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

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).

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 971-976 ◽  
Author(s):  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Hyo Jung Lee ◽  
Che Ok Jeon

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).


2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 679-684 ◽  
Author(s):  
Sang Hyeon Jeong ◽  
Hyun Mi Jin ◽  
Jeong Myeong Kim ◽  
Che Ok Jeon

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).


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 ◽  
...  

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).


Author(s):  
Sooyeon Park ◽  
Jung-Sook Lee ◽  
Wonyong Kim ◽  
Jung-Hoon Yoon

Two Gram-stain-negative and non-flagellated bacteria, YSTF-M3T and YSTF-M6T, were isolated from a tidal flat from Yellow Sea, Republic of Korea, and subjected to a polyphasic taxonomic study. Neighbour-joining phylogenetic tree of 16S rRNA gene sequences showed that strains YSTF-M3T and YSTF-M6T belong to the genera Kordia and Olleya of the family Flavobacteriaceae , respectively. The 16S rRNA gene sequence similarities between strain YSTF-M3T and the type strains of Kordia species and between strain YSTF-M6T and the type strains of Olleya species were 94.1–98.4 and 97.3–98.3 %, respectively. The ANI and dDDH values between genomic sequences of strain YSTF-M3T and the type strains of five Kordia species and between those of strain YSTF-M6T and the type strains of three Olleya species were in ranges of 77.0–83.2 and 20.7–27.1 % and 79.4–81.5 and 22.3–23.9 %, respectively. The DNA G+C contents of strain YSTF-M3T and YSTF-M6T from genomic sequences were 34.1 and 31.1 %, respectively. Both strains contained MK-6 as predominant menaquinone and phosphatidylethanolamine as only major phospholipid identified. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strains YSTF-M3T and YSTF-M6T are separated from recognized species of the genera Kordia and Olleya , respectively. On the basis of the data presented, strains YSTF-M3T (=KACC 21639T=NBRC 114499T) and YSTF-M6T (=KACC 21640T=NBRC 114500T) are considered to represent novel species of the genera Kordia and Olleya , respectively, for which the names Kordia aestuariivivens sp. nov. and Olleya sediminilitoris sp. nov. are proposed.


Author(s):  
Zhaobin Huang ◽  
Xiaomei Wei ◽  
Qiliang Lai ◽  
Shiyong Chen ◽  
Jianjun Yuan

Two marine bacterial strains, designated S2-4-21T and MT2-5-19, were isolated from two tidal flat sediments of cordgrass Spartina alterniflora and adjacent oyster culture field in Quanzhou bay, China, respectively. Both strains were Gram-staining-negative, rod-shaped, non-flagellated, non-motile, aerobic, had NaCl requirements, and contained carotenoid and flexirubin pigments. The 16S rRNA gene sequence similarity (99.8%), average nucleotide identity value (99.4%) and average amino acid identity (99.3%) between strain S2-4-21T and strain MT2-5-19 strongly supported that they belonged to a single species. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S2-4-21T and strain MT2-5-19 formed a monophyletic branch affiliated to the family Flavobacteriaceae , sharing similarities of 94.6% with Euzebyella marina CY01T and E. saccharophila 7SM30T, and of 94.1 and 92.8% with E. algicola MEBiC 12267T and Pseudozobellia thermophile DSM 19858T, respectively. Phylogenomic analysis based on the whole genome sequences supported that the two strains formed a distinct monophyletic clade within Flavobacteriaceae members, which was phylogenetically different from the clades of Euzebyella and Pseudozobellia . The major respiratory quinone was menaquinone MK-6. The major fatty acids (>10%) consisted of C15 : 0 iso, C16 : 0, summed feature 9 (C17 : 1 iso ω9c/C16 : 0 10-methyl) and C17 : 0 iso 3-OH. The polar lipid profiles of strain S2-4-21T and strain MT2-5-19 are identical, including phosphatidylethanolamine, four unidentified aminolipids, and four unidentified lipids. The genomic size was 4.9–5.0 Mb with genomic DNA G+C content of 41.5 mol%. Based on the above characteristics, strains S2-4-21T and MT2-5-19 represented a novel species of a novel genus in the family Flavobacteriaceae . Thus, Pareuzebyella sediminis gen. nov. sp. nov. is proposed with type strain S2-4-21T (=MCCC 1K03818T=KCTC 72152T), and another strain MT2-5-19 (=KCTC 72539=MCCC 1K03874).


2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2895-2900 ◽  
Author(s):  
Renukaradhya K. Math ◽  
Hyun Mi Jin ◽  
Sang Hyeon Jeong ◽  
Che Ok Jeon

A novel Gram-staining-negative, strictly aerobic bacterium, designated BS14T, was isolated from a marine tidal flat of the South Sea in Korea. Colonies were opaque, white, smooth and circular on marine agar. Cells were moderately halophilic, non-motile rods showing catalase- and oxidase-positive reactions. Growth of strain BS14T was observed at 5–40 °C (optimum: 30 °C), pH 6.5–9.5 (optimum: 7.0–7.5) and 0–10 % (w/v) NaCl (optimum: 1–1.5 %). The G+C content of the genomic DNA was 61.6 mol%. Strain BS14T contained ubiquinone-10 (Q-10) as the sole respiratory quinone and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c), C18 : 0 3-OH, C10 : 0 3-OH and C18 : 0 as the major fatty acids. The polar lipid pattern comprised phosphatidylethanolamine, diphosphatidylglycerol, an unidentified aminolipid, an unidentified phospholipid and an unidentified polar lipid. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain BS14T formed a tight phylogenetic lineage with Defluviimonas denitrificans D9-3T with a bootstrap value of 100 %. The 16S rRNA gene sequence similarity between strain BS14T and D. denitrificans D9-3T was 97.4 % and their DNA–DNA relatedness was 19.1±3.6 %. Based on the phenotypic and genotypic studies, strain BS14T represents a novel species of the genus Defluviimonas , for which the name Defluviimonas aestuarii sp. nov. is proposed. The type strain is BS14T ( = KACC 16442T = JCM 18630T). An emended description of the genus Defluviimonas Foesel et al. 2011 is also proposed.


2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1876-1881 ◽  
Author(s):  
Sooyeon Park ◽  
Sung-Min Won ◽  
Doo-Sang Park ◽  
Jung-Hoon Yoon

A Gram-stain-negative, non-motile, rod-shaped bacterial strain, AH-M5T, which was isolated from a tidal flat sediment at Aphae Island in South Korea, was characterized taxonomically. Strain AH-M5T grew optimally at 25 °C, at pH 7.0–8.0 and in presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain AH-M5T clustered coherently with the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus , showing 93.4–94.3 % sequence similarity. The novel strain exhibited 16S rRNA gene sequence similarity values of less than 93.4 % to the type strains of other recognized species. Strain AH-M5T contained MK-6 as the predominant menaquinone and iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) as the major fatty acids. The polar lipid profile of strain AH-M5T containing phosphatidylethanolamine and one unidentified lipid as major components was differentiated from those of the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . The DNA G+C content of strain AH-M5T was 34.8 mol%. Differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrated that strain AH-M5T is distinguished from Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . On the basis of the data presented, strain AH-M5T is considered to represent a novel genus and species within the family Flavobacteriaceae , for which the name Seonamhaeicola aphaedonensis gen. nov., sp. nov. is proposed. The type strain of the type species is AH-M5T ( = KCTC 32578T = CECT 8487T).


2020 ◽  
Vol 70 (10) ◽  
pp. 5235-5242 ◽  
Author(s):  
Soon Dong Lee ◽  
Hanna Choe ◽  
Ji-Sun Kim ◽  
In Seop Kim

A strictly aerobic, Gram-stain-negative, non-motile, ovoid- and rod-shaped bacterium, designated strain GH1-50T, was isolated from a tidal mudflat sample collected from Dongmak seashore on Gangwha Island, Republic of Korea. The organism showed growth at 20–40 °C (optimum, 30 °C), pH 7–8 (optimum, pH 7) and 2–6  % (w/v) NaCl (optimum, 5 %). The pufLM genes were present but bacteriochlorophyll a was not detected. The major isoprenoid quinone was Q-10. The polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylinositol, an unidentified aminolipid and five unidentified lipids. The predominant cellular fatty acids were C18 : 1  ω7c, C18 : 1  ω7c 11-methyl and C18 : 0. Phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that the isolate belonged to the family Rhodobacteraceae and was loosely associated with members of the recognized genera. The closest relative was the type strain of Pseudoruegeria marinistellae (96.8 % similarity) followed by Boseongicola aestuarii (96.4 %). Other members of the family shared 16S rRNA gene similarity values below 96.0 % to the novel isolate. The DNA G+C content calculated from the draft genome sequence was 64.0 %. The average amino acid identity, average nucleotide identity and digital DNA–DNA hybridization values between genome sequences of strain GH1-50T and all the type strains of the recognized taxa compared were <70.0, <84.1 and <20.5 %, respectively. Based on data obtained by a polyphasic approach, strain GH1-50T (=KCTC 72224T=NBRC 113929T) represents a novel species of a new genus in the family Rhodobacteraceae , for which the name Kangsaoukella pontilimi gen. nov., sp. nov. is proposed.


2020 ◽  
Vol 70 (12) ◽  
pp. 6195-6202 ◽  
Author(s):  
Heeyoung Kang ◽  
Haneul Kim ◽  
Inseong Cha ◽  
Kiseong Joh

Two Gram-stain-negative, strictly aerobic, non-motile and rod-shaped bacterial strains, designated as HMF7605T and HMF7616T, were isolated from birch tree, in Yong-in, Republic of Korea. Strains HMF7605T and HMF7616T exhibited the highest 16S rRNA gene sequence similarities of 95.9 and 97.5 % to Adhaeribacter swui 17mud1-7T, 97.9 % between themselves. The values of average nucleotide identity and in silico DNA–DNA hybridization between strains HMF7605T and HMF7616T were 77.6 and 22.0 %, respectively. Phylogenetic analysis of the 16S rRNA gene sequences of the two strains revealed that they belonged to the genus Adhaeribacter within the family Hymenobacteraceae . The predominant fatty acids of both strains were iso-C15 : 0, summed feature 3 (comprising C16 : 1  ω7c and/or C16 : 1  ω6c), C16 : 1  ω5c and summed feature 4 (comprising iso-C17 : 1 I and/or anteiso-C17 : 1 B). The both strains contained menaquinone-7 as the only isoprenoid quinone. The major polar lipid profiles of the two strains were similar with phosphatidylethanolamine, one unidentified aminophosphoglycolipid, one unidentified glycolipid and three unidentified polar lipids. The DNA G+C contents of strains HMF7605T and HMF7616T were 42.0 and 42.8 mol%, respectively. Based on the results of the phenotypic, genotypic, chemotaxonomic and phylogenetic investigation, two novel species, Adhaeribacter arboris sp. nov. and Adhaeribacter pallidiroseus sp. nov. are proposed. The type strains are HMF7605T (=KCTC 62465T=NBRC 113228T) and HMF7616T (=KCTC 62466T=NBRC 113229T), respectively.


2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2674-2679 ◽  
Author(s):  
Pushp Lata ◽  
Devi Lal ◽  
Rup Lal

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.


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