scholarly journals Dyadobacter subterraneus sp. nov., isolated from hydrocarbon-polluted groundwater from an oil refinery in Hungary

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
István Szabó ◽  
Jafar Al-Omari ◽  
Gábor Soma Szerdahelyi ◽  
Júlia Radó ◽  
Edit Kaszab ◽  
...  
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Oil Refinery ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-stain-negative, aerobic, non-spore-forming, rod-shaped bacterial strain (UP-52T) was isolated from hydrocarbon-polluted groundwater located near an oil refinery in Tiszaujvaros, Hungary. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belongs to the genus Dyadobacter in the family Cytophagaceae . Its closely related species are Dyadobacter frigoris (98.00 %), Dyadobacter koreensis (97.64 %), Dyadobacter psychrophilus (97.57 %), Dyadobacter ginsengisoli (97.56 %) and Dyadobacter psychrotolerans (97.20 %). The predominant fatty acids are summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω7c/C16 : 1  ω6c), C15 : 0 iso, C16 : 1  ω5c and C17 : 0 iso 3OH. The predominant respiratory quinone detected in strain UP-52T is quinone MK-7. The dominant polar lipids are glycolipid, phosphoaminolipid, phospholipid and aminolipid. The DNA G+C content is 40.0 mol%. Flexirubin-type pigment was present. Based on these phenotypic, chemotaxonomic and phylogenetic results, UP-52T represents a novel species of the genus Dyadobacter , for which the name Dyadobacter subterraneus sp. nov. is proposed. The type strain is UP-52T (=NCAIM B.02653T=CCM 9030T).

Sediminibacterium ginsengisoli sp. nov., isolated from soil of a ginseng field, and emended descriptions of the genus Sediminibacterium and of Sediminibacterium salmoneum

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 905-912 ◽  
Author(s):  
Yeon-Ju Kim ◽  
Ngoc-Lan Nguyen ◽  
Hang-Yeon Weon ◽  
Deok-Chun Yang
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Sequence Similarity ◽  
Polar Lipids ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-negative bacterium, designated DCY13T, was isolated from soil of a ginseng field in South Korea. Comparative analysis of 16S rRNA gene sequences showed that strain DCY13T shared the highest sequence similarity (95.0 %) with Sediminibacterium salmoneum NBRC 103935T and 87.6–91.4 % sequence similarity with other members of the family Chitinophagaceae . Cells were non-spore-forming rods, catalase- and oxidase-positive, motile by gliding and facultatively anaerobic. The only respiratory quinone was menaquinone 7 (MK-7) and the major fatty acids were iso-C17 : 0 3-OH, iso-C15 : 0 and iso-C15 : 1 G. The G+C content of the genomic DNA was 47.5±1.0 mol%. In addition to phosphatidylethanolamine, the major polar lipids were two unidentified aminophospholipids, one unidentified aminolipid and three unidentified polar lipids. The major cell-wall sugars were ribose, xylose and galactose. It is proposed that strain DCY13T represents a novel species in the genus Sediminibacterium , for which the name Sediminibacterium ginsengisoli sp. nov. is proposed. The type strain is DCY13T ( = KCTC 12833T  = JCM 15794T  = DSM 22335T). Emended descriptions of the genus Sediminibacterium and of Sediminibacterium salmoneum are also proposed.

Mucilaginibacter jinjuensis sp. nov., with xylan-degrading activity

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1267-1272 ◽  
Author(s):  
Haji Khan ◽  
Eu Jin Chung ◽  
Dong Young Kang ◽  
Che Ok Jeon ◽  
Young Ryun Chung
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
Rotten Wood ◽  
The Family ◽  
The 16S Rrna Gene

A Gram-negative, rod-shaped, pale-orange-pigmented bacterial strain with xylan-degrading activity designated YC7004T was isolated from a rotten-wood sample collected at Jinju, Korea, and its taxonomic position was investigated by using a polyphasic approach. The strain grew optimally on R2A medium at 30 °C and at pH 6. The major isoprenoid quinone was MK7 and major fatty acids were summed feature 3, iso-C15 : 0, C16 : 0, iso-C17 : 0 3-OH, iso-C17 : 1ω9c and C16 : 1ω5c. The G+C content of the genomic DNA was 40.0 mol%. Phylogenetic analysis based on the 16S rRNA gene sequences showed that the strain belongs to the genus Mucilaginibacter in the family Sphingobacteriaceae . The most closely related species were Mucilaginibacter daejeonensis (95.5 %), Mucilaginibacter frigoritolerans (94.6 %) and Mucilaginibacter mallensis (94.0 %). Based on the phylogenetic and chemotaxonomic data analyses, strain YC7004T represents a novel species of the genus Mucilaginibacter with the proposed name of Mucilaginibacter jinjuensis sp. nov. The type strain is YC7004T ( = KACC 16571T = NBRC 108856T).

Gemmobacter megaterium sp. nov., isolated from coastal planktonic seaweeds

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 66-71 ◽  
Author(s):  
Jin-Jin Liu ◽  
Xin-Qi Zhang ◽  
Fang-Tao Chi ◽  
Jie Pan ◽  
Cong Sun ◽  
...  
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Sea Salts ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, non-motile and aerobic bacterium, designated CF17T, was isolated from coastal planktonic seaweeds, East China Sea. The isolate grew at 18–37 °C (optimum 25–28 °C), pH 6.5–9.0 (optimum 7.0–8.0) and with 0–5 % NaCl (optimum 1–2 %, w/v) and 0.5–10 % sea salts (optimum 2–3 %, w/v). Growth of strain CF17T could be stimulated prominently by supplementing the growth medium with the autoclaved supernatant of a culture of strain CF5, which was isolated from the same sample along with strain CF17T. The cell morphology of strain CF17T was a bean-shaped rod consisting of a swollen end and a long prostheca. The phylogenetic analysis of 16S rRNA gene sequences indicated that strain CF17T clustered with Gemmobacter nectariphilus DSM 15620T within the genus Gemmobacter . The DNA G+C content of strain CF17T was 61.4 mol%. The respiratory quinone was ubiquinone Q-10. The major fatty acids included C18 : 1ω7c and C18 : 0. The polar lipids of strain CF17T consisted of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, two uncharacterized phospholipids, one uncharacterized aminolipid, three uncharacterized glycolipids and one uncharacterized lipid. On the basis of phenotypic, phylogenetic and chemotaxonomic data, strain CF17T ( = CGMCC 1.11024T = JCM 18498T) is considered to represent a novel species of the genus Gemmobacter , for which the name Gemmobacter megaterium sp. nov. is proposed.

Nafulsella turpanensis gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from soil

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1639-1645 ◽  
Author(s):  
Lei Zhang ◽  
Xihui Shen ◽  
Yingbao Liu ◽  
Shiqing Li
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family

A Gram-staining-negative, rod-shaped, gliding and pale-pink-pigmented bacterium, designated strain ZLM-10T, was isolated from a soil sample collected from an arid area in Xinjiang province, China, and characterized in a taxonomic study using a polyphasic approach. The novel strain grew optimally at 30–37 °C and in the presence of 2 % (w/v) sea salts. The only respiratory quinone detected was MK-7 and the major cellular fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid and two unidentified aminophospholipids. The DNA G+C content was 45.4 mol%. Flexirubin-type pigments were not produced. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ZLM-10T was a member of the phylum Bacteroidetes and appeared most closely related to Cesiribacter roseus 311T (90.2 % sequence similarity), Marivirga sericea LMG 13021T (89.2 %), Cesiribacter andamanensis AMV16T (89.1 %) and Marivirga tractuosa DSM 4126T (89.1 %). On the basis of phenotypic and genotypic data and phylogenetic inference, strain ZLM-10T should be classified as a novel species of a new genus in the family Flammeovirgaceae , for which the name Nafulsella turpanensis gen. nov., sp. nov. is proposed. The type strain of the type species is ZLM-10T ( = CCTCC AB 208222T = KCTC 23983T).

Chitinophaga oryziterrae sp. nov., isolated from the rhizosphere soil of rice (Oryza sativa L.)

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3030-3035 ◽  
Author(s):  
Eu Jin Chung ◽  
Tae Soon Park ◽  
Che Ok Jeon ◽  
Young Ryun Chung
Keyword(s):  
Type Species ◽  
Rhizosphere Soil ◽  
Oryza Sativa L ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel bacterial strain, YC7001T, was isolated from the rhizosphere soil of rice collected at Jinju, Korea, and was characterized using a polyphasic approach. Cells of strain YC7001T were Gram-negative-staining, yellow-pigmented, rod-shaped, aerobic, heterotrophic and non-motile. Strain YC7001T grew optimally at 25–30 °C, pH 5.0–8.0 and degraded gelatin, cellulose and chitin. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain YC7001T belonged to the genus Chitinophaga in the family Chitinophagaceae . The most closely related species were Chitinophaga sancti NBRC 15057T (96.9 %), Chitinophaga ginsengisoli Gsoil 052T (95.9 %), Chitinophaga pinensis DSM 2588T (95.7 %), Chitinophaga filiformis IFO 15056T (95.7 %) and Chitinophaga niabensis JS13-10T (95.0 %). The DNA–DNA relatedness value of strain YC7001T with C. sancti NBRC 15057T was 15.2±0.6 %. Strain YC7001T contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The major fatty acids of strain YC7001T were C15 : 0 iso, C16 : 1ω5c and C17 : 0 iso 3-OH. The polar lipids were phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total genomic DNA G+C content was 41.3 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic analyses, strain YC7001T represents a novel species of the genus Chitinophaga , in the family Chitinophagaceae , for which the name Chitinophaga oryziterrae sp. nov. is proposed. The type strain is YC7001T ( = KACC 14533T = JCM 16595T).

Amorphus suaedae sp. nov., isolated from the root of a tidal flat plant, Suaeda maritima

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3868-3872 ◽  
Author(s):  
Jung Moon Hwang ◽  
Eu Jin Chung ◽  
Jeong Ae Park ◽  
Jae Heon Jeong ◽  
Che Ok Jeon ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Major Respiratory Quinone ◽  
Ubiquinone 10

A novel bacterial strain, YC6899T, was isolated from the root of Suaedae maritima growing on a tidal flat of Namhae Island, Korea. Cells were Gram-reaction-negative, rod-shaped, non-motile, slightly halophilic and heterotrophic. Strain YC6899T grew optimally at a salinity of 2–4 %, at 25–37 °C and at pH 6.5–8.0. Phylogenetic analysis of 16S rRNA gene sequences demonstrated that strain YC6899T was closely related to Amorphus orientalis YIM D10T (96.1 % similarity) and Amorphus coralli RS.Sph.026T (95.9 %). The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, unknown aminolipids, an unknown aminophospholipid, an unknown aminoglycolipid, unknown glycolipids and unknown lipids. The major fatty acids of strain YC6899T were C19 : 0 cyclo ω8c and C18 : 1ω7c. The G+C content of the genomic DNA was 61.3 mol%. Strain YC6899T contained ubiquinone-10 (Q-10) as the major respiratory quinone system. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain YC6899T represents a novel species within the genus Amorphus , for which the name Amorphus suaedae sp. nov. is proposed. The type strain is YC6899T ( = KACC 14912T = NBRC 107845T).

Extensimonas vulgaris gen. nov., sp. nov., a member of the family Comamonadaceae

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2062-2068 ◽  
Author(s):  
Wei-Yan Zhang ◽  
Ming-Xu Fang ◽  
Wen-Wu Zhang ◽  
Chuan Xiao ◽  
Xin-Qi Zhang ◽  
...  
Keyword(s):  
Industrial Wastewater ◽  
New Genus ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Sequences Alignment

A novel strain, named S4T, was obtained from industrial wastewater in Xiaoshan, Zhejiang Province, China. Cells were Gram-negative, neutrophilic and non-spore-forming and moved by means of a polar flagellum. Normal cells were 0.8–0.9×1.3–1.9 µm and the cells elongated to 10–25 µm when cultivated at high temperatures. Strain S4T grew at 15–50 °C (optimum at 48 °C), pH 5.5–8.5 (optimum 7.0–7.5) and 0–2 % (optimum 0.5 %) (w/v) NaCl. Ubiquinone-8 was the predominant respiratory quinone. C16 : 0, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C17 : 0 cyclo were the major cellular fatty acids. The major 3-OH fatty acid was C10 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and an unknown aminoglycolipid. The genomic DNA G+C content was 68.8 mol%. Based on 16S rRNA gene sequences alignment, the most closely related strains were members of the genera Comamonas (94.6–95.6 % similarities), Giesbergeria (94.9–95.6 %), Acidovorax (94.8–95.4 %), Brachymonas (94.1–95.2 %) and Macromonas (95.1 %). Phylogenetic analysis showed the closest relatives of strain S4T were members of the genus Macromonas . Based on phenotypic and phylogenetic characteristics, we suggest that strain S4T represents a novel species of a new genus of the family Comamonadaceae , for which the name Extensimonas vulgaris gen. nov., sp. nov. is proposed. The type strain of Extensimonas vulgaris is S4T ( = CGMCC 1.10977T = JCM 17803T).

Aequorivita viscosa sp. nov., isolated from an intertidal zone, and emended descriptions of Aequorivita antarctica and Aequorivita capsosiphonis

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3192-3196 ◽  
Author(s):  
Jin-Jin Liu ◽  
Xin-Qi Zhang ◽  
Jie Pan ◽  
Cong Sun ◽  
Yong Zhang ◽  
...  
Keyword(s):  
Intertidal Zone ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Sea Area ◽  
Reference Strains

An aerobic, Gram-stain-negative, short rod-shaped, non-motile and non-sporulating bacterium, designed strain 8-1bT, was isolated from seaweed collected from the intertidal zone of Zhoushan sea area, East China Sea. Strain 8-1bT grew at 4–39 °C (optimum, 28–32 °C) and at pH 6.0–9.5 (optimum, 7.0–8.5), and with 0.5–8 % (w/v) NaCl (optimum, 1–3 %) and 0.5–10 % (w/v) sea salts (optimum, 2–3 %). Analysis of 16S rRNA gene sequences revealed that strain 8-1bT was related closely to Aequorivita capsosiphonis JCM 15070T (96.7 % similarity). The DNA G+C content of strain 8-1bT was 36.6 mol%. Compared with reference strains, cells of strain 8-1bT showed positive activities for H2S production and utilization of d-mannose, dl-lactic acid, l-asparagine and glycyl l-aspartic acid. The major fatty acids of strain 8-1bT were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C17 : 1ω9c. The main respiratory quinone was menaquinone 6. The polar lipids of strain 8-1bT consisted of phosphatidylethanolamine (PE), three uncharacterized aminolipids (AL1–3), four uncharacterized glycolipids (GL1–4) and five uncharacterized lipids (L1–5). Based on the phenotypic and genotypic characterization, strain 8-1bT represents a novel species of the genus Aequorivita , for which the name Aequorivita viscosa sp. nov. is proposed. The type strain is strain 8-1bT ( = CGMCC 1.11023T = JCM 18497T). Emended descriptions of Aequorivita antarctica and Aequorivita capsosiphonis are also presented.

scholarly journals Kineobactrum salinum sp. nov., isolated from marine sediment

2020 ◽  
Author(s):  
Minji Kim ◽  
In-Tae Cha ◽  
Ki-Eun Lee ◽  
Byoung-Hee Lee ◽  
Soo-Je Park
Keyword(s):  
Marine Sediment ◽  
Type Species ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Polyphasic Characterization

Strain M2T, isolated from marine sediment collected at Jeju Island, was an aerobic, Gram-stain-negative, oxidase- and catalase-positive, motile, rod-shaped bacterium that formed circular, raised, yellow colonies. Strain M2T grew at 15–42 °C, pH 5.5–9.0 and with 1–9 % (w/v) NaCl. Phylogenetic analysis based on its 16S rRNA gene sequences indicated that strain M2T was closely related to Kineobactrum sediminis F02T (98.0 % sequence similarity). Ubiquinone-8 was determined to be the sole respiratory quinone. Summed feature 3 (C16 : 1  ω6c/C16 : 1  ω7c) and summed feature 8 (C18 : 1  ω7c/C18 : 1  ω6c) were identified as the predominant fatty acids. The DNA G+C content and digital DNA–DNA relatedness between strain M2T and K. sediminis F02T were 60.7 mol% and 19.5 %, respectively. Phosphatidylglycerol and phosphatidylethanolamine were identified as the major polar lipids. Thus, polyphasic characterization revealed that strain M2T represents a novel species in the genus Kineobactrum , for which the name Kineobactrum salinum sp. nov. is proposed. The type strain is M2T (=KCTC 72815T=VTCC 910108T).

scholarly journals Parvularcula mediterranea sp. nov., isolated from marine plastic debris from Zakynthos Island, Greece

2020 ◽  
Author(s):  
Jafar Al-Omari ◽  
István Szabó ◽  
Gábor Soma Szerdahelyi ◽  
Júlia Radó ◽  
Edit Kaszab ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
The Public ◽  
Link Type ◽  
Dark Orange ◽  
The Family ◽  
Temperature Ranges

A Gram-negative, dark orange-pigmented, aerobic, non-spore-forming, coccoid-shaped bacterium designated as ZS-1/3T was isolated from a floating plastic litter (polypropylene straw) sample, collected from shallow seawater near the public beach of Laganas on Zakynthos island, Greece. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate is affiliated with the genus Parvularcula in the family Parvularculaceae . Its closest relatives are Parvularcula lutaonensis (98.09  %) and Parvularcula oceanus (95.89  %). The pH and temperature ranges for growth are pH 5–10 and 20–38 °C (optima, pH 7.0 and 28 °C). The predominant fatty acids are C18 : 1  ω7c (56.84  %), C16 : 0 (27.51  %), C18 : 0 (2.25  %) and C12 : 0 (1.42  %). The predominant respiratory quinone detected in strain ZS-1/3T is quinone-10 (Q10); the majority of detected polar lipids are glycolipid. The DNA G+C content is 62.5  mol%. Physiological and chemotaxonomic data further confirmed the distinctiveness of strain ZS-1/3T from other members of the genus Parvularcula . Thus, strain ZS-1/3T is considered to represent a novel species of the genus, for which the name Parvularcula mediterranea. sp. nov. is proposed. The type strain is ZS-1/3T (=NCAIM B 02654T=CCM 9032T).

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