scholarly journals Hoppeia youngheungensis gen. nov., sp. nov., a member of the Flavobacteriaceae isolated from tidal flat sediment, and emended descriptions of the genus Sediminibacter and Sediminibacter furfurosus

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 2053-2059 ◽  
Author(s):  
Yong Min Kwon ◽  
Donghee Choi ◽  
Sung-Hyun Yang ◽  
Kae Kyoung Kwon ◽  
Sang-Jin Kim
Keyword(s):  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment ◽  
The Family

A Gram-reaction-negative, proteorhodopsin-containing, yellow-pigmented, rod-shaped, non-gliding and strictly aerobic bacterium, designated strain YIK12T, was isolated from tidal flat sediment of Yeongheung Island at the coast of the West Sea of Korea. Cells produced non-diffusible carotenoid pigments, but not flexirubin-type pigment. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the isolate was affiliated to the family Flavobacteriaceae and showed highest similarity to Sediminibacter furfurosus MAOS-86T (93.3 %). Growth was observed at 24–44 °C (optimum 30 °C), at pH 6.5–8.0 (optimum 7.0) and in the presence of 1.5–7.0 % sea salts (optimum 2 %). The DNA G+C content was 40.4 mol% and the predominant cellular fatty acids were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH, iso-C16 : 0 3-OH, anteiso-C15 : 0 and iso-C15 : 0 3-OH. The major respiratory quinone was MK-6. On the basis of data from the present polyphasic taxonomic study, strain YIK12T is considered to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Hoppeia youngheungensis gen. nov., sp. nov. is proposed. The type strain of H. youngheungensis is YIK12T ( = KCCM 43023T = JCM 19488T). Emended descriptions of the genus Sediminibacter and Sediminibacter furfurosus are given.

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

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 3049-3054 ◽  
Author(s):  
Renukaradhya K. Math ◽  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Moon Su Park ◽  
Jeong Myeong Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Content Type ◽  
Link Type

A Gram-staining negative, strictly aerobic bacterium, designated 101-1T, was isolated from a sea tidal flat, Taean, Korea. The strain formed small light-yellow, smooth, and circular colonies on marine agar. Cells were weakly halophilic, motile rods showing catalase- and oxidase-positive reactions. Growth of strain 101-1T was observed at 15–40 °C (optimum, 30 °C), pH 5.0–8.0 (optimum, pH 6.5–7.0) and 1.0–9.0 % (w/v) NaCl (optimum, 2.0–3.5 %). The G+C content of the genomic DNA was 53.3 mol%. Strain 101-1T contained ubiquinone-10 (Q-10) as the respiratory quinone and iso-C17 : 1ω9c, iso-C15 : 0 and iso-C17 : 0 as major fatty acids. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain 101-1T formed a tight phylogenetic lineage with members of the genus Kordiimonas and was most closely related to Kordiimonas gwangyangensis GW14-5T and Kordiimonas lacus S3-22T with 97.3 % and 96.3 % 16S rRNA gene sequence similarities, respectively. The DNA–DNA relatedness values between strain 101-1T and K. gwangyangensis GW14-5T and K. lacus S3-22T were 24.8±4.4 % and 32.2±3.6 %, respectively. Based on the data from the phenotypic and genotypic studies, strain 101-1T represents a novel species of the genus Kordiimonas , for which the name Kordiimonas aestuarii sp. nov. is proposed. The type strain is 101-1T ( = KACC 16184T = JCM 17742T).

Roseibium litorale sp. nov., isolated from a tidal flat sediment and proposal for the reclassification of Labrenzia polysiphoniae as Roseibium polysiphoniae comb. nov.

2021 ◽  
Author(s):  
Yang Liu ◽  
Tao Pei ◽  
Juan Du ◽  
Meijie Chao ◽  
Ming-Rong Deng ◽  
...  
Keyword(s):  
Tidal Flat ◽  
Type Strain ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Phylogenomic Analysis ◽  
Rrna Gene ◽  
Species Definition ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A novel Gram-stain-negative, facultatively anaerobic, rod-shaped and non-motile bacterial strain, designated as 4C16AT, was isolated from a tidal flat sediment and characterized by using a polyphasic taxonomic approach. Strain 4C16AT was found to grow at 10–40 °C (optimum, 28 °C), at pH 5.0–10.0 (optimum, pH 6.0–7.0) and in 0–6 % (w/v) NaCl (optimum, 1 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 4C16AT fell into the genus Roseibium , and shared the highest identity of 98.9 % with the closest type strain Roseibium suaedae KACC 13772T and less than 98.0 % identity with other type strains of recognized species within this genus. The phylogenomic analysis indicated that strain 4C16AT formed an independent branch within this genus. The 28.6 % digital DNA–DNA hybridization estimate and 85.0 % average nucleotide identity between strains 4C16AT and R. suaedae KACC 13772T were the highest, but still far below their respective threshold for species definition, implying that strain 4C16AT should represent a novel genospecies. The predominant cellular fatty acid was summed feature 8; the polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylmonomethylethanolamine; the respiratory quinones were Q-9 and Q-10. The genomic DNA G+C content was 59.8mol %. Based on phylogenetic analyses and phenotypic and chemotaxonomic characteristics, strain 4C16AT is concluded to represent a novel species of the genus Roseibium , for which the name Roseibium litorale sp. nov. is proposed. The type strain of the species is 4C16AT (=GDMCC 1.1932T=KACC 22078T). We also propose the reclassification of Labrenzia polysiphoniae as Roseibium polysiphoniae comb. nov. and ‘Labrenzia callyspongiae’ as Roseibium callyspongiae sp. nov.

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).

Algoriphagus chungangensis sp. nov., isolated from a tidal flat sediment

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 648-653 ◽  
Author(s):  
Hyeonji Kang ◽  
Veeraya Weerawongwiwat ◽  
Min Young Jung ◽  
Soon Chul Myung ◽  
Wonyong Kim
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A Gram-stain-negative, non-spore-forming, non-motile, strictly aerobic, rod-shaped bacterial strain, designated CAU 1002T, was isolated from a tidal flat sediment and its taxonomic position was investigated using a polyphasic approach. Strain CAU 1002T grew optimally at 30 °C and pH 7.5. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CAU 1002T formed a distinct lineage within the genus Algoriphagus and was most closely related to Algoriphagus lutimaris KCTC 22630T and Algoriphagus halophilus KCTC 12051T (97.75 and 97.74 % 16S rRNA gene sequence similarity, respectively). The strain contained MK-7 as the major isoprenoid quinone and iso-C15 : 0 and C16 : 1ω7c and/or iso-C15 : 0 2-OH (summed feature 3) as the major fatty acids. The cell-wall peptidoglycan of strain CAU 1002T contained meso-diaminopimelic acids. The major whole-cell sugars were glucose, arabinose, sucrose, and ribose. The polar lipid profile was composed of phosphatidylethanolamine, five unidentified aminolipids, one unidentified aminophospholipid, one unidentified phospholipid, one unidentified aminoglycolipid, one unidentified glycolipid and twelve unidentified lipids. The DNA G+C content of strain CAU 1002T was 38.0 mol%. On the basis of phylogenetic inference, phenotypic, chemotaxonomic and genotypic data, strain CAU 1002T should be classified into the genus Algoriphagus as a member of a novel species, for which the name Algoriphagus chungangensis sp. nov. is proposed. The type strain is CAU 1002T ( = KCTC 23759T = CCUG 61890T). The description of the genus Algoriphagus is emended.

Formosa arctica sp. nov., isolated from Arctic seawater

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 78-82 ◽  
Author(s):  
Taeyang Kwon ◽  
Kiwoon Baek ◽  
Kiyoung Lee ◽  
Ilnam Kang ◽  
Jang-Cheon Cho
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
The Arctic ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type

A Gram-staining-negative, chemoheterotrophic, yellow-pigmented, gliding, catalase- and oxidase-positive, flexirubin-negative, strictly aerobic bacterium, designated strain IMCC9485T, was isolated from a seawater sample collected from the Arctic Ocean. Optimal growth of strain IMCC9485T was observed at 25 °C, pH 7–8 and in the presence of 1.5–2.5 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain IMCC9485T belonged to the genus Formosa and was closely related to Formosa algae KCTC 12364T (98.2 %) and Formosa agariphila KCTC 12365T (98.0 %). DNA–DNA relatedness between the new isolate and F. algae and F. agariphila was far lower than 70 %, which indicated that strain IMCC9485T is a novel genomic species of the genus Formosa . The major fatty acids (>10 %) were iso-C15 : 1G (13.7 %), C16 : 1ω7c and/or C16 : 1ω6c (13.4 %) and iso-C15 : 0 (12.3 %). The G+C content of the genomic DNA was 37.6 mol%. Strain IMCC9485T contained menaquinone-6 (MK-6) as the respiratory quinone and phosphatidylethanolamine, unknown aminophospholipids and unknown polar lipids as polar lipid constituents. On the basis of phylogenetic analyses and differential phenotypic characteristics, it is suggested that strain IMCC9485T ( = KACC 17484T = KCCM 42937T = NBRC 106080T) be assigned to the genus Formosa as the type strain of a novel species, for which the name Formosa arctica sp. nov. is proposed.

Stakelama sediminis sp. nov., isolated from tidal flat sediment

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 560-564 ◽  
Author(s):  
Cung Nawl Thawng ◽  
Sung-Joon Park ◽  
Ju-Hee Cha ◽  
Chang-Jun Cha
Keyword(s):  
Tidal Flat ◽  
Type Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment ◽  
Phyletic Line ◽  
Ubiquinone 10 ◽  
The 16S Rrna Gene

A novel bacterial strain designated CJ70T was isolated from tidal flat sediment in Korea. A polyphasic approach was used to identify this strain taxonomically. The isolate was Gram-stain-negative, strictly aerobic, yellow-pigmented, rod-shaped and non-motile. Phylogenetic analysis of the 16S rRNA gene sequence revealed that strain CJ70T was related most closely to Stakelama pacifica JLT832T with 95.7 % similarity and formed an independent phyletic line from recognized species of the genus Sphingomonas , comprising a clade with Stakelama pacifica , which is the only recognized species of the genus Stakelama . The predominant cellular fatty acids of strain CJ70T were C18 : 1ω7c (60.0 %), C16 : 0 (21.2 %) and C14 : 0 2-OH (5.8 %). The major isoprenoid quinone was ubiquinone-10. The G+C content of the genomic DNA was 61.4 mol%. The results obtained from this study suggested that strain CJ70T represents a novel species of the genus Stakelama , for which the name Stakelama sediminis sp. nov. is proposed. The type strain is CJ70T ( = KACC 16559T = JCM 18079T).

scholarly journals Moheibacter sediminis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from sediment, and emended descriptions of Empedobacter brevis, Wautersiella falsenii and Weeksella virosa

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1481-1487 ◽  
Author(s):  
Ren-Gang Zhang ◽  
Xu Tan ◽  
Xing-Min Zhao ◽  
Jian Deng ◽  
Jie Lv
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
North East ◽  
The Family

A Gram-reaction-negative, yellow-pigmented, strictly aerobic bacterium, designated M0116T, was isolated from the sediment of the Mohe Basin in north-east China. Flexirubin-type pigments were produced. Cells were catalase- and oxidase-positive and non-gliding rods. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain M0116T was a member of the family Flavobacteriaceae and was most closely related to members of the genera Empedobacter , Wautersiella and Weeksella with 90.5–91.0 % sequence similarities. The major cellular fatty acids were iso-C15 : 0 and iso-C17 : 0 3-OH. The major respiratory quinone was MK-6 and the major polar lipid was phosphatidylethanolamine. The DNA G+C content was 38.2 mol%. Based on phenotypic, phylogenetic and genotypic data, strain M0116T is considered to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Moheibacter sediminis gen. nov., sp. nov. is proposed. The type strain is M0116T ( = CGMCC 1.12708T = JCM 19634T). Emended descriptions of Empedobacter brevis , Wautersiella falsenii and Weeksella virosa are also proposed.

Rheinheimera mangrovi sp. nov., a bacterium isolated from mangrove sediment

2020 ◽  
Vol 70 (12) ◽  
pp. 6188-6194
Author(s):  
Weiyan Zhang ◽  
Suting Zhu ◽  
Yuping Cheng ◽  
Lijian Ding ◽  
Shengying Li ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Mangrove Sediment ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Distinct Lineage

A Gram-stain-negative, rod-shaped, motile and strictly aerobic bacterium, designated LHK132T, was isolated from a mangrove sediment sample collected in Haikou, Hainan Province, PR China. Strain LHK132T was able to grow at temperatures of 10–45 °C, at salinities of 0–7.0 % (w/v) and at pH 6.0–9.0. Catalase and oxidase activities, H2S production, urease and methyl red reaction were positive. Indole, nitrate reduction, hydrolysis of gelatin, starch, casein and Tweens 20, 40, 60 and 80 were negative. The major cellular fatty acids were C16 : 0 and summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω6c). The only respiratory quinone was ubiquinone-8. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. According to 16S rRNA gene sequence analysis, strain LHK132T had 98.3, 97.5, 97.4, 97.2 and 97.1% similarities to Rheinheimera soli BD-d46T, Rheinheimera sediminis YQF-1T, Rheinheimera tangshanensis JA3-B52T, Rheinheimera mesophila IITR-13T and Rheinheimera arenilitoris J-MS1T, respectively. Phylogenetic analyses indicated that strain LHK132T formed a distinct lineage with R. soli BD-d46T within the genus Rheinheimera . The average nucleotide identity and digital DNA–DNA hybridization values between strain LHK132T and related species of the genus Rheinheimera were well below the thresholds for species delineation. The DNA G+C content was 46.7 mol%. On the basis of its phenotypic, chemotaxonomic and genotypic data, strain LHK132T is considered a representative of a novel species in the genus Rheinheimera , for which the name Rheinheimera mangrovi sp. nov. is proposed. The type strain is LHK132T (=KCTC 62580T=MCCC 1K03529T).

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).

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