Oceanobacillus neutriphilus sp. nov., isolated from activated sludge in a bioreactor

2010 ◽  
Vol 60 (10) ◽  
pp. 2409-2414 ◽  
Author(s):  
Jun-Yi Yang ◽  
Ying-Yi Huo ◽  
Xue-Wei Xu ◽  
Fan-Xu Meng ◽  
Min Wu ◽  
...  
Keyword(s):  
Activated Sludge ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Tween 40 ◽  
Tween 60 ◽  
Taxonomic Characterization ◽  
Type Strains

A Gram-stain-positive, neutrophilic, rod-shaped bacterium, strain A1gT, was isolated from activated sludge of a bioreactor and was subjected to a polyphasic taxonomic characterization. The isolate grew in the presence of 0–17.0 % (w/v) NaCl and at pH 6.0–9.0; optimum growth was observed in the presence of 3.0–5.0 % (w/v) NaCl and at pH 7.0. Strain A1gT was motile, formed cream-coloured colonies, was catalase- and oxidase-positive and was able to hydrolyse aesculin, Tween 40 and Tween 60. Chemotaxonomic analysis revealed menaquinone-7 as the predominant respiratory quinone and anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and iso-C15 : 0 as major fatty acids. The genomic DNA G+C content of strain A1gT was 36.3 mol%. Comparative 16S rRNA gene sequence analysis revealed that the new isolate belonged to the genus Oceanobacillus and exhibited closest phylogenetic affinity to the type strains of Oceanobacillus oncorhynchi subsp. incaldanensis (97.9 % similarity) and O. oncorhynchi subsp. oncorhynchi (97.5 %), but less than 97 % sequence similarity with respect to the type strains of other recognized Oceanobacillus species. Levels of DNA–DNA relatedness between strain A1gT and reference strains O. oncorhynchi subsp. incaldanensis DSM 16557T, O. oncorhynchi subsp. oncorhynchi JCM 12661T and Oceanobacillus iheyensis DSM 14371T were 29, 45 and 38 %, respectively. On the basis of phenotypic and genotypic data, strain A1gT is considered to represent a novel species of the genus Oceanobacillus, for which the name Oceanobacillus neutriphilus sp. nov. is proposed. The type strain is A1gT (=CGMCC 1.7693T =JCM 15776T).

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 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 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).

Ruegeria marina sp. nov., isolated from Marine Sediment

2011 ◽  
Vol 61 (2) ◽  
pp. 347-350 ◽  
Author(s):  
Ying-Yi Huo ◽  
Xue-Wei Xu ◽  
Xue Li ◽  
Chen Liu ◽  
Heng-Lin Cui ◽  
...  
Keyword(s):  
Marine Sediment ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Dna Reassociation ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Ruegeria Pomeroyi ◽  
Ubiquinone 10

A Gram-negative, neutrophilic and rod-shaped bacterium, strain ZH17T, was isolated from a marine sediment of the East China Sea and subjected to a polyphasic taxonomic characterization. The isolate grew in the presence of 0–7.5 % (w/v) NaCl and at pH 6.5–9.0; optimum growth was observed with 0.5–3.0 % (w/v) NaCl and at pH 7.5. Chemotaxonomic analysis showed ubiquinone-10 as predominant respiratory quinone and C18 : 1 ω7c, 11-methyl C18 : 1 ω7c, C16 : 0, C12 : 0 3-OH and C16 : 0 2-OH as major fatty acids. The genomic DNA G+C content was 63.5 mol%. Comparative 16S rRNA gene sequence analysis revealed that the isolate belongs to the genus Ruegeria. Strain ZH17T exhibited the closest phylogenetic affinity to the type strain of Ruegeria pomeroyi, with 97.2 % sequence similarity, and less than 97 % sequence similarity with respect to other described species of the genus Ruegeria. The DNA–DNA reassociation value between strain ZH17T and R. pomeroyi DSM 15171T was 50.7 %. On the basis of phenotypic and genotypic data, strain ZH17T represents a novel species of the genus Ruegeria, for which the name Ruegeria marina sp. nov. (type strain ZH17T =CGMCC 1.9108T =JCM 16262T) is proposed.

scholarly journals Sphingobium faniae sp. nov., a pyrethroid-degrading bacterium isolated from activated sludge treating wastewater from pyrethroid manufacture

2010 ◽  
Vol 60 (2) ◽  
pp. 408-412 ◽  
Author(s):  
Peng Guo ◽  
Bao-Zhan Wang ◽  
Bao-Jian Hang ◽  
Lian Li ◽  
Shun-Peng Li ◽  
...  
Keyword(s):  
Fatty Acid ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Activated Sludge ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Degrading Bacterium ◽  
Type Strains ◽  
Genomic Relatedness

A bacterial strain capable of degrading pyrethroid, designated JZ-2T, was isolated from activated sludge treating pyrethroid-contaminated wastewater. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JZ-2T belongs to the genus Sphingobium. It showed the highest levels of 16S rRNA gene sequence similarity to Sphingobium cloacae JCM 10874T (98.3 %) and Sphingobium ummariense CCM 7431T (97.1 %), and 94.8–96.9 % similarity to the type strains of other members of the genus Sphingobium. Strain JZ-2T contained C18 : 1 ω7c as the predominant fatty acid, C14 : 0 2-OH as the major 2-hydroxy fatty acid, ubiquinone Q-10 as the main respiratory quinone, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylmonomethylethanolamine, phosphatidylethanolamine and two sphingoglycolipids as the predominant polar lipids and spermidine as the major polyamine. DNA–DNA hybridization results showed that strain JZ-2T had low genomic relatedness with S. cloacae JCM 10874T (34 %) and S. ummariense CCM 7431T (23 %). Based on the phenotypic, genotypic and phylogenetic data presented, strain JZ-2T is considered to represent a novel species of the genus Sphingobium, for which the name Sphingobium faniae sp. nov. is proposed. The type strain is JZ-2T (=CGMCC 1.7749T =DSM 21829T).

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 Agrococcus carbonis sp. nov., isolated from soil of a coal mine

2011 ◽  
Vol 61 (6) ◽  
pp. 1253-1258 ◽  
Author(s):  
Soniya Dhanjal ◽  
Ishwinder Kaur ◽  
Suresh Korpole ◽  
Peter Schumann ◽  
Swaranjit Singh Cameotra ◽  
...  
Keyword(s):  
Coal Mine ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Taxonomic Characterization ◽  
Type Strains

An actinobacterial strain, designated G4T, isolated from a coal mine was subjected to polyphasic taxonomic characterization. Cells were Gram-stain-positive, yellow-pigmented, non-motile and non-spore-forming cocci. This organism possessed a type B peptidoglycan with diaminobutyric acid as diagnostic diamino acid. The major respiratory quinones were MK-9, MK-10 and MK-11. The major fatty acids were anteiso-C15 : 0 (41.6  %) and anteiso-C17 : 0 (32.8 %). The predominant cellular polar lipids were diphosphatidylglycerol and phosphatidylglycerol. Cell wall sugars comprised galactose, glucose, ribose and rhamnose. 16S rRNA gene sequence analysis of strain G4T showed high similarity with Agrococcus baldri (98.9 %), Agrococcus citreus (97.8 %), Agrococcus jenensis (97.3 %) and Agrococcus terreus (97.0 %). Sequence similarity with the type strains of the other species of the genus Agrococcus was less than 97.0 %. The DNA–DNA relatedness of strain G4T with the type strains of Agrococcus baldri, Agrococcus citreus, Agrococcus jenensis and Agrococcus terreus was less than 70 %. On the basis of the physiological, biochemical and chemotaxonomic characteristics, strain G4T should be classified as the type strain of a novel species of the genus Agrococcus, for which the name Agrococcus carbonis sp. nov. is proposed. The type strain is G4T ( = MTCC 10213T  = DSM 22965T).

scholarly journals Paracoccus homiensis sp. nov., isolated from a sea-sand sample

2006 ◽  
Vol 56 (10) ◽  
pp. 2387-2390 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Seung-Hee Yoo ◽  
Soon-Wo Kwon ◽  
Yang-Hee Cho ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Sand Sample ◽  
Respiratory Quinone ◽  
Sea Sand ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone ◽  
Genotypic Characteristics ◽  
Ubiquinone 10 ◽  
Type Strains

Strain DD-R11T, isolated from a sea-sand sample from Homi Cape, Pohang city, South Korea, was a Gram-negative, aerobic, motile, non-spore-forming, rod- to ovoid-shaped bacterium. Colonies grown on marine agar were circular, convex and colourless to creamy white. Growth occurred between 10 and 40 °C (optimum 25–30 °C) and at pH 5.0–9.0 (optimum pH 6.0–8.0). The strain could grow in up to 15 % NaCl (optimum 3–5 % NaCl). According to 16S rRNA gene sequence analysis, the strain was a member of the genus Paracoccus in the Alphaproteobacteria. Sequence similarities to type strains of the genus Paracoccus were between 94.6 and 98.3 %, showing the highest sequence similarity to Paracoccus zeaxanthinifaciens ATCC 21588T. The DNA–DNA relatedness value of strain DD-R11T and P. zeaxanthinifaciens ATCC 21588T was 27 %. Strain DD-R11T was characterized by having ubiquinone 10 as the major respiratory quinone and C18 : 1 ω7c as the predominant fatty acid. The DNA G+C content was 63.0 mol%. On the basis of its phenotypic and genotypic characteristics, it is suggested that DD-R11T represents a novel species of the genus Paracoccus, for which the name Paracoccus homiensis sp. nov. is proposed, with DD-R11T (=KACC 11518T=DSM 17862T) as the type strain.

Polaribacter sejongensis sp. nov., isolated from Antarctic soil, and emended descriptions of the genus Polaribacter , Polaribacter butkevichii and Polaribacter irgensii

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 4000-4005 ◽  
Author(s):  
Byung-Chun Kim ◽  
Hyun Woo Oh ◽  
Hyangmi Kim ◽  
Doo-Sang Park ◽  
Soon Gyu Hong ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Antarctic Soil ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Type Strains

A Gram-staining-negative, catalase- and oxidase-positive, non-motile bacterium, designated strain KOPRI 21160T, was isolated from Antarctic soil. Based on 16S rRNA gene sequence analysis, strain KOPRI 21160T was found to belong to the genus Polaribacter . Sequence similarity between strain KOPRI 21160T and the type strains of species of the genus Polaribacter was 94.2–98.3 %. The nearest phylogenetic neighbours of strain KOPRI 21160T were Polaribacter butkevichii KCTC 12100T (98.3 % similarity) and Polaribacter irgensii KCTC 23136T (97.5 %). DNA–DNA relatedness was 50.6 %, between strain KOPRI 21160T and P. butkevichii KCTC 12100T, and 45.2 % between strain KOPRI 21160T and P. irgensii KCTC 23136T. Strain KOPRI 21160T grew at 4–37 °C and at pH 7.0–8.5. It could hydrolyse DNA, starch and Tweens 20, 40, 60 and 80. Menaquinone-6 (MK-6) was the only respiratory quinone, and iso-C15 : 0, iso-C15 : 0 3-OH and C15 : 1ω6c were the major cellular fatty acids. The major polar lipids were phosphatidylethanolamine, two unidentified aminolipids and one unidentified lipid. The DNA G+C content was 30.0 mol%. Based on data from our polyphasic study, the organism is considered to represent a novel species of the genus Polaribacter , for which we propose the name Polaribacter sejongensis sp. nov. The type strain is KOPRI 21160T ( = KCTC 23670T = JCM 18092T). Emended descriptions of the genus Polaribacter , Polaribacter butkevichii Nedashkovskaya et al. 2005 and Polaribacter irgensii Gosink et al. 1998 are also proposed.

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.

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