scholarly journals Sphingobium olei sp. nov., isolated from oil-contaminated soil

2007 ◽  
Vol 57 (11) ◽  
pp. 2613-2617 ◽  
Author(s):  
C. C. Young ◽  
M.-J. Ho ◽  
A. B. Arun ◽  
W.-M. Chen ◽  
W.-A. Lai ◽  
...  
Keyword(s):  
Contaminated Soil ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Phyletic Line ◽  
Lipid Pattern ◽  
Taxonomic Approach

The taxonomic status of a yellow-coloured bacterial isolate from an oil-contaminated soil sample was determined using a polyphasic taxonomic approach. Comparative analysis of 16S rRNA gene sequences showed that the novel isolate formed a distinct phyletic line within the genus Sphingobium. The generic assignment was confirmed by chemotaxonomic data, which revealed: a fatty acid profile that is characteristic of the genus Sphingobium consisting of straight-chain saturated and unsaturated as well as 2-OH fatty acids; a ubiquinone with ten isoprene units (Q-10) as the predominant respiratory quinone; a polar lipid pattern consisting of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidylcholine and sphingoglycolipid, and spermidine as the major polyamine component. Genotypic and phenotypic data show that the new isolate merits classification as a representative of a novel species of the genus Sphingobium, for which the name Sphingobium olei sp. nov. is proposed. The type strain is IMMIB HF-1T (=DSM 18999T=CCUG 54329T).

scholarly journals Pseudoxanthomonas spadix sp. nov., isolated from oil-contaminated soil

2007 ◽  
Vol 57 (8) ◽  
pp. 1823-1827 ◽  
Author(s):  
Chiu Chung Young ◽  
Mann-Jing Ho ◽  
A. B. Arun ◽  
Wen-Ming Chen ◽  
Wei-An Lai ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Contaminated Soil ◽  
Sequence Divergence ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Hydroxylated Fatty Acids ◽  
Phyletic Line ◽  
Taxonomic Approach

A bacterial isolate from a sample of oil-contaminated soil was characterized using a polyphasic taxonomic approach. Comparative analysis of the 16S rRNA gene sequence showed that this isolate constituted a distinct phyletic line within the genus Pseudoxanthomonas, displaying >3.7 % sequence divergence with respect to recognised Pseudoxanthomonas species. The genus assignment was confirmed by a chemotaxonomic analysis, which revealed the presence of a fatty acid profile characteristic of members of the genus Pseudoxanthomonas (straight-chain saturated, unsaturated and branched-chain fatty acids of the iso/anteiso type and 3-hydroxylated fatty acids) and the presence of a ubiquinone with eight isoprene units (Q-8) as the predominant respiratory quinone. The novel isolate was distinguishable from other members of the genus Pseudoxanthomonas on the basis of a combination of phenotypic properties. The genotypic and phenotypic data show that the strain represents a novel species of the genus Pseudoxanthomonas, for which the name Pseudoxanthomonas spadix sp. nov. is proposed. The type strain is IMMIB AFH-5T (=DSM 18855T=CCUG 53828T).

scholarly journals Lysobacter defluvii sp. nov., isolated from municipal solid waste

2007 ◽  
Vol 57 (5) ◽  
pp. 1131-1136 ◽  
Author(s):  
A. F. Yassin ◽  
Wen-Ming Chen ◽  
H. Hupfer ◽  
C. Siering ◽  
R. M. Kroppenstedt ◽  
...  
Keyword(s):  
Fatty Acid ◽  
Sequence Divergence ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Branched Chain Fatty Acids ◽  
Phyletic Line ◽  
Profile Characteristic ◽  
Taxonomic Approach ◽  
Branched Chain

A bacterial isolate obtained from soil from a municipal landfill site in India was characterized using a polyphasic taxonomic approach. The colonies of the isolate were found to be yellow and highly mucoid. Comparative analysis of the 16S rRNA gene sequence showed that this isolate constitutes a distinct phyletic line within the genus Lysobacter, displaying >3 % sequence divergence with respect to recognized Lysobacter species. The generic assignment was confirmed by chemotaxonomic data, which revealed the presence of a fatty acid profile characteristic of members of the genus Lysobacter and consisting of saturated, unsaturated, straight-chain and branched-chain fatty acids as well as iso-C11 : 0 3-OH as hydroxylated fatty acid, and the presence of an ubiquinone with eight isoprene units (Q-8) as the predominant respiratory quinone. The genotypic and phenotypic data show that strain IMMIB APB-9T merits classification as representing a novel species of the genus Lysobacter, for which the name Lysobacter defluvii sp. nov. is proposed. The type strain is IMMIB APB-9T (=CCUG 53152T=DSM 18482T).

scholarly journals Brachybacterium hainanense sp. nov., isolated from noni (Morinda citrifolia L.) branch

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4196-4201 ◽  
Author(s):  
Yang Liu ◽  
Lei Zhai ◽  
Su Yao ◽  
Yanhua Cao ◽  
Yu Cao ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Dna Hybridization ◽  
Morinda Citrifolia ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Taxonomic Approach ◽  
Type Strains

A Gram-stain-positive bacterial strain, designated as NR2T, isolated from noni (Morinda citrifolia L.) branch was investigated using a polyphasic taxonomic approach. The cells were small coccoid to ovoid, non-spore-forming and motile. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain was a representative of a member of the genus Brachybacterium, to which the most closely related neighbours were Brachybacterium squillarum M-6-3T (97.90 % similarity), Brachybacterium faecium DSM 4810T (97.50 %), Brachybacterium sacelli LMG 20345T (97.41 %), Brachybacterium phenoliresistens phenol-AT (97.36 %), Brachybacterium nesterenkovii DSM 9573T (97.36 %) and Brachybacterium rhamnosum LMG 19848T (97.32 %). The polar lipid profile of strain NR2T consisted of diphosphatidylglycerol, phosphatidylglycerol, unknown phospholipids and unknown glycolipids. The predominant respiratory quinone was MK-8, with MK-9 and MK-7 as minor components. The major fatty acids were anteiso-C15 : 0 and iso-C15 : 0. Strain NR2T was clearly distinguishable from the type strains of related species on the basis of phylogenetic analysis, DNA–DNA hybridization, fatty acid composition data analysis and a range of physiological and comparison of biochemical characteristics. It is evident from the genotypic and phenotypic data that strain NR2T represents a novel species of the genus Brachybacterium, for which the name Brachybacterium hainanense sp. nov. is proposed. The type strain is NR2T ( = DSM 29535T = CICC 10874T).

scholarly journals Pontirhabdus pectinivorans gen. nov., sp. nov., isolated from seawater

2011 ◽  
Vol 61 (10) ◽  
pp. 2475-2481 ◽  
Author(s):  
Hana Yi ◽  
Jang-Cheon Cho ◽  
Jongsik Chun
Keyword(s):  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Phenotypic Traits ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Phyletic Line ◽  
Taxonomic Approach ◽  
Sequence Similarities

A yellow-coloured, rod-shaped, Gram-reaction-negative and aerobic bacterial strain, designated JC2675T, was isolated from a seawater sample from Jeju Island, Korea. The isolate required sea salts for growth. Gliding motility was observed. Flexirubin-type pigments were absent. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain JC2675T represented a distinct phyletic line that reflected a novel generic status within the family Flavobacteraceae with relatively low gene sequence similarities (<95.7 %) to other recognized genera. The predominant isoprenoid quinone (MK-6) and DNA G+C content (30 mol%) were consistent with the assignment of the novel strain to the family Flavobacteriaceae, but overall phenotypic traits demonstrated that the novel strain was not closely affiliated with any previously described genus. Based on data from a study using a polyphasic taxonomic approach, it is proposed that strain JC2675T represents a new genus and novel species belonging to the family Flavobacteriaceae, for which the name Pontirhabdus pectinivorans gen. nov., sp. nov. is proposed. The type strain of the type species is JC2675T ( = KACC 14153T = JCM 17107T).

Persicobacter psychrovividus sp. nov., isolated from shellfish, and emended descriptions of the genus Persicobacter and Persicobacter diffluens

2010 ◽  
Vol 60 (8) ◽  
pp. 1735-1739 ◽  
Author(s):  
Yuki Muramatsu ◽  
Mai Takahashi ◽  
Mika Kaneyasu ◽  
Takao Iino ◽  
Ken-ichiro Suzuki ◽  
...  
Keyword(s):  
Rrna Gene ◽  
The Novel ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Major Respiratory Quinone ◽  
Taxonomic Approach

The taxonomic position of three bacterial strains, Asr22-19T, NBRC 101035 and NBRC 101041, isolated from shellfish in Japan, was determined by using a polyphasic taxonomic approach. The strains were facultatively anaerobic, motile by gliding and Gram-staining-negative slender rods. Their major respiratory quinone was menaquinone-7 and their predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 0 3-OH, C16 : 0 3-OH, and C16 : 0. The G+C content of the genomic DNA was 42.0–42.7 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strains clustered with the genus Persicobacter in the family ‘Flammeovirgaceae’. DNA–DNA relatedness values were higher than 68 % among strains Asr22-19T, NBRC 101035 and NBRC 101041, and were lower than 28 % between strain Asr22-19T and Persicobacter diffluens NBRC 15940T. The three novel strains could be differentiated from Persicobacter diffluens by several phenotypic characteristics. On the basis of these results, the novel species Persicobacter psychrovividus sp. nov. (type strain Asr22-19T=NBRC 101262T=CIP 109100T) is proposed and emended descriptions are given for the genus Persicobacter and for Persicobacter diffluens.

scholarly journals Amycolatopsis australiensis sp. nov., an actinomycete isolated from arid soils

2006 ◽  
Vol 56 (10) ◽  
pp. 2297-2301 ◽  
Author(s):  
Geok Yuan Annie Tan ◽  
Stuart Robinson ◽  
Ernest Lacey ◽  
Michael Goodfellow
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Morphological Markers ◽  
Amycolatopsis Mediterranei ◽  
16S Rrna Gene Sequences ◽  
Species Status ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Phyletic Line

The taxonomic position of a group of mesophilic actinomycetes isolated from arid Australian soils was determined using a polyphasic approach. The organisms shared chemical and morphological markers typical of members of the genus Amycolatopsis. They had identical 16S rRNA gene sequences and formed a distinct phyletic line in the Amycolatopsis mediterranei clade, being most closely related to A. mediterranei. In addition, they shared a range of phenotypic properties that distinguished them from representatives of all of the species classified in this clade. The combined genotypic and phenotypic data indicate that the strains merit species status within the genus Amycolatopsis. The name proposed for the novel species is Amycolatopsis australiensis sp. nov.; the type strain is GY048T (=DSM 44671T=NCIMB 14142T).

scholarly journals Rubritalea halochordaticola sp. nov., a carotenoid-producing verrucomicrobial species isolated from a marine chordate

2011 ◽  
Vol 61 (7) ◽  
pp. 1515-1520 ◽  
Author(s):  
Jaewoo Yoon ◽  
Satoru Matsuda ◽  
Kyoko Adachi ◽  
Hiroaki Kasai ◽  
Akira Yokota
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Sea Squirt ◽  
Cell Biomass ◽  
Taxonomic Approach

A Gram-negative-staining, obligately aerobic, non-motile, rod-shaped and chemoheterotrophic bacterium, designated strain MN1-1006T, was isolated from an ascidian (sea squirt) sample, and was studied using a polyphasic taxonomic approach. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the new isolate shared approximately 93–99% sequence similarity with recognized species of the genus Rubritalea within the phylum ‘Verrucomicrobia’. DNA–DNA hybridization values between strain MN1-1006T and Rubritalea squalenifaciens HOact23T and Rubritalea sabuli YM29-052T were 57% and 14.5%, respectively. Strain MN1-1006T produced carotenoid compounds that rendered the cell biomass a reddish pink colour. The strain also contained squalene. The cell-wall peptidoglycan of the novel strain contained muramic acid and meso-diaminopimelic acid. The DNA G+C content of strain MN1-1006T was 51.4 mol%. The major cellular fatty acids were iso-C14:0, iso-C16:0 and anteiso-C15:0. The major isoprenoid quinone was MK-9. On the basis of these data, it was concluded that strain MN1-1006T represents a novel species of the genus Rubritalea, for which the name Rubritalea halochordaticola sp. nov. is proposed. The type strain is MN1-1006T ( = KCTC 23186T = NBRC 107102T).

scholarly journals Flavobacterium maotaiense sp. nov., isolated from freshwater

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 171-176 ◽  
Author(s):  
Qingqing Feng ◽  
Yuan Gao ◽  
Yuichi Nogi ◽  
Xu Tan ◽  
Lu Han ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
West China ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Chishui River

Two novel strains, T9T and T10, were isolated from water samples collected from Chishui River flowing through Maotai town, Guizhou, south-west China. The isolates were yellow-pigmented, Gram-reaction-negative, rod-shaped, non-motile and aerobic. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolates belonged to the genus Flavobacterium , and showed highest similarities to Flavobacterium hibernum DSM 12611T (97.0 %), followed by Flavobacterium granuli Kw05T (96.7 %) and Flavobacterium pectinovorum DSM 6368T (96.7 %). The novel strains were able to grow at 20–37 °C (optimum 25 °C), pH 7.0–10.0 (optimum pH 7.0–8.0) and with 0–0.5 % (w/v) NaCl (optimum 0.5 %). The predominant fatty acids were iso-C15 : 0, C16 : 1ω7c, anteiso-C15 : 0, C15 : 0, iso-C15 : 0 3-OH and iso-C15 : 1ω10c, and menaquinone-6 (MK-6) was the main respiratory quinone. The major polar lipids were phosphatidylethanolamine, one unknown glycolipid, two unknown aminolipids and two unidentified lipids. The DNA G+C contents of strains T9T and T10 were 37.7 and 36.4 mol%, respectively. According to the phenotypic and genetic data, strains T9T and T10 represent a novel species in the genus Flavobacterium , for which the name Flavobacterium maotaiense sp. nov. is proposed. The type strain is T9T ( = CGMCC 1.12712T = JCM 19927T).

scholarly journals Isoptericola chiayiensis sp. nov., isolated from mangrove soil

2011 ◽  
Vol 61 (7) ◽  
pp. 1667-1670 ◽  
Author(s):  
M. Tseng ◽  
H. C. Liao ◽  
W. P. Chiang ◽  
G. F. Yuan
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Dna Relatedness ◽  
Mangrove Soil ◽  
Low Levels ◽  
Type Strains

A novel actinomycete, designated strain 06182M-1T, was isolated from a mangrove soil sample collected from Chiayi County in Taiwan. Phylogenetic analysis based on 16S rRNA gene sequences revealed levels of similarity of 97.0–98.8 % to the type strains of recognized species of the genus Isoptericola. Chemotaxonomic data also supported the placement of strain 06182M-1T within the genus Isoptericola. However, the low levels of DNA–DNA relatedness between the novel strain and the type strains of recognized species of the genus Isoptericola, in combination with differential phenotypic data, demonstrate that strain 06182M-1T represents a novel species of the genus Isoptericola, for which the name Isoptericola chiayiensis sp. nov. is proposed. The type strain is 06182M-1T ( = BCRC 16888T  = KCTC 19740T).

Nafulsella turpanensis gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from soil

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1639-1645 ◽  
Author(s):  
Lei Zhang ◽  
Xihui Shen ◽  
Yingbao Liu ◽  
Shiqing Li
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family

A Gram-staining-negative, rod-shaped, gliding and pale-pink-pigmented bacterium, designated strain ZLM-10T, was isolated from a soil sample collected from an arid area in Xinjiang province, China, and characterized in a taxonomic study using a polyphasic approach. The novel strain grew optimally at 30–37 °C and in the presence of 2 % (w/v) sea salts. The only respiratory quinone detected was MK-7 and the major cellular fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid and two unidentified aminophospholipids. The DNA G+C content was 45.4 mol%. Flexirubin-type pigments were not produced. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ZLM-10T was a member of the phylum Bacteroidetes and appeared most closely related to Cesiribacter roseus 311T (90.2 % sequence similarity), Marivirga sericea LMG 13021T (89.2 %), Cesiribacter andamanensis AMV16T (89.1 %) and Marivirga tractuosa DSM 4126T (89.1 %). On the basis of phenotypic and genotypic data and phylogenetic inference, strain ZLM-10T should be classified as a novel species of a new genus in the family Flammeovirgaceae , for which the name Nafulsella turpanensis gen. nov., sp. nov. is proposed. The type strain of the type species is ZLM-10T ( = CCTCC AB 208222T = KCTC 23983T).

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