Aquimarina longa sp. nov., isolated from seawater, and emended description of Aquimarina muelleri

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1235-1240 ◽  
Author(s):  
Tong Yu ◽  
Qi Yin ◽  
Xiangyu Song ◽  
Rui Zhao ◽  
Xiaochong Shi ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Emended Description

A novel Gram-stain-negative, rod-shaped, non-flagellated, strictly aerobic strain with gliding motility, designated SW024T, was isolated from surface seawater of the South Pacific Gyre (26° 29′ S 137° 56′ W) during the Integrated Ocean Drilling Program Expedition 329. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel strain was related most closely to Aquimarina muelleri KMM 6020T, Aquimarina macrocephali JAMB N27T, Aquimarina addita JC2680T, Aquimarina mytili PSC33T, Aquimarina intermedia KMM 6258T, Aquimarina latercula ATCC 23177T, Aquimarina spongiae A6T, Aquimarina agarilytica ZC1T and Aquimarina brevivitae SMK-19T (96.1, 95.5, 95.0, 94.4, 94.3, 94.0, 93.4, 93.3 and 93.2 % similarities, respectively), demonstrating that the novel strain belonged to the genus Aquimarina . The DNA G+C content of strain SW024T was 30.8 mol%. The major respiratory quinone of strain SW024T was MK-6. The dominant fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G, C16 : 0 10-methyl and/or iso-C17 : 1ω9c, and iso-C15 : 0 3-OH. The polar lipids of strain SW024T were phosphatidylethanolamine, three unknown aminolipids and five unknown polar lipids. On the basis of combined phenotypic and phylogenetic analyses, strain SW024T represents a novel species of the genus Aquimarina , for which the name Aquimarina longa sp. nov. is proposed. The type strain is SW024T ( = CGMCC 1.11007T = JCM 17859T). An emended description of A. muelleri is also proposed.

Aquimarina megaterium sp. nov., isolated from seawater

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 122-127 ◽  
Author(s):  
Tong Yu ◽  
Zenghu Zhang ◽  
Xiaoyang Fan ◽  
Xiaochong Shi ◽  
Xiao-Hua Zhang
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Integrated Ocean Drilling Program

A novel Gram-stain-negative, rod-shaped, non-flagellated, strictly aerobic strain with gliding motility, designated XH134T, was isolated from surface seawater of the South Pacific Gyre (45° 58′ S 163° 11′ W) during the Integrated Ocean Drilling Program Expedition 329. The major respiratory quinone of strain XH134T was MK-6. The dominant fatty acids of strain XH134T were iso-C15 : 0, iso-C15 : 1 G, C16 : 1ω6c and/or C16 : 1ω7c, iso-C17 : 0 3-OH, iso-C15 : 0 3-OH and 10-methyl C16 : 0 and/or iso-C17 : 1ω9c. The polar lipids of strain XH134T comprised phosphatidylethanolamine, one unknown aminolipid and three unknown polar lipids. The DNA G+C content of strain XH134T was 32.4 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel strain was related most closely to Aquimarina macrocephali JAMB N27T with 96.9 % sequence similarity. A number of phenotypic characteristics distinguished strain XH134T from described members of the genus Aquimarina . On the basis of combined phenotypic and phylogenetic analyses, strain XH134T represents a novel species of the genus Aquimarina , for which the name Aquimarina megaterium sp. nov. is proposed. The type strain is XH134T ( = CGMCC 1.12186T = JCM 18215T).

Aquimarina gracilis sp. nov., isolated from the gut microflora of a mussel, Mytilus coruscus, and emended description of Aquimarina spongiae

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1782-1787 ◽  
Author(s):  
Seong Chan Park ◽  
Han Na Choe ◽  
Keun Sik Baik ◽  
Chi Nam Seong
Keyword(s):  
Type Species ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Gut Microflora ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Emended Description ◽  
South Sea ◽  
Gwangyang Bay

An orange-coloured and slender rod-shaped bacterium, designated strain PSC32T, was isolated from the gut microflora of a mussel collected from Gwangyang Bay, South Sea (Republic of Korea). Cells were Gram-reaction-negative, strictly aerobic, and catalase- and oxidase-positive. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0 3-OH. The only isoprenoid quinone of strain PSC32T was MK-6 and the DNA G+C content was 36.9 mol%. Phosphatidylethanolamine, one unidentified aminolipid and two unidentified polar lipids were found as major polar lipids. A phylogenetic tree based on 16S rRNA gene sequences showed that strain PSC32T forms an evolutionary lineage within the genus Aquimarina and is closely related to Aquimarina spongiae A6T (97.0 % similarity) and to other members of the genus Aquimarina (94.4–96.5 %). Genomic DNA–DNA relatedness between strain PSC32T and A. spongiae A6T was 40.7 %. A number of phenotypic characteristics distinguished strain PSC32T from described members of the genus Aquimarina . On the basis of the evidence presented in this study, strain PSC32T represents a novel species, for which the name Aquimarina gracilis sp. nov. is proposed. The type strain is PSC32T ( = KCTC 23301T = JCM 17453T). An emended description of Aquimarina spongiae is given.

Flavobacterium ummariense sp. nov., isolated from hexachlorocyclohexane-contaminated soil, and emended description of Flavobacterium ceti Vela et al. 2007

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2674-2679 ◽  
Author(s):  
Pushp Lata ◽  
Devi Lal ◽  
Rup Lal
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Contaminated Soil ◽  
Type Species ◽  
Gliding Motility ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Emended Description

A Gram-negative, strictly aerobic, yellow bacterial strain, designated DS-12T, was isolated from hexachlorocyclohexane-contaminated soil in Lucknow, Uttar Pradesh, India. Strain DS-12T showed the highest 16S rRNA gene sequence similarity with Flavobacterium ceti 454-2T (94.2 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DS-12T belonged to the genus Flavobacterium . Strain DS-12T produced flexirubin-type pigments. Gliding motility was not observed. The major fatty acids of strain DS-12T were iso-C15 : 0 (48.0 %), summed feature 9 (comprising iso-C17 : 1ω9c and/or C16 : 0 10-methyl; 19.3 %), iso-C17 : 0 3-OH (8.5 %) and summed feature 3 (comprising one or more of C16 : 1ω7c, C16 : 1ω6c and iso-C15 : 0 2-OH; 7.2 %). The only respiratory quinone was menaquinone-6 and the major polyamine was homospermidine. Strain DS-12T contained phosphatidyldimethylethanolamine, phosphatidylserine, phosphatidylethanolamine, one unknown phospholipid and one unknown aminolipid. The DNA G+C content was 37.4 mol%. Phylogenetic inference and phenotypic properties indicated that strain DS-12T represents a novel species of the genus Flavobacterium , for which the name Flavobacterium ummariense sp. nov. is proposed. The type strain is DS-12T ( = CCM 7847T  = MTCC 10766T). An emended description of Flavobacterium ceti is also given.

Chryseobacterium ginsengisoli sp. nov., isolated from the rhizosphere of ginseng and emended description of Chryseobacterium gleum

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2975-2980 ◽  
Author(s):  
Ngoc-Lan Nguyen ◽  
Yeon-Ju Kim ◽  
Van An Hoang ◽  
Deok-Chun Yang
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Emended Description ◽  
Chryseobacterium Gleum

Strain DCY 63T, isolated from the rhizosphere of ginseng, was a Gram-reaction-negative, strictly aerobic, non-motile, catalase- and oxidase-positive rod. 16S rRNA gene sequence analysis revealed that strain DCY 63T belonged to the genus Chryseobacterium and was closely related to Chryseobacterium indoltheticum LMG 4025T (98.1 %), Chryseobacterium ginsenosidimutans THG 15T (98.0 %) and Chryseobacterium scophthalmum LMG 13028T (97.1 %). The major polar lipids of strain DCY 63T were phosphatidylethanolamine (PE), four unidentified aminolipids and three unidentified polar lipids, and the major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl). The predominant isoprenoid quinone of strain DCY 63T was MK-6 and the G+C content of the genomic DNA was 31.6 mol%. The DNA–DNA relatedness values between strain DCY 63T and C. indoltheticum LMG 4025T, C. ginsenosidimutans THG 15T and C. scophthalmum LMG 13028T were less than 30 %. On the basis of these data, strain DCY 63T is considered to represent a novel species of the genus Chryseobacterium , for which the name Chryseobacterium ginsengisoli sp. nov. is proposed. The type strain is DCY 63T ( = KCTC 23760T = JCM 18019T). An emended description of Chryseobacterium gleum is also proposed.

scholarly journals Cribrihabitans neustonicus sp. nov., isolated from coastal surface seawater, and emended description of the genus Cribrihabitans Chen et al. 2014

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3897-3903 ◽  
Author(s):  
Asif Hameed ◽  
Mariyam Shahina ◽  
Shih-Yao Lin ◽  
Wei-An Lai ◽  
You-Cheng Liu ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Surface Seawater ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Unidentified Lipid ◽  
Link Type ◽  
Emended Description

A Gram-stain-negative, strictly aerobic, rod- or oval-shaped, motile, non-spore-forming bacterium, designated strain CC-AMHB-3T, was isolated from coastal surface seawater off Hualien, Taiwan. The novel strain showed high pairwise 16S rRNA gene sequence similarities to Ruegeria mobilis NBRC 101030T (96.5 %), Ruegeria scottomollicae LMG 24367T (96.4 %), Phaeobacter aquaemixtae SSK6-1T (96.2 %), Phaeobacter daeponensis TF-218T (96.2 %), Cribrihabitans marinus CZ-AM5T (96.1 %) and other species of the family Rhodobacteraceae (≤95.9 %). However, strain CC-AMHB-3T formed a distinct phyletic lineage associated with C. marinus CZ-AM5T during phylogenetic analyses. The polar lipid profile of strain CC-AMHB-3T included major amounts of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylcholine; moderate amounts of phosphatidylethanolamine, an unidentified aminolipid, an unidentified phospholipid and an unidentified lipid; and trace amounts of an unidentified lipid and an unidentified phospholipid, which was qualitatively almost in line with that of C. marinus CZ-AM5T but remarkably distinct as compared with the type species of the genera Ruegeria ( Ruegeria atlantica JCM 21234T) and Phaeobacter ( Phaeobacter gallaeciensis JCM 21319T). In line with the fatty acid profile of C. marinus CZ-AM5T, the major (>5 % of total) fatty acids of strain CC-AMHB-3T were C18 : 1ω7c and/or C18 : 1ω6c (summed feature 8), 11-methyl C18 : 1ω7c and C16 : 0. The DNA G+C content was 66.7 mol%. Ubiquinone-10 (Q-10) was the sole respiratory quinone. Thus, based on the results of the polyphasic study presented here, strain CC-AMHB-3T is considered to represent a novel species of the genus Cribrihabitans , for which the name Cribrihabitans neustonicus sp. nov. is proposed; the type strain is CC-AMHB-3T ( = JCM 19537T = BCRC 80695T). In addition, an emended description of the genus Cribrihabitans is also proposed.

scholarly journals Deinococcus citri sp. nov., isolated from citrus leaf canker lesions

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4134-4140 ◽  
Author(s):  
Iftikhar Ahmed ◽  
Saira Abbas ◽  
Takuji Kudo ◽  
Muhammad Iqbal ◽  
Toru Fujiwara ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Citrus Leaf ◽  
Link Type ◽  
Physiological And Biochemical Characteristics ◽  
Gene Sequence Analysis

A Gram-stain-positive, strictly aerobic, non-motile, coccoid bacterium, designated NCCP-154T, was isolated from citrus leaf canker lesions and was subjected to a polyphasic taxonomic study. Strain NCCP-154T grew at 10–37 °C (optimum 30 °C) and at pH 7.0–8.0 (optimum pH 7.0). The novel strain exhibited tolerance of UV irradiation (>1000 J m−2). Based on 16S rRNA gene sequence analysis, strain NCCP-154T showed the highest similarity to Deinococcus gobiensis CGMCC 1.7299T (98.8 %), and less than 94 % similarity to other closely related taxa. The chemotaxonomic data [major menaquinone, MK-8; cell-wall peptidoglycan type, A3β (Orn–Gly2); major fatty acids, summed feature 3 (C16 : 1ω7c/iso-C15 : 0 2-OH; 35.3 %) followed by C16 : 0 (12.7 %), iso-C17 : 1ω9c (9.2 %), C17 : 1ω8c (7.4 %) and iso-C17 : 0 (6.9 %); major polar lipids made up of several unidentified phosphoglycolipids and glycolipids and an aminophospholipid, and mannose as the predominant whole-cell sugar] also supported the affiliation of strain NCCP-154T to the genus Deinococcus . The level of DNA–DNA relatedness between strain NCCP-154T and D. gobiensis JCM 16679T was 63.3±3.7 %. The DNA G+C content of strain NCCP-154T was 70.0 mol%. Based on the phylogenetic analyses, DNA–DNA hybridization and physiological and biochemical characteristics, strain NCCP-154T can be differentiated from species with validly published names. Therefore, it represents a novel species of the genus Deinococcus . The name Deinococcus citri sp. nov. is proposed, with the type strain NCCP-154T ( = JCM 19024T = DSM 24791T = KCTC 13793T).

Deinococcus humi sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2844-2850 ◽  
Author(s):  
Sathiyaraj Srinivasan ◽  
Jae-Jin Lee ◽  
Sangyong Lim ◽  
Minho Joe ◽  
Myung Kyum Kim
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Gram Staining

A Gram-staining-positive, strictly aerobic, spherical, non-motile, red-pigmented bacterium, designated strain MK03T, was isolated from a soil sample collected in South Korea. The taxonomic position of the novel strain was investigated using a polyphasic approach. In phylogenetic analyses based on 16S rRNA gene sequences, strain MK03T was placed in a clade formed by members of the genus Deinococcus in the family Deinococcaceae and appeared to be most closely related to Deinococcus aerolatus 5516T-9T (97.4 % sequence similarity), Deinococcus marmoris AA-63T (97.2 %), Deinococcus radiopugnans ATCC 19172T (97.2 %) and Deinococcus saxicola AA-1444T (96.9 %). The genomic DNA G+C content of the novel strain was 64.5 mol%. The chemotaxonomic characteristics of strain MK03T were typical of members of the genus Deinococcus : MK-8 was identified as the predominant respiratory quinine, the major fatty acids were C16 : 1ω7c, C15 : 1ω6c, C16 : 0 and C15 : 0, ornithine was found to be the diamino acid in the cell-wall peptidoglycan and the novel strain showed resistance to gamma radiation, with a D10 value (i.e. the dose required to reduce the bacterial population by 10-fold) in excess of 9 kGy. In hybridization experiments, only low DNA–DNA relatedness values (11.6–34.5 %) were recorded between the novel strain and its closest relatives in the genus Deinococcus . Based on the phylogenetic, chemotaxonomic, phenotypic and DNA–DNA relatedness data, strain MK03T represents a novel species of the genus Deinococcus , for which the name Deinococcus humi sp. nov. is proposed. The type strain is MK03T ( = KCTC 13619T  = JCM 17915T).

scholarly journals Aquimarina pacifica sp. nov., isolated from seawater

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1991-1997 ◽  
Author(s):  
Zenghu Zhang ◽  
Tong Yu ◽  
Tingting Xu ◽  
Xiao-Hua Zhang
Keyword(s):  
Type Species ◽  
Optimal Growth ◽  
Gliding Motility ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, rod-shaped, non-flagellated, strictly aerobic bacterium with gliding motility, designated strain SW150T, was isolated from surface seawater of the South Pacific Gyre (39° 19′ S 139° 48′ W) during the Integrated Ocean Drilling Program Expedition 329. Optimal growth occurred in the presence of 2–4 % (w/v) NaCl, at pH 7–8 and at 28–30 °C. The dominant fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G, C16 : 1ω6c and/or C16 : 1ω7c and 10-methyl C16 : 0 and/or iso-C17 : 1ω9c. The polar lipids of strain SW150T comprised phosphatidylethanolamine, three unknown polar lipids and one unknown aminolipid. The major respiratory quinone was MK-6. The DNA G+C content of strain SW150T was 33.8 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that the novel strain was related most closely to Aquimarina macrocephali JAMB N27T and Aquimarina muelleri KMM 6020T with 97.8 and 96.8 % sequence similarities, respectively. The estimated DNA–DNA hybridization values were 21.00±2.33 % between strain SW150T and A. macrocephali JAMB N27T and 20.60±2.32 % between strain SW150T and Aquimarina megaterium XH134T. On the basis of polyphasic analyses, strain SW150T represents a novel species of the genus Aquimarina , for which the name Aquimarina pacifica sp. nov. is proposed. The type strain is SW150T ( = JCM 18214T = CGMCC 1.12180T).

Erythrobacter jejuensis sp. nov., isolated from seawater

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1421-1426 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Dong-Heon Lee ◽  
Duck-Chul Oh
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A Gram-staining-negative, yellow-pigmented, non-motile, strictly aerobic, rod-shaped bacterium, designated strain CNU001T, was isolated from seawater collected on the coast of Jeju Island, South Korea, and subjected to a polyphasic taxonomic study. The temperature, pH and NaCl ranges for growth were 10–30 °C, pH 6.0–10.0 and 2.0–5.0 %, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain CNU001T belonged to the genus Erythrobacter in the family Erythrobacteraceae , with Erythrobacter longus DSM 6997T (96.6 % sequence similarity), Erythrobacter gaetbuli SW-161T (96.3 %), Erythrobacter vulgaris 022 2-10T (96.2 %), Erythrobacter nanhaisediminis T30T (96.1 %) and other members of the genus Erythrobacter (<96.0 %) identified as the novel strain’s closest relatives. The major cellular fatty acids were C18 : 1ω7c and C17 : 1ω6c. The polar lipids were found to be diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol, one sphingoglycolipid, one unidentified aminolipid and six other unidentified lipids. The major respiratory quinone was ubiquinone-10 (UQ-10) and the genomic DNA G+C content of the novel strain was 58.9 mol%. On the basis of phenotypic, phylogenetic and genotypic data, strain CNU001T represents a novel species within the genus Erythrobacter , for which the name Erythrobacter jejuensis sp. nov. is proposed. The type strain is CNU001T ( = KCTC 23090T  = JCM 16677T).

scholarly journals Noviherbaspirillum aerium sp. nov., isolated from air

2020 ◽  
Vol 70 (12) ◽  
pp. 6390-6395 ◽  
Author(s):  
Han Xue ◽  
Chun-gen Piao ◽  
Ying-hua Lin ◽  
Dan-ran Bian ◽  
Yong Li
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Pr China

A Gram-stain-negative, strictly aerobic, non-spore-forming, rod-shaped, motile with polar flagella and pale-orange bacterium, designated strain 122213-3T, was isolated from air, collected at the foot of the Xiangshan Mountain, located in Beijing, PR China. Optimal growth occurred at 28 °C, at pH 7 and in the presence of 0–1 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences revealed that 122213-3T clustered with species of the genus Noviherbaspirillum and formed a distinct sublineage, showing highest similarities to Noviherbaspirillum malthae CC-AFH3T (96.88 %), Noviherbaspirillum massiliense JC206T (95.78 %) and Noviherbaspirillum aurantiacum SUEMI08T (95.78 %). The predominant cellular fatty acids were summed feature 3 (C16 : 1  ω6c and/or C16 : 1  ω7c), summed feature 8 (C18 : 1  ω7c and/or C18 : 1  ω6c) and C16 : 0. The predominant quinone was ubiquinone 8 (Q-8). The polar lipids comprised phosphatidylethanolamine, phosphatidylglycerol, unidentified phospholipid and two unidentified polar lipids. The polyamine pattern showed the presence of putrescine as the major polyamine, with minor amounts of 2-hydroxyputrescine. The DNA G+C content was 60.1 mol%. The phylogenetic analysis and physiological and biochemical data showed that strain 122213-3T should be classified as representing a novel species in the genus Noviherbaspirillum , for which the name Noviherbaspirillum aerium sp. nov. is proposed. The type strain of N. aerium is 122213-3T (=CFCC 14286T=LMG 30131T).

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