scholarly journals Algoriphagus trabzonensis sp. nov., isolated from freshwater, and emended description of Algoriphagus alkaliphilus

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2234-2240 ◽  
Author(s):  
Kadriye Inan ◽  
Murat Kacagan ◽  
Aysegul Ozer ◽  
Ali Osman Belduz ◽  
Sabriye Canakci
Keyword(s):  
Gene Sequence ◽  
Lipid Analysis ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Gram Staining ◽  
A Value ◽  
Gene Sequence Analysis ◽  
Emended Description ◽  
Type Strains

A Gram-staining-negative, non-motile, catalase- and oxidase-positive strain, designated MS7T, was isolated from freshwater of a river near Trabzon, Turkey. Its taxonomy was investigated using a polyphasic approach. The strain grew optimally at 28 °C and pH 7.5 and in the presence of 2.0 % NaCl. 16S rRNA gene sequence analysis revealed that the strain belonged to the genus Algoriphagus; strain MS7T showed highest sequence similarity to the type strains of Algoriphagus alkaliphilus (97.3 %), Algoriphagus terrigena (96.8 %), Algoriphagus jejuensis (96.2 %), Algoriphagus boritolerans (96.1 %) and Algoriphagus aquatilis (95.8 %). The major fatty acids of strain MS7T were iso-C15 : 0 (30.14 %) and summed future 9 (10-methyl C16 : 0 and/or iso-C17 : 1 ω9c 18.75 %). Polar lipid analysis revealed phosphatidylethanolamine, a variety of unidentified lipids, an unidentified aminophospholipid, an unidentified phospholipid and an unidentified aminolipid. The major isoprenoid quinone was MK-7.The DNA G+C content of MS7T was 41.6 mol%, a value consistent with that of members of the genus Algoriphagus. The level of DNA–DNA relatedness between strain MS7T and A. alkaliphilus LMG 22694T was 41 %, which is clearly below the 70 % threshold accepted for species delineation. Thus, our results support the placement of strain MS7T within a separate and previously unrecognized species. On the basis of these data, the strain is considered to represent a novel species of the genus Algoriphagus, for which the name Algoriphagus trabzonensis sp. nov. is proposed. The type strain is MS7T ( = NCCB 100372T = LMG 26290T). An emended description of A. alkaliphilus is also provided.

scholarly journals Proposal of Lentzea deserti (Okoro et al. 2010) Nouioui et al. 2018 as a later heterotypic synonym of Lentzea atacamensis (Okoro et al. 2010) Nouioui et al. 2018 and an emended description of Lentzea atacamensis

PLoS ONE ◽  
2021 ◽  
Vol 16 (2) ◽  
pp. e0246533
Author(s):  
Mo Ping ◽  
Zhao Yun-Lin ◽  
Liu Jun ◽  
Gao Jian ◽  
Xu Zheng-Gang
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Bacterial Species ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
Emended Description ◽  
Relationship Of ◽  
Type Strains ◽  
The 16S Rrna Gene

The taxonomic relationship of Lentzea atacamensis and Lentzea deserti were re-evaluated using comparative genome analysis. The 16S rRNA gene sequence analysis indicated that the type strains of L. atacamensis and L. deserti shared 99.7% sequence similarity. The digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) values between the genomes of two type strains were 88.6% and 98.8%, respectively, greater than the two recognized thresholds values of 70% dDDH and 95–96% ANI for bacterial species delineation. These results suggested that L. atacamensis and L. deserti should share the same taxonomic position. And this conclusion was further supported by similar phenotypic and chemotaxonomic features between them. Therefore, we propose that L. deserti is a later heterotypic synonym of L. atacamensis.

Polaribacter gangjinensis sp. nov., isolated from seawater

2011 ◽  
Vol 61 (6) ◽  
pp. 1425-1429 ◽  
Author(s):  
Young Sun Lee ◽  
Dong-Heon Lee ◽  
Hyung-Yeel Kahng ◽  
San Ho Sohn ◽  
Jae Sung Jung
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Type Strains

A strictly aerobic, orange-pigmented and Gram-staining-negative bacterium, designated K17-16T, was isolated from seawater of Gangjin Bay, Korea. Comparative 16S rRNA gene sequence analysis revealed that strain K17-16T was a member of the genus Polaribacter in the family Flavobacteriaceae and showed 94.0–95.6 % sequence similarity with the type strains of recognized species of the genus Polaribacter. The G+C content of the genomic DNA was 34.6 mol% and the major respiratory lipoquinone was MK-6. The major polar lipids detected were phosphatidylethanolamine, three unidentified amino-group-containing lipids and an unidentified aminophospholipid. The predominant cellular fatty acids were iso-C15 : 0 (15.4 %), C15 : 0 (12.4 %), summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c; 10.6 %), C15 : 1ω6c (9.8 %) and iso-C15 : 0 3-OH (8.6 %). On the basis of phenotypic and genotypic data, strain K17-16T represents a novel species in the genus Polaribacter, for which the name Polaribacter gangjinensis sp. nov. is proposed. The type strain is K17-16T ( = KCTC 22729T = JCM 16152T).

scholarly journals Novosphingobium gossypii sp. nov., isolated from Gossypium hirsutum

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2831-2837 ◽  
Author(s):  
Peter Kämpfer ◽  
Karin Martin ◽  
John A. McInroy ◽  
Stefanie P. Glaeser
Keyword(s):  
Gossypium Hirsutum ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
High Sequence Similarity ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Type Strains ◽  
Sequence Similarities

A Gram-stain-negative, rod-shaped, non-spore-forming bacterium (strain JM-1396T) producing a yellow pigment, was isolated from the healthy internal stem tissue of post-harvest cotton (Gossypium hirsutum, cultivar ‘DES-119’) grown at the Plant Breeding Unit at the E. V. Smith Research Center in Tallassee (Macon county), AL, USA. 16S rRNA gene sequence analysis of strain JM-1396T showed high sequence similarity values to the type strains of Novosphingobium mathurense, Novosphingobium panipatense (both 98.6 %) and Novosphingobium barchaimii (98.5 %); sequence similarities to all other type strains of species of the genus Novosphingobium were below 98.3 %. DNA–DNA pairing experiments of the DNA of strain JM-1396T and N. mathurense SM117T, N. panipatense SM16T and N. barchaimii DSM 25411T showed low relatedness values of 8 % (reciprocal 7 %), 24 % (reciprocal 26 %) and 19 % (reciprocal 25 %), respectively. Ubiquinone Q-10 was detected as the dominant quinone; the fatty acids C18 : 1ω7c (71.0 %) and the typical 2-hydroxy fatty acid, C14 : 0 2-OH (11.7 %), were detected as typical components. The polar lipid profile contained the diagnostic lipids diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid and phosphatidylcholine. The polyamine pattern contained the major compound spermidine and only minor amounts of other polyamines. All these data revealed that strain JM-1396T represents a novel species of the genus Novosphingobium. For this reason we propose the name Novosphingobium gossypii sp. nov. with the type strain JM-1396T ( = LMG 28605T = CCM 8569T = CIP 110884T).

scholarly journals Description of Sulfitobacter donghicola sp. nov., isolated from seawater of the East Sea in Korea, transfer of Staleya guttiformis Labrenz et al. 2000 to the genus Sulfitobacter as Sulfitobacter guttiformis comb. nov. and emended description of the genus Sulfitobacter

2007 ◽  
Vol 57 (8) ◽  
pp. 1788-1792 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Mi-Hwa Lee ◽  
Tae-Kwang Oh
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
East Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Unidentified Phospholipid ◽  
Emended Description

A Gram-negative, non-motile and rod-, oval- or coccoid-shaped bacterial strain, DSW-25T, which is phylogenetically closely related to the genera Staleya and Sulfitobacter, was isolated from seawater of the East Sea, Korea, and subjected to a polyphasic taxonomic study. Strain DSW-25T grew optimally at pH 7.0–8.0 and at 25 °C. It contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. Major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The DNA G+C content was 56.9 mol%. Strain DSW-25T exhibited 16S rRNA gene sequence similarity values of 98.4 % to the type strain of Staleya guttiformis and of 96.6–97.6 % to Sulfitobacter species. There were no distinct phenotypic, particularly chemotaxonomic, properties to differentiate Staleya guttiformis and strain DSW-25T from the genus Sulfitobacter. DNA–DNA relatedness data and differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain DSW-25T differs from recognized Sulfitobacter species and Staleya guttiformis. On the basis of phenotypic, chemotaxonomic, phylogenetic and genetic data, strain DSW-25T was classified in the genus Sulfitobacter as a member of a novel species, for which the name Sulfitobacter donghicola sp. nov. is proposed. The type strain is strain DSW-25T (=KCTC 12864T =JCM 14565T). It is also proposed that Staleya guttiformis be transferred to the genus Sulfitobacter as Sulfitobacter guttiformis comb. nov.

scholarly journals Marinomonas ostreistagni sp. nov., isolated from a pearl-oyster culture pond in Sanya, Hainan Province, China

2006 ◽  
Vol 56 (10) ◽  
pp. 2271-2275 ◽  
Author(s):  
Ken W. K. Lau ◽  
Jianping Ren ◽  
Natalie L. M. Wai ◽  
Simon C. L. Lau ◽  
Pei-Yuan Qian ◽  
...  
Keyword(s):  
Marine Bacterium ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Pearl Oyster ◽  
Rrna Gene ◽  
Hainan Province ◽  
Oyster Culture ◽  
Gene Sequence Analysis ◽  
Type Strains

A Gram-negative, aerobic, halophilic, neutrophilic, rod-shaped, non-pigmented, polar-flagellated bacterium, UST010306-043T, was isolated from a pearl-oyster culture pond in Sanya, Hainan Province, China in January 2001. This marine bacterium had an optimum temperature for growth of between 33 and 37 °C. On the basis of 16S rRNA gene sequence analysis, the strain was closely related to Marinomonas aquimarina and Marinomonas communis, with 97.5–97.7 and 97.1 % sequence similarity, respectively. Levels of DNA–DNA relatedness to the type strains of these species were well below 70 %. Analyses of phylogenetic, phenotypic and chemotaxomonic characteristics showed that strain UST010306-043T was distinct from currently established Marinomonas species. A novel species with the name Marinomonas ostreistagni sp. nov. is proposed to accommodate this bacterium, with strain UST010306-043T (=JCM 13672T=NRRL B-41433T) as the type strain.

scholarly journals Paenibacillus chungangensis sp. nov., isolated from a tidal-flat sediment

2011 ◽  
Vol 61 (2) ◽  
pp. 281-285 ◽  
Author(s):  
Mi-Hak Park ◽  
Jitsopin Traiwan ◽  
Min Young Jung ◽  
Yun Sung Nam ◽  
Ji Hoon Jeong ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Tidal Flat Sediment ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Type Strains

A Gram-stain-positive, rod-shaped, endospore-forming bacterium, strain CAU 9038T, was isolated from a tidal-flat sediment of DaeYiJac Island, Republic of Korea, and its taxonomic position was investigated using a polyphasic approach. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol, the major isoprenoid quinone was MK-7 and the dominant cellular fatty acid was anteiso-C15 : 0. The DNA G+C content was 51.6 mol%. 16S rRNA gene sequence analysis showed that the strain belonged to the genus Paenibacillus, with <96.1 % sequence similarity to type strains of Paenibacillus species with validly published names. The most closely related type strains to CAU 9038T were Paenibacillus thailandensis S3-4AT (96.1 % similarity) and Paenibacillus agaridevorans DSM 1355T (95.3 %). The phenotypic, chemotaxonomic and genotypic data clearly indicated that strain CAU 9038T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus chungangensis sp. nov. is proposed. The type strain is CAU 9038T (=KCTC 13717T =CCUG 59129T).

scholarly journals Gordonia neofelifaecis sp. nov., a cholesterol side-chain-cleaving actinomycete isolated from the faeces of Neofelis nebulosa

2011 ◽  
Vol 61 (1) ◽  
pp. 165-169 ◽  
Author(s):  
Yuchang Liu ◽  
Fanglan Ge ◽  
Guiying Chen ◽  
Wei Li ◽  
Pingmei Ma ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Side Chain ◽  
Rrna Gene ◽  
The Novel ◽  
Nearest Neighbours ◽  
Gene Sequence Analysis ◽  
Neofelis Nebulosa ◽  
Taxonomic Approach ◽  
Type Strains

A cholesterol side-chain-cleaving bacterial strain, AD-6T, was isolated from fresh faeces of a clouded leopard (Neofelis nebulosa) and was studied using a polyphasic taxonomic approach. 16S rRNA gene sequence analysis showed that the novel strain formed a distinct subline within the genus Gordonia, its closest neighbours being the type strains of Gordonia cholesterolivorans, Gordonia sihwensis and Gordonia hydrophobica, with sequence similarity values of 98.2, 97.8 and 97.6 %, respectively. The gyrB gene sequence of strain AD-6T exhibited similarities of 77–91 % with those of the type strains of recognized species of the genus Gordonia, being most similar to the type strains of G. sihwensis, G. hydrophobica and Gordonia hirsuta (91, 87 and 84 % similarity, respectively). The results of whole-cell fatty acid analyses and DNA–DNA relatedness data readily distinguished the new isolate from its nearest neighbours. Strain AD-6T is therefore considered to represent a novel species of the genus Gordonia, for which the name Gordonia neofelifaecis sp. nov. is proposed. The type strain is AD-6T (=NRRL B-59395T=CCTCC AB-209144T).

scholarly journals Pseudomonas pohangensis sp. nov., isolated from seashore sand in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2153-2156 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Hee Yoo ◽  
Youn-Kyung Baek ◽  
Seon-Young Lee ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Novel Bacterium ◽  
Gene Sequence Analysis ◽  
Seashore Sand ◽  
Type Strains ◽  
Sequence Similarities

A novel bacterium, designated strain H3-R18T, was isolated from seashore sand collected from Homi cape, Pohang city, Korea. Cells were Gram-negative, aerobic, non-motile, cream-coloured, mesophilic and slightly halotolerant. 16S rRNA gene sequence analysis indicated that the organism was a member of the genus Pseudomonas, but the sequence showed ⩽96.3 % sequence similarity to that of the type strains of all recognized Pseudomonas species. Highest sequence similarities were to Pseudomonas brenneri CFML 97-391T (96.3 %) and Pseudomonas migulae CIP 105470T (96.3 %). The major fatty acids were summed feature 3 and C16 : 0, with lesser amounts of C12 : 0, C12 : 0 3-OH, C18 : 1ω7c and C14 : 0. The major isoprenoid quinone was Q-9. The DNA G+C content was 64.0 mol%. The phylogenetic, phenotypic and genetic properties of strain H3-R18T suggest that it represents a novel species, for which the name Pseudomonas pohangensis sp. nov. is proposed. The type strain is H3-R18T (=KACC 11517T=DSM 17875T).

scholarly journals Bacteroides sartorii is an earlier heterotypic synonym of Bacteroides chinchillae and has priority

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1241-1244 ◽  
Author(s):  
Mitsuo Sakamoto ◽  
Moriya Ohkuma
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Single Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Emended Description

Strains of the recently proposed species Bacteroides chinchillae share more than 99.4 % 16S rRNA gene sequence similarity with the type strain of Bacteroides sartorii although these two species do not appear to be similar from their published descriptions. The aim of this study was to perform phenotypic and genetic analyses of both species to clarify their taxonomic position. B. chinchillae JCM 16497T exhibited high hsp60 gene sequence similarity with B. sartorii JCM 17136T (100 %) as well as B. chinchillae JCM 16498 (100 %). The hsp60 gene sequence analysis and levels of DNA–DNA relatedness observed demonstrated B. sartorii JCM 17136T, B. chinchillae JCM 16497T, and B. chinchillae JCM 16498 are members of a single species. Based on these data, we propose Bacteroides chinchillae as a later heterotypic synonym of Bacteroides sartorii . An emended description of B. sartorii is provided.

scholarly journals Flavobacterium algicola sp. nov., isolated from marine algae

2010 ◽  
Vol 60 (2) ◽  
pp. 344-348 ◽  
Author(s):  
Mika Miyashita ◽  
Shuki Fujimura ◽  
Yasuyoshi Nakagawa ◽  
Makoto Nishizawa ◽  
Noboru Tomizuka ◽  
...  
Keyword(s):  
Marine Algae ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone ◽  
Type Strains ◽  
Sequence Similarities

A rod-shaped Gram-staining-negative, non-motile, aerobic and fucoidan-digesting strain, designated TC2T, was isolated from marine algae collected from the coast of the Sea of Okhotsk at Abashiri, Hokkaido, Japan. The bacterium formed yellow, translucent, circular and convex colonies. Comparative 16S rRNA gene sequence analysis indicated that the strain belonged to the genus Flavobacterium, with the highest sequence similarities of 97.1 to 97.3 % to the type strains of Flavobacterium frigidarium, Flavobacterium frigoris, Flavobacterium limicola and Flavobacterium psychrolimnae. DNA–DNA relatedness values between strain TC2T and the above-mentioned species were lower than 28 %. The genomic DNA G+C content was 33.9 mol%. The major respiratory quinone was menaquinone-6 and the predominant fatty acids were iso-C15 : 1 G, iso-C15 : 0, iso-C15 : 0 3-OH and summed feature 3 (which comprises iso-C15 : 0 2-OH and/or C16 : 1 ω7c). Strain TC2T could be differentiated from related species by several phenotypic characteristics. Thus, on the basis of these results, strain TC2T represents a novel species of the genus Flavobacterium, for which the name Flavobacterium algicola sp. nov. is proposed. The type strain is TC2T (=NBRC 102673T =CIP 109574T).

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