mycetocola zhadangensis sp. nov., isolated from snow

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3375-3378 ◽  
Author(s):  
Liang Shen ◽  
Yongqin Liu ◽  
Tandong Yao ◽  
Shichang Kang ◽  
Yanan Wang ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Bacterium Strain ◽  
Isoprenoid Quinones ◽  
Type Strains ◽  
The 16S Rrna Gene

A Gram-stain-positive, aerobic, short rod-shaped bacterium, strain ZD1-4T, was isolated from the Zhadang Glacier snow pit. The 16S rRNA gene sequence of the isolate showed highest similarity (98.8 %) to that of Mycetocola manganoxydans MB1-14T. The major fatty acids of strain ZD1-4T were anteiso-C15 : 0, C16 : 0, C18 : 0 and anteiso-C17 : 0. It possessed diphosphatidylglycerol as one of the major polar lipids, and MK-10 and MK-11 as the predominant isoprenoid quinones. The DNA G+C content of strain ZD1-4T was 63.8±0.2 mol% (T m). A number of phenotypic characteristics distinguished this bacterium from the type strains of other species of the genus Mycetocola . Moreover, the novel isolate showed only approximately 50 % DNA–DNA relatedness with M. manganoxydans MB1-14T. According to these genotypic and phenotypic data, it is evident that strain ZD1-4T represents a novel species of the genus Mycetocola , for which the name Mycetocola zhadangensis sp. nov. is proposed. The type strain is ZD1-4T ( = KACC 16570T = CGMCC 1.12042T).

scholarly journals Burkholderia insulsa sp. nov., a facultatively chemolithotrophic bacterium isolated from an arsenic-rich shallow marine hydrothermal system

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 189-194 ◽  
Author(s):  
Antje Rusch ◽  
Shaer Islam ◽  
Pratixa Savalia ◽  
Jan P. Amend
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Carbohydrate Utilization ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Shallow Marine Hydrothermal System ◽  
Type Strains

Enrichment cultures inoculated with hydrothermally influenced nearshore sediment from Papua New Guinea led to the isolation of an arsenic-tolerant, acidophilic, facultatively aerobic bacterial strain designated PNG-AprilT. Cells of this strain were Gram-stain-negative, rod-shaped, motile and did not form spores. Strain PNG-AprilT grew at temperatures between 4 °C and 40 °C (optimum 30–37 °C), at pH 3.5 to 8.3 (optimum pH 5–6) and in the presence of up to 2.7 % NaCl (optimum 0–1.0 %). Both arsenate and arsenite were tolerated up to concentrations of at least 0.5 mM. Metabolism in strain PNG-AprilT was strictly respiratory. Heterotrophic growth occurred with O2 or nitrate as electron acceptors, and aerobic lithoautotrophic growth was observed with thiosulfate or nitrite as electron donors. The novel isolate was capable of N2-fixation. The respiratory quinones were Q-8 and Q-7. Phylogenetically, strain PNG-AprilT belongs to the genus Burkholderia and shares the highest 16S rRNA gene sequence similarity with the type strains of Burkholderia fungorum (99.8 %), Burkholderia phytofirmans (98.8 %), Burkholderia caledonica (98.4 %) and Burkholderia sediminicola (98.4 %). Differences from these related species in several physiological characteristics (lipid composition, carbohydrate utilization, enzyme profiles) and DNA–DNA hybridization suggested the isolate represents a novel species of the genus Burkholderia , for which we propose the name Burkholderia insulsa sp. nov. The type strain is PNG-AprilT ( = DSM 28142T = LMG 28183T).

Streptomyces ziwulingensis sp. nov., isolated from grassland soil

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1545-1549 ◽  
Author(s):  
Yan Bing Lin ◽  
Xin Ye Wang ◽  
Ting Ting Wang ◽  
Shao Shan An ◽  
Peng Shi ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Grassland Soil ◽  
Content Type ◽  
Link Type ◽  
Hybridization Data ◽  
Antibacterial And Antifungal

A novel actinobacterium, designated strain F22T, was isolated from grassland soil collected from the Ziwuling area on the Loess Plateau, China. The novel strain was found to have morphological and chemotaxonomic characteristics typical of members of the genus Streptomyces . Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain F22T belonged to the genus Streptomyces , being most closely related to Streptomyces resistomycificus NBRC 12814T (98.28 % sequence similarity), Streptomyces ciscaucasicus NBRC 12872T (98.14 %), Streptomyces chartreusis NBRC 12753T (98.14 %) and Streptomyces canus NRRL B-1989T (98.14 %). In DNA–DNA hybridizations and comparisons of morphological and phenotypic data, strain F22T could be distinguished from all of its closest phylogenetic relatives. Strain F22T exhibited antibacterial and antifungal activity, especially against Staphylococcus aureus , Bacillus subtilis and Cylindrocarpon destructans. Based on the DNA–DNA hybridization data and morphological, phenotypic and phylogenetic evidence, strain F22T represents a novel species of the genus Streptomyces , for which the name Streptomyces ziwulingensis sp. nov. is proposed. The type strain is F22T ( = CCNWFX 0001T = JCM 18081T = ACCC41875T).

Pedobacter ginsenosidimutans sp. nov., with ginsenoside-converting activity

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4396-4401 ◽  
Author(s):  
Jung-Eun Yang ◽  
Heung-Min Son ◽  
Jung Min Lee ◽  
Heon-Sub Shin ◽  
Sang-Yong Park ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
The Republic

A Gram-reaction-negative, strictly aerobic, non-motile, non-spore-forming and rod-shaped bacterial strain, designated THG-45T, was isolated from soil of a ginseng field of Pocheon province in the Republic of Korea and its taxonomic position was investigated by a polyphasic approach. Growth occurred at 4–30 °C, at pH 5.5–9.0 and with 0–2 % (w/v) NaCl on nutrient agar. On the basis of 16S rRNA gene sequence similarity, strain THG-45T was shown to belong to the genus Pedobacter and was related to Pedobacter borealis G-1T (98.8 %), P. alluvionis NWER-II11T (97.9 %), P. agri PB92T (97.9 %), P. terrae DS-57T (97.5 %), P. suwonensis 15-52T (97.4 %), P. sandarakinus DS-27T (97.0 %) and P. soli 15-51T (97.0 %), but DNA relatedness between strain THG-45T and these strains was below 36 %. The G+C content of the genomic DNA was 39 mol%. The only isoprenoid quinone detected in strain THG-45T was menaquinone-7 (MK-7). The predominant fatty acids were iso-C15 : 0, summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c) and iso-C17 : 0 3-OH, and the major polar lipids were phosphatidylethanolamine and an unidentified aminophosphoglycolipid. Phenotypic data and phylogenetic inference supported the affiliation of strain THG-45T to the genus Pedobacter , and a number of biochemical tests differentiated strain THG-45T from the recognized species of the genus Pedobacter . Therefore, the novel isolate represents a novel species, for which the name Pedobacter ginsenosidimutans sp. nov. is proposed, with THG-45T as the type strain ( = KACC 14530T = JCM 16721T).

scholarly journals Pseudovibrio axinellae sp. nov., isolated from an Irish marine sponge

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 141-145 ◽  
Author(s):  
John A. O’Halloran ◽  
Teresa M. Barbosa ◽  
John P. Morrissey ◽  
Jonathan Kennedy ◽  
Alan D. W. Dobson ◽  
...  
Keyword(s):  
Marine Sponge ◽  
Dna Hybridization ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-negative, motile, rod-shaped bacterial strain, designated Ad2T, was isolated from a marine sponge, Axinella dissimilis, which was collected from a semi-enclosed marine lake in Ireland. Strain Ad2T grew optimally at 24 °C, at pH 7.0 and in the presence of 3 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Ad2T clustered with members of the genus Pseudovibrio , and showed 97.3–98.2 % sequence similarity to the type strains of recognized Pseudovibrio species. DNA–DNA relatedness values between strain Ad2T and the type strains of other Pseudovibrio species were <27 %. The DNA G+C content of strain Ad2T was 50.5 mol%. The major fatty acid was 18 : 1ω7c. Differences in phenotypic properties, together with phylogenetic and DNA–DNA hybridization analyses, indicated that strain Ad2T represented a novel species of the genus Pseudovibrio . The name Pseudovibrio axinellae sp. nov. is proposed, with Ad2T ( = DSM 24994T = NCIMB 14761T) as the type strain.

Lysinibacillus manganicus sp. nov., isolated from manganese mining soil

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3568-3573 ◽  
Author(s):  
Hongliang Liu ◽  
Yumei Song ◽  
Fang Chen ◽  
Shixue Zheng ◽  
Gejiao Wang
Keyword(s):  
Cell Wall ◽  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Mining Soil ◽  
Link Type ◽  
Type Strains

A Gram-stain-positive, aerobic, motile, rod-shaped bacterium, designated strain Mn1-7T, was isolated from manganese mining soil in Tianjin, China. The closest phylogenetic relatives were Lysinibacillus massiliensis CCUG 49529T (97.2 % 16S rRNA gene sequence similarity), L. xylanilyticus XDB9T (96.7 %), L. sinduriensis JCM 15800T (96.2 %), L. odysseyi NBRC 100172T (95.9 %) and L. boronitolerans NBRC 103108T (95.4 %) (the type species of the genus). DNA–DNA hybridization values for strain Mn1-7T with the type strains of L. massiliensis and L. sinduriensis were 24.9 and 27.7 %, respectively. The genomic DNA G+C content was 38.4 mol%. The major menaquinone was MK-7 and the major fatty acids were iso-C15 : 0, iso-C16 : 0 and iso-C14 : 0. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The cell-wall peptidoglycan was type A4α (l-Lys–d-Asp), and the predominant cell-wall sugar was xylose. DNA–DNA hybridization results and comparison of phenotypic and chemotaxonomic characters between strain Mn1-7T and the phylogenetically most closely related strains revealed that the isolate represents a novel species of the genus Lysinibacillus , for which the name Lysinibacillus manganicus sp. nov. is proposed. The type strain is Mn1-7T ( = DSM 26584T = CCTCC AB 2012916T).

scholarly journals Noviherbaspirillum suwonense sp. nov., isolated from an air sample

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1552-1558 ◽  
Author(s):  
Soo-Jin Kim ◽  
Ji-Young Moon ◽  
Hang-Yeon Weon ◽  
Seung-Beom Hong ◽  
Soon-Ja Seok ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Air Sample ◽  
Bacterium Strain

A Gram-stain-negative bacterium, strain 5410S-62T, was isolated from an air sample collected in Suwon, Republic of Korea. It was aerobic, motile, mesophilic and formed rod-shaped cells. Colonies on R2A agar were convex, circular and pale orange with entire margins. Growth occurred at pH 5–9 (optimally at pH 7) and at 10–40 °C (optimally at 28 °C). It did not grow in the presence of 1 % NaCl. Comparative analyses of 16S rRNA gene sequences demonstrated that the novel strain was closely related to members of the genus Noviherbaspirillum . Strain 5410S-62T showed the highest sequence similarity (98.2 %) to Glaciimonas singularis A2-57T. It also showed high 16S rRNA gene sequence similarity (98.1–95.6 %) to members of the genus Noviherbaspirillum (98.1 % to Noviherbaspirillum aurantiacum SUEMI08T, 97.8 % to Noviherbaspirillum soli SUEMI10T and Noviherbaspirillum canariense SUEMI03T, 97.6 % to Noviherbaspirillum psychrotolerans PB1T and 95.6 % to Noviherbaspirillum malthae CC-AFH3T). The strain contained summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c), C16 : 0 and summed feature 8 (C18 : 1ω6c and/or C18 : 1ω7c) as major fatty acids, Q-8 as the only ubiquinone and large amounts of phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. Strain 5410S-62T revealed less than 70 % DNA–DNA relatedness with the type strains of closely related species of the genera Noviherbaspirillum and Herbaspirillum and Glaciimonas singularis . Based on the physiological, biochemical and chemotaxonomic data obtained in this study, it is proposed that strain 5410S-62T represents a novel species, Noviherbaspirillum suwonense sp. nov., with 5410S-62T ( = KACC 16657T =  NBRC 108944T) as the type strain.

Microbacterium amylolyticum sp. nov., isolated from soil from an industrial waste site

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2114-2120 ◽  
Author(s):  
Shailly Anand ◽  
Kiran Bala ◽  
Anjali Saxena ◽  
Peter Schumann ◽  
Rup Lal
Keyword(s):  
Dna Hybridization ◽  
Industrial Waste ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
The Novel ◽  
Waste Site ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

A Gram-staining-positive, heterotrophic, aerobic, non-motile, non-endospore-forming, yellow-coloured rod, designated strain N5T, was isolated from a soil sample collected at an industrial waste site in Noida, on the outskirts of Delhi, India. In phylogenetic analyses based on 16S rRNA gene sequences, strain N5T was most closely related to members of established species in the genus Microbacterium (with sequence similarities of approximately 94.0–97.6 %), particularly Microbacterium indicum LMG 23459T (97.59 %) and Microbacterium gubbeenense LMG 19263T (97.18 %). In DNA–DNA hybridization studies, however, none of the DNA–DNA relatedness values between strain N5T and members of the genus Microbacterium exceeded 11.3 %. The genomic DNA G+C content of the novel strain was 68 mol%. The chemotaxonomic characteristics of strain N5T, which had MK-11 and MK-10 as its major menaquinones and anteiso-C15 : 0 (45 %), anteiso-C17 : 0 (37 %), iso-C16 : 0 (8.5 %) and C16 : 0 (4.5 %) as its predominant fatty acids, were consistent with classification in the genus Microbacterium . Peptidoglycan in the novel strain, which contained ornithine, alanine, glycine, homoserine, glutamic acid, 3-hydroxyglutamic acid, muramic acid and traces of N-glycolyl residues, was of type B2β. The polar lipid profile of strain N5T comprised diphosphatidylglycerol, phosphatidylglycerol and an unknown glycolipid. The novel strain’s major cell-wall sugars were glucose and galactose. Based on the phylogenetic, DNA–DNA hybridization, chemotaxonomic and phenotypic data, strain N5T represents a novel species within the genus Microbacterium for which the name Microbacterium amylolyticum sp. nov. is proposed; the type strain is N5T ( = DSM 24221T = CCM 7881T).

scholarly journals Rhizobium alvei sp. nov., isolated from a freshwater river

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 472-478 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Hsing-Wei Huang ◽  
Chiu-Chung Young ◽  
Wen-Ming Chen
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Gene Encoding ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Taxonomic Approach ◽  
Freshwater River

A bacterial strain designated TNR-22T was isolated from a freshwater river in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain TNR-22T were facultatively anaerobic, Gram-stain-negative, rod-shaped, motile by a single polar flagellum and formed cream-coloured colonies. Growth occurred at 4–45 °C (optimum, 25–30 °C), with 0–1.0 % (w/v) NaCl (optimum, 0.5 %) and at pH 7.0–8.0 (optimum, pH 7.0). Strain TNR-22T did not form nodules on Macroptilium atropurpureum. The nifH gene encoding denitrogenase reductase was not detected by PCR. The major fatty acids (>10 %) of strain TNR-22T were C18 : 1ω7c and C16 : 0. The DNA G+C content was 60.3 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol, an uncharacterized aminoglycolipid and an uncharacterized phospholipid. Comparative analysis of 16S rRNA gene sequences showed that strain TNR-22T constituted a distinct branch within the genus Rhizobium , showing the highest level of sequence similarity with Rhizobium rosettiformans W3T (96.3 %). Phenotypic characteristics of the novel strain also differed from those of the most closely related species of the genus Rhizobium . On the basis of the genotypic, chemotaxonomic and phenotypic data, strain TNR-22T represents a novel species in the genus Rhizobium , for which the name Rhizobium alvei sp. nov. is proposed. The type strain is TNR-22T ( = BCRC 80408T = LMG 26895T = KCTC 23919T).

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