scholarly journals Friedmanniella luteola sp. nov., Friedmanniella lucida sp. nov., Friedmanniella okinawensis sp. nov. and Friedmaniella sagamiharensis sp. nov., isolated from spiders

2010 ◽  
Vol 60 (1) ◽  
pp. 113-120 ◽  
Author(s):  
Kimika Iwai ◽  
Kazuo Aisaka ◽  
Makoto Suzuki
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Data ◽  
Chemical Properties ◽  
Rrna Gene ◽  
The Novel ◽  
Mycolic Acids ◽  
Isoprenoid Quinones ◽  
The 16S Rrna Gene ◽  
And Chemical Properties

Four Gram-positive, non-motile, aerobic actinobacteria were isolated from spiders and their webs. Their genetic, phenotypic and chemical properties were studied. The 16S rRNA gene sequence data suggested that the four novel isolates belonged to the genus Friedmanniella. Two strains (FA1T and FA2T) formed a cluster together with Friedmanniella capsulata and Friedmanniella lacustris and the other two strains (FB1T and FB2T) formed a cluster together with Friedmanniella antarctica and Friedmanniella spumicola. The cell-wall peptidoglycan contained ll-A2pm and mycolic acids were absent. Isoprenoid quinones were mainly composed of MK-9(H4), MK-9(H2) and MK-9 and the predominant fatty acids were 12-methyltetradecanoic acid (ai-C15 : 0) and 13-methyltetradecanoic acid (i-C15 : 0). The major polar lipids were phosphatidylinositol and phosphatidylglycerol. In addition, strain FA1T, FB1T, and FB2T contained diphosphatidylglycerol and phosphatidylcholine. The DNA G+C contents were: 72 mol%, 73 mol%, 74 mol% and 75 mol% for strains FA1T, FA2T, FB1T, and FB2T, respectively. DNA–DNA hybridization studies demonstrated that the novel strains showed low relatedness values to F. capsulata, F. lacustris, F. antarctica and F. spumicola. These data support the proposal that strains FA1T, FA2T, FB1T and FB2T represent novel species of the genus Friedmanniella. Therefore, the names Friedmanniella luteola (type strain FA1T=DSM 21741T=NBRC 104963T), Friedmanniella lucida (type strain FA2T=DSM 21742T=NBRC 104964T), Friedmanniella okinawensis (type strain FB1T=DSM 21744T=NBRC 104966T) and Friedmanniella sagamiharensis (type strain FB2T=DSM 21743T=NBRC 104965T) are proposed for these new strains.

scholarly journals Actinocatenispora sera sp. nov., isolated by long-term culturing

2007 ◽  
Vol 57 (11) ◽  
pp. 2651-2654 ◽  
Author(s):  
Atsuko Matsumoto ◽  
Yōko Takahashi ◽  
Megumi Fukumoto ◽  
Satoshi Ōmura
Keyword(s):  
Dna Hybridization ◽  
Chemical Properties ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Mycolic Acids ◽  
Gene Sequence Analysis ◽  
The Family ◽  
The 16S Rrna Gene ◽  
And Chemical Properties

Two novel actinomycete strains, KV-744T and KV-856, were isolated by long-term cultivation. Aerial long-chain spores were produced directly from vegetative mycelia and possessed no motility. Vegetative mycelia developed very well and exhibited fragmentation. The cell-wall peptidoglycan contained meso-diaminopimelic acid, glycine, alanine and glutamic acid, and whole-cell hydrolysates contained arabinose, galactose and xylose. The acyl type of the peptidoglycan was glycolyl. The predominant menaquinone was MK-9(H4) and mycolic acids were not detected. The diagnostic phospholipid was phosphatidylethanolamine. The predominant cellular fatty acids were 14-methylhexadecanoic (ai-C17 : 0), 14-methylpentadecanoic (i-C16 : 0), 15-methylhexadecanoic (i-C17 : 0) and 13-methyltetradecanoic (i-C15 : 0) acids. The G+C content of the DNA was 72–73 mol%. The phenotypic and chemical properties indicated that the two isolates belong to the family Micromonosporaceae and the 16S rRNA gene sequence analysis suggested that the closest relationship was with Actinocatenispora thailandica. The DNA–DNA hybridization values between strain KV-744T or KV-856 and A. thailandica TT2-10T were 42–53 %. Based on the data above, strains KV-744T and KV-856 should be classified as representing a novel species of the genus Actinocatenispora, for which the name Actinocatenispora sera sp. nov. is proposed. The type strain is KV-744T (=NRRL B-24477T=NBRC 101916T).

scholarly journals Rhodococcus kyotonensis sp. nov., a novel actinomycete isolated from soil

2007 ◽  
Vol 57 (9) ◽  
pp. 1956-1959 ◽  
Author(s):  
Bing Li ◽  
Keiko Furihata ◽  
Lin-Xian Ding ◽  
Akira Yokota
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Mycolic Acids ◽  
Rhodococcus Fascians ◽  
The 16S Rrna Gene ◽  
Is Strain

A polyphasic study was undertaken to establish the taxonomic position of an isolate, strain DS472T, from soil in Kyoto, Japan. Phylogenetic analysis, based on the 16S rRNA gene sequences, revealed that this strain constitutes a new subline within the genus Rhodococcus, with Rhodococcus yunnanensis YIM 70056T and Rhodococcus fascians DSM 20669T as its nearest phylogenetic neighbours (98.2 and 97.8 % sequence similarity, respectively). DNA–DNA hybridization experiments revealed 36 and 29 % relatedness between the isolate and its phylogenetic relatives, R. yunnanensis and R. fascians, respectively. Chemotaxonomic characteristics, including the major quinone MK-8(H2), predominant fatty acids C16 : 0, C18 : 1 ω9c and 10-methyl C18 : 0, the presence of cell-wall chemotype IV and mycolic acids, were consistent with the properties of members of the genus Rhodococcus. The DNA G+C content was 64.5 mol%. On the basis of both phenotypic and genotypic evidence, strain DS472T represents a novel species of the genus Rhodococcus, for which the name Rhodococcus kyotonensis sp. nov. is proposed. The type strain is strain DS472T (=IAM 15415T=CCTCC AB206088T).

scholarly journals Characterization a Novel Butyric Acid-Producing Bacterium Collinsella aerofaciens Subsp. Shenzhenensis Subsp. Nov.

2019 ◽  
Vol 7 (3) ◽  
pp. 78 ◽  
Author(s):  
Panpan Qin ◽  
Yuanqiang Zou ◽  
Ying Dai ◽  
Guangwen Luo ◽  
Xiaowei Zhang ◽  
...  
Keyword(s):  
Butyric Acid ◽  
Dna Hybridization ◽  
Type Strain ◽  
Inflammatory Diseases ◽  
Optimal Growth ◽  
Growth Conditions ◽  
Rrna Gene ◽  
Human Gut ◽  
Positive Growth ◽  
The 16S Rrna Gene

Butyrate-producing bacteria can biosynthesize butyrate and alleviate inflammatory diseases. However, few studies have reported that the genus Collinsella has the ability to produce butyric acid. Here, our study depicts a Collinsella strain, which is a rod-shaped obligate anaerobe that is able to produce butyric acid. This microorganism was isolated from a human gut, and the optimal growth conditions were found to be 37 °C on PYG medium with pH 6.5. The 16S rRNA gene sequence demonstrated that this microorganism shared 99.93% similarity with C. aerofaciens ATCC 25986T, which was higher than the threshold (98.65%) for differentiating two species. Digital DNA–DNA hybridization and average nucleotide identity values also supported that this microorganism belonged to the species C. aerofaciens. Distinct phenotypic characteristics between TF06-26 and the type strain of C. aerofaciens, such as the fermentation of D-lactose, D-fructose and D-maltose, positive growth under pH 5 and 0.2% (w/v) cholate, suggested this strain was a novel subspecies. Comparative genome analysis revealed that butyric acid kinase and phosphate butyryltransferase enzymes were coded exclusively by this strain, indicating a specific butyric acid-producing function of this C. aerofaciens subspecies within the genus Collinsella. Thus, Collinsella aerofaciens subsp. shenzhenensis subsp. nov. was proposed, with set strain TF06-26T (=CGMCC 1.5216T = DSM 105138T) as the type strain.

scholarly journals Kocuria koreensis sp. nov., isolated from fermented seafood

2010 ◽  
Vol 60 (1) ◽  
pp. 140-143 ◽  
Author(s):  
Eun-Jin Park ◽  
Seong Woon Roh ◽  
Min-Soo Kim ◽  
Mi-Ja Jung ◽  
Kee-Sun Shin ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Genomic Dna ◽  
Type Strain ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
The 16S Rrna Gene

A Gram-positive, aerobic, non-motile and coccoid actinobacterium, designated P31T, was isolated from a traditional, fermented seafood. The strain was catalase-positive and oxidase-negative. Cells grew in the presence of 0–15.0 % (w/v) NaCl, and at pH 5–10 and 15–37 °C. Major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. Strain P31T contained MK-7 as the predominant menaquinone. The DNA G+C content of the genomic DNA of strain P31T was 65.2 mol%. A phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain P31T was most closely related to Kocuria kristinae DSM 20032T, with 96.9 % similarity, and these two strains clustered together in constructed phylogenetic trees. The DNA–DNA hybridization value between strain P31T and K. kristinae DSM 20032T was 21.1 %. On the basis of the phenotypic, chemotaxonomic and phylogenetic data, it is suggested that strain P31T represents a novel species of the genus Kocuria, for which the name Kocuria koreensis sp. nov. is proposed. The type strain is P31T (=KCTC 19595T=JCM 15915T).

scholarly journals Amphibacillus sediminis sp. nov., an endospore-forming bacterium isolated from lake sediment in Japan

2007 ◽  
Vol 57 (11) ◽  
pp. 2489-2492 ◽  
Author(s):  
Sun-Young An ◽  
Shu Ishikawa ◽  
Hiroaki Kasai ◽  
Keiichi Goto ◽  
Akira Yokota
Keyword(s):  
Lake Sediment ◽  
Type Strain ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Diamino Acid ◽  
Isoprenoid Quinones ◽  
Type Strains

A facultatively anaerobic, moderately alkaliphilic, Gram-positive, spore-forming and rod-shaped bacterial strain, Shu-P-Ggiii25-2T, was isolated from lake sediment in Shizuoka, Japan, and was characterized taxonomically using a polyphasic approach. Analysis of the 16S rRNA gene sequence indicated that the novel isolate clustered with the type strain of Amphibacillus xylanus and it exhibited sequence similarities of 94.9–95.6 % to the type strains of species of the genus Amphibacillus. Isoprenoid quinones and oxidase and catalase activities were not detected for strain Shu-P-Ggiii25-2T. The DNA G+C content was 42.3 mol%, the cell-wall peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid and the major cellular fatty acids were iso-C14 : 0, iso-C15 : 0, anteiso-C15 : 0, C16 : 0 and iso-C16 : 0. On the basis of phylogenetic position and phenotypic properties, strain Shu-P-Ggiii25-2T represents a novel species of the genus Amphibacillus, for which the name Amphibacillus sediminis sp. nov. is proposed. The type strain is Shu-P-Ggiii25-2T (=MBIC08269T=IAM 15428T=KCTC 13120T). An emended description of the genus Amphibacillus is also given.

scholarly journals Solimonas soli gen. nov., sp. nov., isolated from soil of a ginseng field

2007 ◽  
Vol 57 (11) ◽  
pp. 2591-2594 ◽  
Author(s):  
Myung Kyum Kim ◽  
Yu-Jin Kim ◽  
Dong-Ha Cho ◽  
Tae-Hoo Yi ◽  
Nak-Kyun Soung ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
The 16S Rrna Gene

A micro-organism, DCY12T, comprising Gram-negative, non-motile, pale-yellow rods was isolated from soil from a ginseng field in South Korea and was investigated to determine its taxonomic status. It grew optimally at 30 °C and at pH 7.0, the G+C content of its DNA was 40.5 mol%, the major components of the fatty acid profile were C16 : 0 and C18 : 1 and the major ubiquinone was Q-8. A phylogenetic analysis based on the 16S rRNA gene sequence revealed that the novel isolate was most closely related to Hydrocarboniphaga effusa AP103T (89.2 %), Nevskia ramosa Soe1 (88.8 %) and Pseudomonas aeruginosa ATCC 10145T (83.2 %). The phenotypic, physiological, metabolic and phylogenetic properties of DCY12T suggest that it represents a novel genus (class Gammaproteobacteria) and species, for which the name Solimonas soli gen. nov., sp. nov. is proposed. The type strain of Solimonas soli is DCY12T (=KCTC 12834T =LMG 24014T).

Amycolatopsis helveola sp. nov. and Amycolatopsis pigmentata sp. nov., isolated from soil

2010 ◽  
Vol 60 (11) ◽  
pp. 2629-2633 ◽  
Author(s):  
Tomohiko Tamura ◽  
Yuumi Ishida ◽  
Misa Otoguro ◽  
Ken-ichiro Suzuki
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Monophyletic Cluster ◽  
The 16S Rrna Gene ◽  
Taxonomical Study

Three short spore chain-forming actinomycete strains were isolated from soil samples collected from subtropical islands in Japan. The cell-wall peptidoglycan of these strains contained meso-diaminopimelic acid (meso-A2pm), glutamic acid and alanine. The major isoprenoid quinone was MK-9(H4), iso-C16 : 0 and 2-OH iso-C16 : 0 were the major cellular fatty acids and phosphatidylethanolamine was a component of the polar lipids. The G+C content of the genomic DNA was 67–69 mol%. Phylogenetic analyses based on the 16S rRNA gene sequences showed that the novel strains consistently formed a monophyletic cluster with Amycolatopsis taiwanensis. On the basis this polyphasic taxonomical study, it is proposed that the two new isolates represent two novel species: Amycolatopsis helveola (type strain TT00-43T=NBRC 103394T=KCTC 19329T) and Amycolatopsis pigmentata (type strain TT99-32T=NBRC 103392T=KCTC 19330T).

scholarly journals Ignatzschineria indica sp. nov. and Ignatzschineria ureiclastica sp. nov., isolated from adult flesh flies (Diptera: Sarcophagidae)

2011 ◽  
Vol 61 (6) ◽  
pp. 1360-1369 ◽  
Author(s):  
Arvind Kumar Gupta ◽  
Mahesh Shantappa Dharne ◽  
Ashraf Yusuf Rangrez ◽  
Pankaj Verma ◽  
Hemant V. Ghate ◽  
...  
Keyword(s):  
16S Rrna ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Data ◽  
Sequence Similarity ◽  
23S Rrna ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Flesh Flies

Two Gram-negative-staining, aerobic, non-motile, rod-shaped bacteria, designated strains FFA1T and FFA3T, and belonging to the class Gammaproteobacteria were isolated from the gastrointestinal tract of adult flesh flies (Diptera: Sarcophagidae). Phylogenetic analysis of 16S rRNA gene sequence data placed these two strains within the genus Ignatzschineria with similarities of 98.6 % (FFA1T) and 99.35 % (FFA3T) to Ignatzschineria larvae L1/68T. The level of gene sequence similarity between strains FFA1T and FFA3T was 99 %, 97.15 % and 78.1 % based on the 16S rRNA, 23S rRNA and gyrB gene sequences, respectively. Strains FFA1T and FFA3T shared 24 % DNA–DNA relatedness. DNA–DNA hybridization revealed a very low level of relatedness between the novel strains (22 % for strain FFA1T and 44 % for strain FFA3T) and I. larvae L1/68T genomic DNA. The respiratory quinone was Q-8 in both novel strains. The DNA G+C contents were 41.1 mol% and 40.1 mol% for strains FFA1T and FFA3T, respectively. The cell membrane of both strains consisted of phosphatidylglycerol, phosphatidylethanolamine, phospholipids and aminophospholipid. The major fatty acids for both strains were C16 : 0, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), CyC19 : 0ω8c and C14 : 0. The results of DNA–DNA hybridization between the two new strains and I. larvae L1/68T, in combination with phylogenetic, chemotaxonomic, biochemical and electron microscopic data, demonstrated that strains FFA1T and FFA3T represented two novel species of the genus Ignatzschineria for which the names Ignatzschineria indica sp. nov. (type strain FFA1T = DSM 22309T = KCTC 22643T = NCIM 5325T) and Ignatzschineria ureiclastica sp. nov. (type strain FFA3T = DSM 22310T = KCTC 22644T = NCIM 5326T) are proposed.

scholarly journals Microbacterium rhizomatis sp. nov., a β-glucosidase-producing bacterium isolated from rhizome of Korean mountain ginseng

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 3196-3202 ◽  
Author(s):  
Van-An Hoang ◽  
Yeon-Ju Kim ◽  
Ngoc Lan Nguyen ◽  
Chang Ho Kang ◽  
Jong-Pyo Kang ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Ginseng Root ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
The 16S Rrna Gene

A novel Gram-staining-positive, rod-shaped bacterium, designated DCY100T, was isolated from rhizome of mountain ginseng root in Hwacheon mountain, Gangwon province, Republic of Korea. The 16S rRNA gene sequence analysis showed that strain DCY100T belonged to the genus Microbacterium and was most closely related to Microbacterium ginsengisoli KCTC 19189T (97.9 %), Microbacterium lacus JCM 15575T (97.2 %) and Microbacterium invictum DSM 19600T (97.1 %). The major menaquinones were MK-11 and MK-12. The major polar lipids were found to be diphosphatidylglycerol, phosphatidylglycerol and one unidentified glycolipid. The major fatty acids (>10.0 %) were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The cell-wall peptidoglycan contained the amino acids ornithine, alanine, glutamic acid and glycine; whole-cell sugars consisted of glucose, galactose, rhamnose and ribose. The DNA G+C content was 63.6 ± 0.7 mol%. The DNA–DNA hybridization relatedness values between strain DCY100T and Microbacterium ginsengisoli KCTC 19189T, Microbacterium lacus JCM 15575T and Microbacterium invictum DSM 19600T were 36.2 ± 0.4, 22.0 ± 3.0 and 15.3 ± 1.8 %, respectively. On the basis of phenotypic, chemotaxonomic and genotypic analyses, the isolate is classified as a representative of a novel species in the genus Microbacterium, for which the name Microbacterium rhizomatis DCY100T is proposed. The type strain is DCY100T ( = KCTC 39529T = JCM 30598T).

scholarly journals Helicobacter mesocricetorum sp. nov., a Novel Helicobacter Isolated from the Feces of Syrian Hamsters

2000 ◽  
Vol 38 (5) ◽  
pp. 1811-1817 ◽  
Author(s):  
J. H. Simmons ◽  
L. K. Riley ◽  
C. L. Besch-Williford ◽  
C. L. Franklin
Keyword(s):  
Alkaline Phosphatase ◽  
Sequence Analysis ◽  
Type Strain ◽  
Rrna Gene ◽  
The Novel ◽  
Accession Number ◽  
Syrian Hamsters ◽  
Novel Bacterium ◽  
Microaerobic Conditions ◽  
The 16S Rrna Gene

A spiral-shaped bacterium with bipolar, single, nonsheathed flagella was isolated from the feces of Syrian hamsters. The bacterium grew as a thin spreading film at 37°C under microaerobic conditions, did not hydrolyze urea, was positive for catalase and alkaline phosphatase, reduced nitrate to nitrite, did not hydrolyze hippurate, and was sensitive to nalidixic acid but resistant to cephalothin. Sequence analysis of the 16S rRNA gene and biochemical and phenotypic criteria indicate that the novel bacterium is a helicobacter. The novel bacterium is most closely related to the recently described mouse enteric helicobacter, Helicobacter rodentium. This is the first urease-negative Helicobacter species with nonsheathed flagella isolated from feces of asymptomatic Syrian hamsters. We propose to name this novel helicobacter Helicobacter mesocricetorum. The type strain is MU 97-1514 (GenBank accession number AF072471).

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