scholarly journals Garicola koreensis gen. nov., sp. nov., isolated from saeu-jeot, traditional Korean fermented shrimp

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 1015-1021 ◽  
Author(s):  
Naysim Lo ◽  
Se Hee Lee ◽  
Hyun Mi Jin ◽  
Ji Young Jung ◽  
Peter Schumann ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Molecular Features ◽  
Gram Staining ◽  
The Family

A novel Gram-staining-positive, non-endospore-forming, aerobic bacterium, designated strain SJ5-4T, was isolated from seau-jeot, a traditional food that is made by fermentation of highly salted [approximately 25 % (w/v)] shrimp in Korea. Cells were moderately halophilic, non-motile cocci or short rods that showed catalase- and oxidase-positive reactions. Growth of strain SJ5-4T was observed at 15–40 °C (optimum, 30 °C), at pH 6.0–9.5 (optimum, pH 6.5–7.0) and in the presence of 1–17 % (w/v) NaCl (optimum, 6 %). The major cellular fatty acids of strain SJ5-4T were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and C16 : 0. Phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol, an unidentified phospholipid, three glycolipids and an unidentified lipid were detected as the polar lipids. Strain SJ5-4T belonged to the exceptionally small group of strains within the order Micrococcales that show a peptidoglycan cross-linked according to the A-type but containing 2,4-diaminobutyric acid. The G+C content of the genomic DNA was 61.8 mol%. MK-7, MK-8 and MK-9 were detected as the isoprenoid quinones. Strain SJ5-4T was most closely related to members of the genus Nesterenkonia, with 16S rRNA gene sequence similarities of 93.1–94.8 %. However, phylogenetic inference based on 16S rRNA gene sequences showed that strain SJ5-4T formed a phyletic lineage distinct from members of the genus Nesterenkonia within the family Micrococcaceae . On the basis of its phenotypic and molecular features, strain SJ5-4T represents a novel genus and species of the family Micrococcaceae , for which the name Garicola koreensis gen. nov., sp. nov. is proposed. The type strain of Garicola koreensis is SJ5-4T ( = KACC 16909T = JCM 18572T = DSM 28238T).

Glacieibacterium frigidum gen. nov., sp. nov., a novel member of the family Sphingosinicellaceae isolated from a glacier

2021 ◽  
Vol 71 (7) ◽  
Author(s):  
Qing Liu ◽  
Lei-Lei Yang ◽  
Hong-Can Liu ◽  
Guo-Qing Zhang ◽  
Yu-Hua Xin
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Polar Lipids ◽  
Rrna Gene ◽  
The Tibetan Plateau ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel Gram-stain-negative, rod-shaped, yellow bacterium, designated as LB1R16T, was isolated from the Laigu glacier on the Tibetan Plateau, PR China. Strain LB1R16T was catalase-positive, oxidase-negative and grew at 0–28 °C, pH 6.0–8.0 and in the absence of NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain LB1R16T belongs to the family Sphingosinicellaceae but formed an independent lineage. The highest level of 16S rRNA gene sequence similarities were found to Polymorphobacter arshaanensis DJ1R-1T (95.24 %), Sphingoaurantiacus capsulatus YLT33T (94.78 %) and Sandarakinorhabdus limnophila DSM 17366T (94.67 %). The genomic DNA G+C content was 68.8 mol%. The main cellular fatty acids were summed feature 8 (C18 : 1  ω7c/C18 : 1  ω6c), summed feature 3 (C16 : 1  ω7c/C16 : 1  ω6c), C16 : 0 and C12 : 0-OH. The respiratory quinone was ubiquinone-10. The polar lipids were phosphatidylethanolamine, phosphatidylglycerol, one sphingoglycolipid, one unidentified aminolipid, one unidentified phospholipid and two unidentified polar lipids, which were different from the type strains of Polymorphobacter arshaanensis , Sphingoaurantiacus capsulatus and Sandarakinorhabdus limnophila . Based on a polyphasic approach, a novel species of a new genus, Glacieibacterium frigidum gen. nov., sp. nov., within the family Sphingosinicellaceae is proposed. The type strain is LB1R16T (=CGMCC 1.11941T=NBRC 113873T).

scholarly journals Zhongshania aliphaticivorans sp. nov., an aliphatic hydrocarbon-degrading bacterium isolated from marine sediment, and transfer of Spongiibacter borealis Jang et al. 2011 to the genus Zhongshania as Zhongshania borealis comb. nov.

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3768-3774 ◽  
Author(s):  
Naysim LO ◽  
Hyo Jung Kang ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Degrading Bacterium

A Gram-staining-negative, facultatively aerobic bacterium, designated SM-2T, was isolated from a sea-tidal flat of Yellow Sea, South Korea. Cells were catalase- and oxidase-positive motile rods with a single polar flagellum. Growth of strain SM-2T was observed at 10–37 °C (optimum, 25–30 °C), at pH 5.5–8.5 (optimum, pH 7.0–7.5) and in the presence of 0–11 % (w/v) NaCl (optimum, 2 %). Strain SM-2T contained ubiquinone-8 (Q-8) as the sole isoprenoid quinone and C17 : 1ω8c, summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH), C17 : 0 and C18 : 1ω7c as the major fatty acids. Phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and an unidentified lipid were identified as the major cellular polar lipids. The G+C content of the genomic DNA was 52.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SM-2T formed a tight phyletic lineage with Zhongshania antarctica ZS5-23T, Zhongshania guokunii ZS6-22T and Spongiibacter borealis CL-AS9T, but that S. borealis CL-AS9T was distinct from other species of the genus Spongiibacter . Based on 16S rRNA gene sequence similarities, strain SM-2T was most closely related to S. borealis CL-AS9T, Z. antarctica ZS5-23T and Z. guokunii ZS6-22T, with similarities of 99.5 %, 98.9 % and 98.7 %, respectively, but the DNA–DNA hybridization values among these species were clearly lower than 70 %. On the basis of chemotaxonomic data and molecular properties, we propose strain SM-2T represents a novel species of the genus Zhongshania with the name Zhongshania aliphaticivorans sp. nov. (type strain SM-2T = KACC 18120T = JCM 30138T). We also propose the transfer of Spongiibacter borealis Jang et al. 2011 to the genus Zhongshania as Zhongshania borealis comb. nov. (type strain CL-AS9T = KCCM 90094T = JCM 17304T).

Altererythrobacter gangjinensis sp. nov., a marine bacterium isolated from a tidal flat

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 971-976 ◽  
Author(s):  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Hyo Jung Lee ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Molecular Features

A Gram-stain-negative, ochre-pigmented, strictly aerobic bacterium, designated strain KJ7T, was isolated from a tidal flat of the Gangjin bay in South Korea. Cells were halotolerant, non-motile, catalase- and oxidase-positive rods. Growth of strain KJ7T was observed at 5–35 °C (optimum, 25 °C), at pH 6.0–9.5 (optimum, pH 6.5–7.0) and in the presence of 0–9 % (w/v) NaCl (optimum, 2 %). The major cellular fatty acids were C18 : 1ω7c, C17 : 1ω6c, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The polar lipid pattern indicated the presence of phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, a sphingoglycolipid, an unidentified phospholipid and two unidentified lipids. The G+C content of the genomic DNA was 60.2±0.9 mol% and the predominant respiratory quinone was Q-10. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain KJ7T formed a phyletic lineage distinct from other members of the genus Altererythrobacter and was most closely related to Altererythrobacter luteolus SW-109T and Altererythrobacter namhicola KYW48T (95.6 and 95.0 % 16S rRNA gene sequence similarity, respectively). On the basis of phenotypic, chemotaxonomic and molecular features, strain KJ7T represents a novel species of the genus Altererythrobacter , for which the name Altererythrobacter gangjinensis sp. nov. is proposed. The type strain is KJ7T ( = KACC 16190T = JCM 17802T).

Pontibacter yuliensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 968-972 ◽  
Author(s):  
Hanjun Cao ◽  
Yao Nie ◽  
Xian-Chun Zeng ◽  
Linghua Xu ◽  
Zancan He ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Populus Euphratica ◽  
Homology Search ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Family

A Gram-staining-negative, rod-shaped and pink bacterium was isolated from the soil of a Populus euphratica forest in the Taklamakan desert, Xinjiang, China. It was designated strain H9XT. A 16S rRNA gene sequence homology search indicated that the isolate was most closely related to the family Cytophagaceae . The 16S rRNA gene of strain H9XT displayed 94.2–96.3 % sequence identities to those of type strains of other species of the genus Pontibacter . It only possessed menaquinone-7. The major cellular fatty acids of the novel isolate were iso-C15 : 0, C16 : 1ω5c summed feature 3 (containing C16 : 1ω6c and/or C16 : 1ω7c) and summed feature 4 (comprising anteiso-C17 : 1 B and/or iso-C17 : 1 I). The major polar lipids were phosphatidylethanolamine, one unknown aminophospholipid, one unknown glycophospholipid and several unknown phospholipids. The DNA G+C content of this bacterium was 55.2 mol%. Based on the phenotypic and genotypic data presented, it can be concluded that this isolate represents a novel species of the genus Pontibacter , for which the name Pontibacter yuliensis sp. nov. is proposed. The type strain is H9XT ( = CCTCC AB 2013047T = KCTC 32396T).

Pricia antarctica gen. nov., sp. nov., a member of the family Flavobacteriaceae , isolated from Antarctic intertidal sediment

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2218-2223 ◽  
Author(s):  
Yong Yu ◽  
Hui-Rong Li ◽  
Yin-Xin Zeng ◽  
Kun Sun ◽  
Bo Chen
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
New Genus ◽  
Phylogenetic Analyses ◽  
Intertidal Sediment ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
The Family

A yellow-coloured, rod-shaped, Gram-reaction- and Gram-staining-negative, non-motile and aerobic bacterium, designated strain ZS1-8T, was isolated from a sample of sandy intertidal sediment collected from the Antarctic coast. Flexirubin-type pigments were absent. In phylogenetic analyses based on 16S rRNA gene sequences, strain ZS1-8T formed a distinct phyletic line and the results indicated that the novel strain should be placed in a new genus within the family Flavobacteriaceae . In pairwise comparisons between strain ZS1-8T and recognized species, the levels of 16S rRNA gene sequence similarity were all <93.3 %. The strain required Ca2+ and K+ ions as well as NaCl for growth. Optimal growth was observed at pH 7.5–8.0, 17–19 °C and with 2–3 % (w/v) NaCl. The major fatty acids were iso-C15 : 1 G, iso-C15 : 0, summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), an unknown acid with an equivalent chain-length of 13.565 and iso-C17 : 0 3-OH. The major respiratory quinone was MK-6. The predominant polar lipid was phosphatidylethanolamine. The genomic DNA G+C content was 43.9 mol%. Based on the phylogenetic, phenotypic and chemotaxonomic data, strain ZS1-8T represents a novel species in a new genus in the family Flavobacteriaceae for which the name Pricia antarctica gen. nov., sp. nov. is proposed. The type strain of the type species is ZS1-8T ( = JCM 17291T = DSM 23421T).

Photobacterium aestuarii sp. nov., a marine bacterium isolated from a tidal flat

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 625-630 ◽  
Author(s):  
Naysim Lo ◽  
Hyun Mi Jin ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Type Strains

A Gram-staining-negative, motile, weakly halophilic and facultatively aerobic bacterium, designated strain YA11T, was isolated from tidal flat sediment at Yeongam Bay, South Korea. Strain YA11T grew at 10–30 °C (optimum, 20 °C), at pH 6.0–10.0 (optimum, pH 6.5–7.5) and in the presence of 1–6 % (w/v) NaCl (optimum, 2–3 %). The major cellular fatty acids of the strain were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The DNA G+C content of the genomic DNA was 44.2 mol%. Strain YA11T contained Q-8 as the sole respiratory quinone. A phylogenetic tree based on 16S rRNA gene sequences showed that strain YA11T formed a distinct phyletic lineage within the genus Photobacterium and the 16S rRNA gene sequence similarities between strain YA11T and the type strains of species of the genus Photobacterium ranged between 94.0 and 96.4 %. Based on the phenotypic, chemotaxonomic and molecular properties, strain YA11T represents a novel species of the genus Photobacterium , for which the name Photobacterium aestuarii sp. nov. is proposed, with strain YA11T( = KACC 16912T = JCM 18592T) as the type strain.

Alsobacter metallidurans gen. nov., sp. nov., a thallium-tolerant soil bacterium in the order Rhizobiales

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 775-780 ◽  
Author(s):  
Zhihua Bao ◽  
Yoshinori Sato ◽  
Reiko Fujimura ◽  
Hiroyuki Ohta
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Garden Soil ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Atmospheric Nitrogen Fixation

A thallium-tolerant, aerobic bacterium, designated strain SK200a-9T, isolated from a garden soil sample was characterized using a polyphasic approach. Comparative analysis of 16S rRNA gene sequences revealed that strain SK200a-9T was affiliated with an uncultivated lineage within the Alphaproteobacteria and the nearest cultivated neighbours were bacteria in genera in the family Methylocystaceae (93.3–94.4 % 16S rRNA gene sequence similarity) and the family Beijerinckiaceae (92.3–93.1 %) in the order Rhizobiales . Cells of strain SK200a-9T were Gram-stain-negative, non-motile, non-spore-forming, poly-β-hydroxybutyrate-accumulating rods. The strain was a chemo-organotrophic bacterium, which was incapable of growth on C1 substrates. Catalase and oxidase were positive. Atmospheric nitrogen fixation and nitrate reduction were negative. The strain contained ubiquinone Q-10 and cellular fatty acids C18 : 1ω7c, C18 : 0, C16 : 1ω7c and C16 : 0 as predominant components. The major polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and phosphatidylglycerol. The DNA G+C content was 64.8 mol%. On the basis of the information described above, strain SK200a-9T is considered to represent a novel species of a new genus in the order Rhizobiales , for which the name Alsobacter metallidurans gen. nov., sp. nov. is proposed. The type strain of Alsobacter metallidurans is SK200a-9T ( = NBRC 107718T = CGMCC 1.12214T).

Arenibacter hampyeongensis sp. nov., a marine bacterium isolated from a tidal flat

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 679-684 ◽  
Author(s):  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Jeong Myeong Kim ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Molecular Features

A Gram-staining-negative, dark orange, strictly aerobic bacterium, designated strain HP12T, was isolated from a tidal flat at Hampyeong in South Korea. Cells were moderately halotolerant, catalase- and oxidase-positive, non-motile rods. Growth was observed at 5–35 °C (optimum, 25 °C), at pH 6.0–8.5 (optimum, pH 7.0–7.5), and in the presence of 1–6 % (w/v) NaCl (optimum, 1–2 %). The major cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), iso-C17 : 0 3-OH, C15 : 0, iso-C15 : 1 G and iso-C15 : 0. The polar lipid pattern indicated the presence of phosphatidylethanolamine and two unidentified lipids. The G+C content of the genomic DNA was 37.1 mol% and the predominant respiratory quinone was menaquinone-6. Phylogenetic analysis based on 16S rRNA gene sequences showed that the novel strain formed a tight phyletic lineage with members of the genus Arenibacter and was most closely related to Arenibacter palladensis KMM 3961T, Arenibacter troitsensis KMM 3674T and Arenibacter echinorum KMM 6032T, with 16S rRNA gene sequence similarities of 98.1 %, 98.0 % and 97.8 %, respectively. However, the DNA–DNA relatedness values between strain HP12T and A. palladensis JCM 13509T, A. troitsensis KCTC 12362T and A. echinorum KCTC 22013T were only 20.2±0.3 %, 22.6±0.6 % and 9.1±2.6 %, respectively. On the basis of phenotypic and molecular features, strain HP12T represents a novel species of the genus Arenibacter , for which the name Arenibacter hampyeongensis sp. nov. is proposed. The type strain is HP12T ( = KACC 16193T = JCM 17788T).

scholarly journals Litoribaculum gwangyangense gen. nov., sp. nov., isolated from a sea-tidal flat sediment

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 381-387 ◽  
Author(s):  
Hyun Mi Jin ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Gliding Motility ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-stain-negative, strictly aerobic bacterium, designated strain GY12T, was isolated from a tidal flat of South Korea. Cells were moderately halotolerant, catalase- and oxidase-positive rods with gliding motility, and were devoid of flagella. Growth of strain GY12T was observed at 15–40 °C (optimum 25–30 °C), pH 6.0–8.5 (optimum pH 7.0–7.5) and with 1–5 % (w/v) NaCl (optimum 1–2 %). The major cellular fatty acids were iso-C15 : 1 G, iso-C15 : 0 and iso-C15 : 0 3-OH. The polar lipids consisted almost entirely of phosphatidylethanolamine, two unidentified aminolipids and two unidentified lipids. The G+C content of the genomic DNA was 34.8 mol% and the only respiratory quinone detected was menaquinone-6 (MK-6). Strain GY12T was most closely related to the genera Gaetbulibacter , Flaviramulus , Mariniflexile and Tamlana with 16S rRNA gene sequence similarities of 94–97 %, but phylogenetic inferences based on 16S rRNA gene sequences showed that the strain formed phyletic lineages distinct from these genera within the family Flavobacteriaceae . On the basis of phenotypic and molecular features, strain GY12T represents a novel species of a new genus in the family Flavobacteriaceae , for which the name Litoribaculum gwangyangense gen. nov., sp. nov. is proposed. The type strain of the type species is GY12T ( = KACC 16441T = JCM 18325T).

scholarly journals Allosalinactinospora lopnorensis gen. nov., sp. nov., a new member of the family Nocardiopsaceae isolated from soil

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 206-213 ◽  
Author(s):  
Lin Guo ◽  
Li Tuo ◽  
Xugela Habden ◽  
Yuqin Zhang ◽  
Jiameng Liu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel actinomycete, designated strain CA15-2T, was isolated from a soil sample collected from the rhizosphere of tamarisk in the Lop Nor region, Xinjiang, China, and was characterized by using a polyphasic taxonomic approach. Optimal growth occurred at 37 °C and pH 7.5–8.0 and with 5 % (w/v) NaCl. Strain CA15-2T formed white to pale-yellow branched substrate mycelium without fragmentation and sparse aerial mycelium with wavelike curves. Whole-cell hydrolysates of the isolate contained meso-diaminopimelic acid as the diagnostic diamino acid of the cell wall but no diagnostic sugars. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylmethylethanolamine, phosphatidylethanolamine, one unidentified glycolipid, one unidentified phospholipid and other unidentified lipids. MK-9(H8), MK-10(H8) and MK-10(H6) were the predominant menaquinones. The major fatty acids were iso-C16 : 0 and C16 : 0. The G+C content of the genomic DNA was 69.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CA15-2T formed a distinct subclade in the family Nocardiopsaceae , with less than 95 % 16S rRNA gene sequence similarity to all known members of the family Nocardiopsaceae . On the basis of the evidence from our polyphasic study, a novel genus, Allosalinactinospora gen. nov., is proposed, with the type species Allosalinactinospora lopnorensis gen. nov., sp. nov. The type strain of Allosalinactinospora lopnorensis is strain CA15-2T ( = DSM 45697T = CGMCC 4.7074T).

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