scholarly journals Xenophilus aerolatus sp. nov., isolated from air

2010 ◽  
Vol 60 (2) ◽  
pp. 327-330 ◽  
Author(s):  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Hang-Yeon Weon ◽  
Rangasamy Anandham ◽  
Hyung-Jun Noh ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
Total Fatty Acids ◽  
Air Sample ◽  
Xylophilus Ampelinus ◽  
Type Strains

A novel aerobic, Gram-negative, motile, rod-shaped bacterial strain designated 5516S-2T was isolated from an air sample taken in Suwon, Republic of Korea. Colonies were yellow-pigmented and circular with entire margins. 16S rRNA gene sequence analysis showed that strain 5516S-2T was closely related to Xylophilus ampelinus DSM 7250T (97.6 % sequence similarity), Variovorax soli KACC 11579T (97.5 %) and Xenophilus azovorans DSM 13620T (97.1 %). However, the phylogenetic tree indicated that strain 5516S-2T formed a separate clade from Xenophilus azovorans. Strain 5516S-2T displayed 42, 31 and 30 % DNA–DNA relatedness to the type strains of Xenophilus azovorans, Xylophilus ampelinus and V. soli, respectively. The major fatty acids (>10 % of total fatty acids) were C16 : 0 (33.3 %), C17 : 0 cyclo (18.8 %), C18 : 1 ω7c (17.5 %) and summed feature 3 (comprising C16 : 1 ω7c and/or iso-C15 : 0 2-OH; 13.0 %). The DNA G+C content was 69 mol%. The major quinone was ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and two unknown aminophospholipids. Genotypic and phenotypic characteristics clearly distinguished strain 5516S-2T from closely related species and indicated that it represents a novel species within the genus Xenophilus, for which the name Xenophilus aerolatus sp. nov. is proposed. The type strain is 5516S-2T (=KACC 12602T=DSM 19424T).

scholarly journals Prevotella copri sp. nov. and Prevotella stercorea sp. nov., isolated from human faeces

2007 ◽  
Vol 57 (5) ◽  
pp. 941-946 ◽  
Author(s):  
Hidenori Hayashi ◽  
Kensaku Shibata ◽  
Mitsuo Sakamoto ◽  
Shinichi Tomita ◽  
Yoshimi Benno
Keyword(s):  
Fatty Acid ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Fatty Acid Profiles ◽  
Phenotypic Characteristics ◽  
Human Faeces ◽  
Gene Sequence Analysis ◽  
Type Strains ◽  
Fatty Acid Compositions

Six strains (CB7T, CB18, CB23, CB26, CB28 and CB35T) were isolated from human faeces. Based on phylogenetic analysis, phenotypic characteristics, cellular fatty acid profiles and menaquinone profiles, these strains could be included within the genus Prevotella and made up two clusters. 16S rRNA gene sequence analysis indicated that five strains were most closely related to Prevotella veroralis, sharing about 92 % sequence similarity; the remaining strain was most closely related to Prevotella shahii, sharing about 90 % sequence similarity. All six strains were obligately anaerobic, non-pigmented, non-spore-forming, non-motile, Gram-negative rods. The cellular fatty acid compositions of the six strains differed significantly from those of other Prevotella species. Five strains (CB7T, CB18, CB23, CB26 and CB28) contained dimethyl acetals and the major menaquinones of these strains were MK-11, MK-12 and MK-13. The major menaquinones of CB35T were MK-12 and MK-13. Based on phenotypic and phylogenetic findings, two novel species, Prevotella copri sp. nov. and Prevotella stercorea sp. nov., are proposed, representing the two different strain clusters. The DNA G+C contents of strains CB7T and CB35T were 45.3 and 48.2 mol%, respectively. The type strains of P. copri and P. stercorea are CB7T (=JCM 13464T=DSM 18205T) and CB35T (=JCM 13469T=DSM 18206T), respectively.

scholarly journals Pseudoalteromonas marina sp. nov., a marine bacterium isolated from tidal flats of the Yellow Sea, and reclassification of Pseudoalteromonas sagamiensis as Algicola sagamiensis comb. nov.

2007 ◽  
Vol 57 (1) ◽  
pp. 12-18 ◽  
Author(s):  
Young-Do Nam ◽  
Ho-Won Chang ◽  
Ja Ryeong Park ◽  
Hyuk-Yong Kwon ◽  
Zhe-Xue Quan ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
Pseudoalteromonas Marina ◽  
Type Strains

Two Gram-negative, motile and strictly aerobic marine bacteria were isolated from a tidal flat sediment sample obtained from Dae-Chun, Chung-Nam, Korea. They were preliminarily identified as Pseudoalteromonas-like bacteria, based on 16S rRNA gene sequence analysis showing nearly identical sequences (>99.7 % sequence similarity) and the highest similarity (98.4 %) to the species Pseudoalteromonas undina. Some phenotypic features of the newly isolated strains were similar to those of members of the genus Pseudoalteromonas, but several physiological and chemo-taxonomical properties readily distinguished the new isolates from previously described species. DNA–DNA hybridization with type strains of phylogenetically closely related species demonstrated that the isolates represent a novel Pseudoalteromonas species, for which the name Pseudoalteromonas marina sp. nov. is proposed, with the type strain mano4T (=KCTC 12242T=DSM 17587T). In addition, on the basis of this study and polyphasic data obtained from previous work, it is proposed that the species Pseudoalteromonas sagamiensis should be reclassified as Algicola sagamiensis comb. nov. and that strain B-10-31T (=DSM 14643T=JCM 11461T) be designated the type strain.

scholarly journals Marinobacter nitratireducens sp. nov., a halophilic and lipolytic bacterium isolated from coastal surface sea water

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2056-2063 ◽  
Author(s):  
Bhumika Vaidya ◽  
Ravinder Kumar ◽  
Suresh Korpole ◽  
Naga Radha Srinivas Tanuku ◽  
Anil Kumar Pinnaka
Keyword(s):  
Type Strain ◽  
Sea Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Pairwise Sequence Similarity ◽  
The Mean ◽  
Type Strains

A novel Gram-stain-negative, rod-shaped, motile bacterium, designated strain AK21T, was isolated from coastal surface sea water at Visakhapatnam, India. The strain was positive for oxidase, catalase, lipase, l-proline arylamidase and tyrosine arylamidase activities. The predominant fatty acids were C12:0, C12:0 3-OH, C16:0, C16:1ω9c, C18:1ω9c and summed feature 3 (C16:1ω7c and/or iso-C15:0 2-OH). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, one unidentified aminophospholipid, two unidentified phospholipids and one unidentified lipid. Q-10 was the predominant respiratory quinone. The DNA G+C content of the strain was 54.6 mol%. 16S rRNA gene sequence analysis indicated that strain AK21T was a member of the genus Marinobacter and was closely related to Marinobacter xestospongiae, with pairwise sequence similarity of 97.2 % to the type strain, with similarity to other members of the genus of 94.0–96.8 %. The mean DNA–DNA relatedness of strain AK21T with M. xestospongiae JCM 17469T was 34.5 %, and relatedness with Marinobacter mobilis JCM 15154T was 40.5 %. Phylogenetic analysis showed that strain AK21T clustered with the type strains of M. xestospongiae and M. mobilis at distances of 2.9 and 2.8 % (97.1 and 97.2 % similarity), respectively. Based on the phenotypic characteristics and on phylogenetic inference, it appears that strain AK21T represents a novel species of the genus Marinobacter, for which the name Marinobacter nitratireducens sp. nov. is proposed. The type strain of Marinobacter nitratireducens is AK21T ( = MTCC 11704T = JCM 18428T).

scholarly journals Nocardioides daecheongensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4109-4114 ◽  
Author(s):  
Jun-Muk Lim ◽  
Soo-Jin Kim ◽  
Moriyuki Hamada ◽  
Jae-Hyung Ahn ◽  
Hang-Yeon Weon ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Type Strains

Strain KIS2-16T was isolated from a soil sample collected from Daecheong Island of Incheon region, South Korea. KIS2-16T was Gram-staining-positive, aerobic, non-spore-forming, non-motile, catalase-positive, oxidase-negative and mesophilic. On the basis of 16S rRNA gene sequence analysis, strain KIS2-16T represented a member of the genus Nocardioides , being most closely related to the type strains of species of the genus Nocardioides , Nocardioides maradonensis RP-B30T (97.8 % sequence similarity) and Nocardioides ultimimeridianus RP-B26T (97.0 %). The fatty acid profile of KIS2-16T was dominated by C18 : 1ω9c, C17 : 1ω8c, C16 : 0, C18 : 0 10-methyl (TBSA), C16 : 0 2-OH and C17 : 0 2-OH. The major isoprenoid quinone was MK-8(H4), and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The peptidoglycan structure was A3γ-type with ll-diaminopimelic acid. The genomic DNA G+C content of KIS2-16T was 64.9 mol%. Strain KIS2-16T showed DNA–DNA hybridization values of less than 70 % with the closely related species of the genus Nocardioides . Based on phenotypic, genotypic and phylogenetic data, the isolate represents a novel species of the genus Nocardioides , for which the name Nocardioides daecheongensis sp. nov. (type strain KIS2-16T = DSM 27136T = KACC 17297T = NBRC 109597T) is proposed.

scholarly journals Tenacibaculum dicentrarchi sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from European sea bass

2012 ◽  
Vol 62 (2) ◽  
pp. 425-429 ◽  
Author(s):  
Maximino Piñeiro-Vidal ◽  
Daniel Gijón ◽  
Carles Zarza ◽  
Ysabel Santos
Keyword(s):  
Fatty Acids ◽  
Dicentrarchus Labrax ◽  
Sea Bass ◽  
Rrna Gene ◽  
European Sea Bass ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Total Fatty Acids ◽  
Type Strains

A novel Gram-stain-negative rod-shaped gliding bacterial strain, designated 35/09T, was isolated from diseased European sea bass (Dicentrarchus labrax L.) in Spain. Colonies were pale-yellow-pigmented with uneven edges and did not adhere to the agar. The DNA G+C content of the isolate was 31.3 mol%. 16S rRNA gene sequence analysis indicated affiliation to the genus Tenacibaculum (family Flavobacteriaceae, phylum ‘Bacteroidetes’). Sequence similarities between the isolate and type strains of other members of the genus were 93.1–97.3 %. The major fatty acids (>5 % of the total fatty acids) were iso-C15 : 0 (24.8 %), iso-C15 : 0 3-OH (18.0 %), anteiso-C15 : 0 (8.1 %), C15 : 1ω6c (6.9 %) and iso-C15 : 1 (6.2 %). Genotypic and phenotypic data indicate that strain 35/09T should be classified as a representative of a novel species in the genus Tenacibaculum, for which the name Tenacibaculum dicentrarchi sp. nov. is proposed; the type strain is 35/09T ( = CECT 7612T = NCIMB 14598T).

scholarly journals Knoellia aerolata sp. nov., isolated from an air sample in Korea

2007 ◽  
Vol 57 (12) ◽  
pp. 2861-2864 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Peter Schumann ◽  
Reiner M. Kroppenstedt ◽  
Hyung-Jun Noh ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Mycolic Acids ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Air Sample ◽  
Bacterium Strain ◽  
Ph Range ◽  
Type Strains

An aerobic, Gram-positive, non-motile, non-spore-forming, rod–coccus-shaped bacterium, strain 5317S-21T, was isolated from an air sample from Suwon city, Republic of Korea. The isolate was able to grow within a pH range of 5.0–9.0 and a temperature range of 5–35 °C and it tolerated up to 2 % (w/v) NaCl. The cell-wall peptidoglycan contained meso-diaminopimelic acid as diagnostic diamino acid. The predominant isoprenoid quinone was MK-8(H4). The major polar lipids were phosphatidylinositol, phosphatidylethanolamine and diphosphatidylglycerol; phosphatidylglycerol and several unknown phospholipids were also detected. Mycolic acids were absent. The only whole-cell sugar was glucose. The major cellular fatty acids were iso-C16 : 0, C17 : 1 ω8c and iso-C15 : 0. 16S rRNA gene sequence analysis indicated that strain 5317S-21T was related phylogenetically to members of the genus Knoellia, with 97.4 % sequence similarity to the type strains of Knoellia sinensis and Knoellia subterranea. The G+C content of the genomic DNA of strain 5317S-21T was 73 mol%. Levels of DNA–DNA relatedness between strain 5317S-21T and the type strains of Knoellia sinensis and Knoellia subterranea were 37 and 41 %, respectively. It was concluded that strain 5317S-21T represents a novel species of the genus Knoellia, for which the name Knoellia aerolata sp. nov. is proposed. The type strain is 5317S-21T (=KACC 20583T =DSM 18566T).

scholarly journals Terrabacter aerolatus sp. nov., isolated from an air sample

2007 ◽  
Vol 57 (9) ◽  
pp. 2106-2109 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Peter Schumann ◽  
Reiner M. Kroppenstedt ◽  
Byung-Yong Kim ◽  
Jaekyeong Song ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Mycolic Acids ◽  
Sequencing Studies ◽  
Total Fatty Acids ◽  
Air Sample ◽  
Rrna Gene Sequencing

A Gram-positive, strictly aerobic, motile, rod- or coccoid-shaped bacterium, strain 5516J-36T, was isolated from an air sample from Jeju region, Korea, and its taxonomic position was investigated by a polyphasic approach. The organism grew optimally at 30 °C and pH 7.0–8.0. Comparative 16S rRNA gene sequencing studies demonstrated that this strain was highly related phylogenetically to Terrabacter terrae PPLBT and Terrabacter tumescens DSM 20308T, showing 98.9 % sequence similarity to both strains. However, the DNA–DNA reassociation values between 5516J-36T and the type strains of Terrabacter terrae and Terrabacter tumescens were low (51 and 48 %, respectively). The peptidoglycan type was A3γ, the predominant menaquinone was MK-8(H4), the polar lipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol and an unidentified phosphoglycolipid and the whole-cell sugars were glucose, ribose, rhamnose, xylose and galactose. Mycolic acids were absent. The major fatty acids (>5 % of total fatty acids) were iso-C15 : 0, iso-C16 : 0, iso-C14 : 0, iso-C17 : 0 and anteiso-C15 : 0. The DNA G+C content was 71.7 mol%. On the basis of the above data, it is proposed that strain 5516J-36T represents a novel species, Terrabacter aerolatus sp. nov. The type strain of Terrabacter aerolatus is 5516J-36T (=KACC 20556T =DSM 18562T).

scholarly journals Stenotrophomonas daejeonensis sp. nov., isolated from sewage

2011 ◽  
Vol 61 (3) ◽  
pp. 598-604 ◽  
Author(s):  
Myungjin Lee ◽  
Sung-Geun Woo ◽  
Myoungsoo Chae ◽  
Min-Cheol Shin ◽  
Hae-Min Jung ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Predominant Component ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Stenotrophomonas Nitritireducens ◽  
Type Strains

A Gram-stain-negative, motile, aerobic bacterial strain, designated MJ03T, was isolated from sewage and was characterized taxonomically by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain MJ03T belongs to the family Xanthomonadaceae, class Gammaproteobacteria, and was related most closely to Stenotrophomonas acidaminiphila AMX 19T (97.9 % sequence similarity), Stenotrophomonas humi R-32729T (97.1 %), Stenotrophomonas nitritireducens L2T (96.9 %), Stenotrophomonas maltophila ATCC 13637T (96.8 %) and Stenotrophomonas terrae R-32768T (96.7 %). The G+C content of the genomic DNA of strain MJ03T was 64.7 mol%. The detection of a quinone system with ubiquinone Q-8 as the predominant component and a fatty acid profile with iso-C15 : 0, iso-C11 : 0, iso-C14 : 0, iso-C17 : 1 ω9c, iso-C11 : 0 3-OH and iso-C13 : 0 3-OH as major components supported the affiliation of strain MJ03T to the genus Stenotrophomonas. However, levels of DNA–DNA relatedness between strain MJ03T and the type strains of five closely related species of the genus Stenotrophomonas ranged from 11 to 34 %, showing clearly that the isolate represents a novel genospecies. Strain MJ03T could be differentiated clearly from its phylogenetic neighbours on the basis of several phenotypic, genotypic and chemotaxonomic features. Therefore, strain MJ03T is considered to represent a novel species of the genus Stenotrophomonas, for which the name Stenotrophomonas daejeonensis sp. nov. is proposed. The type strain is MJ03T (=KCTC 22451T =JCM 16244T).

scholarly journals Acidovorax radicis sp. nov., a wheat-root-colonizing bacterium

2011 ◽  
Vol 61 (11) ◽  
pp. 2589-2594 ◽  
Author(s):  
Dan Li ◽  
Michael Rothballer ◽  
Michael Schmid ◽  
Jürgen Esperschütz ◽  
Anton Hartmann
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Wheat Root ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Wheat Roots ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
Type Strains ◽  
Straight Rod

Strain N35T was isolated from surface-sterilized wheat roots and is a Gram-negative, aerobic, motile straight rod. Strain N35T tested oxidase-positive and catalase-negative and grew optimally at pH 7.0, 30 °C and in the absence of NaCl. 16S rRNA gene sequence analysis showed over 97 % sequence similarity to strains of the environmental species Acidovorax delafieldii, A. facilis, A. defluvii, A. temperans, A. caeni and A. soli, as well as Acidovorax valerianellae, A. anthurii and Simplicispira metamorpha. DNA–DNA hybridization between strain N35T and phylogenetically closely related type strains was 25.3–55.7 %, which clearly separates the strain from these closely related species. Additionally, phenotypic properties, such as substrate metabolism profiles as determined by a Biolog GN2 assay and cell-wall fatty acid profiles, particularly contents of the fatty acids C16 : 0, C16 : 1ω7c/t, C17 : 0, C17 : 0 cyclo, C18 : 0 cyclo and C19 : 0 cyclo, facilitated the differentiation of the newly isolated strain N35T from its closest relatives. The isolate underwent phenotypic variation at high frequency in laboratory media. The DNA G+C content was 64.9 mol%. We propose that strain N35T is classified as a representative of a novel species within the genus Acidovorax, and suggest the name Acidovorax radicis sp. nov. The type strain is strain N35T ( = DSM 23535T  = LMG 25767T).

scholarly journals Methylovulum miyakonense gen. nov., sp. nov., a type I methanotroph isolated from forest soil

2011 ◽  
Vol 61 (4) ◽  
pp. 810-815 ◽  
Author(s):  
Hiroyuki Iguchi ◽  
Hiroya Yurimoto ◽  
Yasuyoshi Sakai
Keyword(s):  
Fatty Acids ◽  
Forest Soil ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Type I ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Distinct Lineage ◽  
Ribulose Monophosphate Pathway

A novel methanotroph, designated strain HT12T, was isolated from forest soil in Japan. Cells of strain HT12T were Gram-reaction-negative, aerobic, non-motile, coccoid and formed pale-brown colonies. The strain grew only with methane and methanol as sole carbon and energy sources. Cells grew at 5–34 °C (optimum 24–32 °C). The strain possessed both particulate and soluble methane monooxygenases and assimilated formaldehyde using the ribulose monophosphate pathway. The major cellular fatty acids were C16 : 0 (46.9 %) and C14 : 0 (34.2 %), whereas unsaturated C16 fatty acids, typical of type I methanotrophs, were absent. Comparative 16S rRNA gene sequence analysis showed that the most closely related strains were Methylosoma difficile LC 2T (93.1 % sequence similarity) and Methylobacter tundripaludum SV96T (92.6 % similarity). Phylogenetic analysis based on the pmoA gene indicated that strain HT12T formed a distinct lineage within the type I methanotrophs and analysis of the deduced pmoA amino acid sequence of strain HT12T showed that it had a 7 % divergence from that of its most closely related species. The DNA G+C content was 49.3 mol%. Based on this evidence, strain HT12T represents a novel species and genus of the family Methylococcaceae, for which the name Methylovulum miyakonense gen. nov., sp. nov. is proposed. The type strain of the type species is HT12T ( = NBRC 106162T  = DSM 23269T  = ATCC BAA-2070T).

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