Marinoscillum luteum sp. nov., isolated from marine sediment

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3475-3480 ◽  
Author(s):  
In-Tae Cha ◽  
Soo-Je Park ◽  
So-Jeong Kim ◽  
Jong-Geol Kim ◽  
Man-Young Jung ◽  
...  

A novel strain, designated SJP7T, was isolated from sediment of the Tofua Arc of the Tonga Trench. The 16S rRNA gene sequence of the isolate showed the highest similarity to that of Marinoscillum pacificum KCCM 42325T (95.9 %). Phylogenetic analysis revealed that the isolate formed a distinct phyletic line with Marinoscillum pacificum KCCM 42325T and Marinoscillum furvescens LMG 13023T within the family Cytophagaceae . Cells of strain SJP7T were Gram-stain-negative and appeared as long rods that were motile by gliding. Growth was observed at 15–40 °C (optimum, 30 °C), at pH 5.5–9.0 (optimum, pH 7.5–8.0) and in the presence of 0.5–7.0 % (w/v) NaCl (optimum, 2.5–3 %). The major respiratory quinone was MK-7. The dominant fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), iso-C15 : 0 and C16 : 1ω5c. The DNA G+C content was 43.5 mol%. These properties support the affiliation of strain SJP7T with the genus Marinoscillum . Further phenotypic differentiation of strain SJP7T from other species of the genus Marinoscillum was indicated by the results of physiological and biochemical tests. On the basis of evidence from our polyphasic taxonomic study, strain SJP7T represents a novel species of the genus Marinoscillum , for which the name Marinoscillum luteum sp. nov. is proposed. The type strain of Marinoscillum luteum is SJP7T ( = KCTC 23939T = NCAIM B02491T).

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3225-3231 ◽  
Author(s):  
Haji Khan ◽  
Eu Jin Chung ◽  
Che Ok Jeon ◽  
Young Ryun Chung

A Gram-staining-negative, rod-shaped, aerobic bacterial strain designated YC7003T, was isolated from a piece of rotten wood collected at Jinju, Korea. The taxonomic position of the strain was investigated using a polyphasic approach. The strain was catalase- and oxidase-positive, grew at 4–35 °C (optimum, 30 °C) and at pH 5.0–10.0 (optimum, pH 6.5–7.0). The major cellular fatty acids were C16 : 1ω7c and/or iso-C15 : 0 2-OH (summed feature 3), iso-C15 : 0 and C16 : 1ω5c and the major respiratory quinone was MK-7. The total genomic DNA G+C content was 49.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YC7003T belonged to the genus Mucilaginibacter in the family Sphingobacteriaceae with 94.4–97.2 % sequence similarities with type strains of species of the genus Mucilaginibacter . The most closely related species was Mucilaginibacter mallensis MP1X4T (97.2 %). The DNA–DNA relatedness value between strain YC7003T and M. mallensis MP1X4T was 21.7±3.3 %. Based on these data, strain YC7003T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter gynuensis sp. nov. is proposed. The type strain is YC7003T ( = KACC 15532T = JCM 17705T).


2020 ◽  
Vol 70 (9) ◽  
pp. 4966-4977 ◽  
Author(s):  
Selma Vieira ◽  
Javier Pascual ◽  
Christian Boedeker ◽  
Alicia Geppert ◽  
Thomas Riedel ◽  
...  

The family Caulobacteraceae comprises prosthecate bacteria with a dimorphic cell cycle and also non-prosthecate bacteria. Cells of all described species divide by binary fission. Strain 0127_4T was isolated from forest soil in Baden Württemberg (Germany) and determined to be the first representative of the family Caulobacteraceae which divided by budding. Cells of strain 0127_4T were Gram-negative, rod-shaped, prosthecate, motile by means of a polar flagellum, non-spore-forming and non-capsulated. The strain formed small white colonies and grew aerobically and chemo-organotrophically utilizing organic acids, amino acids and proteinaceous substrates. 16S rRNA gene sequence analysis indicated that this bacterium was related to Aquidulcibacter paucihalophilus TH1-2T and Asprobacter aquaticus DRW22-8T with 91.3 and 89.7% sequence similarity, respectively. Four unidentified glycolipids were detected as the major polar lipids and, unlike all described members of the family Caulobacteraceae , phosphatidylglycerol was absent. The major fatty acids were summed feature 8 (C18 : 1ω7c/C18 : 1ω6c), summed feature 9 (iso-C17 : 1ω9c/C16 : 0 10-methyl), C16 : 0 and summed feature 3 (C16 : 1 ω6c/C16 : 1 ω7c). The major respiratory quinone was Q-10. The G+C content of the genomic DNA was 63.5 %. Based on the present taxonomic characterization, strain 0127_4T represents a novel species of a new genus, Terricaulis silvestris gen. nov., sp. nov. The type strain of Terricaulis silvestris is 0127_4T (=DSM 104635T=CECT 9243T).


2020 ◽  
Vol 70 (11) ◽  
pp. 5812-5817 ◽  
Author(s):  
Xi Gui ◽  
Shufei Wu ◽  
Fanghang Huang ◽  
Yiran Wang ◽  
Ruyue He ◽  
...  

A novel bacterial strain of the family ‘Vicingaceae’ was isolated from mangrove of Tielu Harbour, Hainan, PR China. Strain S-15T was a Gram-stain-negative, short-rod-shaped, yellow-pigmented that could grow at 10–42 °C (optimum, 26–35 °C), at pH 5.0–9.0 (optimum, pH 5.5) and in 0.5–10.0 % w/v sea salt (optimum, 3.5–4.0 %). Cells of strain S-15T were 0.9–1.4 µm long, 0.8–0.9 µm wide, catalase-positive and oxidase-positive. Colonies on modified marine agar 2216 were 0.5–2.0 mm in diameter after incubation for 72 h at 28 °C. Analysis of 16S rRNA gene sequences revealed that strain S-15T was most closely related to Vicingus serpentipes ANORD5T (89.8 %). The major respiratory quinone of strain S-15T was menaquinone MK-7, and the dominant fatty acids were C15:0 iso, C15:1 iso G and C17:0 iso 3-OH. The major polar lipids were two unidentified aminolipids, phosphatidylethanolamine and six unidentified lipids. Analyses showed that the genome size was 3.52 Mb and the DNA G+C content was 35.6 mol%, which were higher than V. serpentipes ANORD5T with 2.92 Mb genome size and 31.0 mol% G+C content, respectively. Based on morphological, physiological and phylogenetic data, strain S-15T is considered a type strain of a new species and a new genus of the family ‘Vicingaceae’ for which the name Acidiluteibacter ferrifornacis gen. nov., sp. nov. is proposed. The type strain of Acidiluteibacter ferrifornacis is S-15T (=MCCC 1K03817T=JCM 33804T).


2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2252-2258 ◽  
Author(s):  
P. Anil Kumar ◽  
T. N. R. Srinivas ◽  
S. Madhu ◽  
R. Sravan ◽  
Shashi Singh ◽  
...  

A novel Gram-staining-negative, rod-shaped, non-motile bacterium, designated strain LW9T, was isolated from a water sample collected from Lonar Lake of Buldhana district, Maharashtra, India. Colonies and broth cultures were reddish orange due to the presence of carotenoid pigments. Strain LW9T was positive for catalase, ornithine decarboxylase and lysine decarboxylase activities and negative for gelatinase, oxidase, urease and lipase activities. The predominant fatty acids were iso-C15 : 0 (31.3 %), iso-C16 : 0 (9.3 %), anteiso-C15 : 0 (7.3 %), iso-C16 : 1 H (6.1 %), summed feature 3 (comprising C16 : 1ω7c/C16 : 1ω6c; 5.9 %), iso-C17 : 1ω9c (5.4 %) and iso-C17 : 0 3-OH (5.0 %). Strain LW9T contained MK-7 as the major respiratory quinone. The polar lipids consisted of phosphatidylethanolamine, two unidentified aminolipids and seven unidentified lipids. The DNA G+C content of strain LW9T was 40.5 mol%. 16S rRNA gene sequence analysis indicated that the type strains of Indibacter alkaliphilus and Aquiflexum balticum , two members of the family Cyclobacteriaceae (phylum ‘ Bacteroidetes ’) were the most closely related strains with sequence similarities of 93.0 and 94.0 %, respectively. Other members of the family Cyclobacteriaceae showed sequence similarities <93.0 %. Based on these phenotypic characteristics and on phylogenetic inference, strain LW9T is proposed as the representative of novel species in a new genus, Cecembia lonarensis gen. nov., sp. nov. The type strain of the type species, Cecembia lonarensis, is LW9T ( = CCUG 58316T = KCTC 22772T). Emended descriptions of the genera Indibacter , Nitritalea and Belliella are also proposed.


2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 298-302 ◽  
Author(s):  
Seong-Hyun Yang ◽  
Mi-Ree Kim ◽  
Hyun-Seok Seo ◽  
Sung Hyuk Lee ◽  
Jung-Hyun Lee ◽  
...  

A Gram-negative, aerobic, rod-shaped (0.6–0.9×0.7–1.2 µm), motile marine bacterium, designated MEBiC06554T, was isolated from seawater collected from the East Sea, Korea (also known as the Sea of Japan). 16S rRNA gene sequence analysis revealed that strain MEBiC06554T was affiliated to the order Kordiimonadales and showed high similarity to Kordiimonas gwangyangensis GW14-5T (95.4 %), but formed a distinct phyletic line. Growth was observed at 10.5–35.0 °C (optimum 20 °C), at pH 5.0–8.0 (optimum pH 7.0) and with 0–13 % (w/v) NaCl (optimum 3.0–3.5 %). The predominant cellular fatty acids were iso-C15 : 0 (14.9 %), iso-C17 : 1ω9c (44.6 %), iso-C17 : 0 (6.3 %) and summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c; 13.9 %). The DNA G+C content was 50.3 mol%. The major respiratory quinone was Q-10. Phosphatidylethanolamine, two unidentified glycolipids, six unidentified aminolipids, three unidentified lipids and one unidentified aminophospholipid were detected as major polar lipids. On the basis of the data from our polyphasic taxonomic study, strain MEBiC06554T should be classified within a novel species of the genus Kordiimonas , as Kordiimonas aquimaris sp. nov. The type strain is MEBiC06554T ( = KCCM 42940T  = JCM 16665T). Emended descriptions of the genus Kordiimonas and of its species Kordiimonas gwangyangensis and Kordiimonas lacus are also proposed.


Author(s):  
Nantawan Niemhom ◽  
Chanwit Suriyachadkun ◽  
Chokchai Kittiwongwattana

Two Gram-stain-negative, non-motile, rod-shaped bacterial strains were isolated from the surfaces of rice roots. They were designated as strains 1303T and 1310. Their colonies were circular, entire, opaque, convex and yellow. They were chitinase- and catalase-positive, reduced nitrate and grew at 16–37 °C (optimum, 30 °C), pH 5.0–10.0 (optimum, pH 7.0) and 0–2.0% NaCl (optimum, 1.0 %). Based on the 16S rRNA gene sequence analysis, they were classified as members of the genus Chitinophaga . Results of phylogenetic and phylogenomic analyses indicated that they formed a cluster with Chitinophaga eiseniae YC6729T, Chitinophaga qingshengii JN246T, Chitinophaga varians 10-7 W-9003T and Chitinophaga fulva G-6-1-13T. When the genomic sequences of strains 1303T and 1310 were compared with their close relatives, the average nucleotide identity and digital DNA–DNA hybridization values were below the cut-off levels. Phosphatidylethanolamine was the major polar lipid. MK-7 was the major respiratory quinone. iso-C15 : 0, C16 : 1  ω5c, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1  ω7c/C16 : 1  ω6c) were the predominant fatty acids. Differential characteristics between both strains and their close relatives were also observed. Based on the distinctions in genotypic, phenotypic and chemotypic features, strains 1303T and 1310 represent members of a novel species of the genus Chitinophaga , for which the name Chitinophaga oryzae sp. nov. is proposed. The type strain is 1303T (=KACC 22075T=TBRC 12926T).


Author(s):  
Shan Jiang ◽  
Feng-Bai Lian ◽  
You-Yang Sun ◽  
Xiao-Kui Zhang ◽  
Zong-Jun Du

A Gram-stain-negative, rod-shaped and facultatively aerobic bacterial strain, designated F7430T, was isolated from coastal sediment collected at Jingzi Wharf in Weihai, PR China. Cells of strain F7430T were 0.3–0.4 µm wide, 2.0–2.6 µm long, non-flagellated, non-motile and formed pale-beige colonies. Growth was observed at 4–40 °C (optimum, 30 °C), pH 6.0–9.0 (optimum, pH 7.5–8.0) and at NaCl concentrations of 1.0–10.0 % (w/v; optimum, 1.0 %). The sole respiratory quinone of strain F7430T was ubiquinone 8 and the predominant cellular fatty acids were summed feature 8 (C18 : 1  ω7c / C18 : 1  ω6c; 60.7 %), summed feature 3 (C16 : 1  ω7c/C16 : 1  ω6c; 30.2 %) and C15 : 0 iso (13.9 %). The polar lipids of strain F7430T consisted of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, one unidentified phospholipid and three unidentified lipids. Results of 16S rRNA gene sequences analyses indicated that this strain belonged to the family Halieaceae and had high sequence similarities to Parahaliea aestuarii JCM 51547T (95.3 %) and Halioglobus pacificus DSM 27932T (95.2 %) followed by 92.9–95.0 % sequence similarities to other type species within the aforementioned family. The rpoB gene sequences analyses indicated that the novel strain had the highest sequence similarities to Parahaliea aestuarii JCM 51547T (82.2 %) and Parahaliea mediterranea DSM 21924T (82.2 %) followed by 75.2–80.5 % sequence similarities to other type species within this family. Phylogenetic analyses showed that strain F7430T constituted a monophyletic branch clearly separated from the other genera of family Halieaceae . Whole-genome sequencing of strain F7430T revealed a 3.3 Mbp genome size with a DNA G+C content of 52.6 mol%. The genome encoded diverse metabolic pathways including the Entner–Doudoroff pathway, assimilatory sulphate reduction and biosynthesis of dTDP-l-rhamnose. Based on results from the current polyphasic study, strain F7430T is proposed to represent a novel species of a new genus within the family Halieaceae , for which the name Sediminihaliea albiluteola gen. nov., sp. nov. is proposed. The type strain of the type species is F7430T (=KCTC 72873T=MCCC 1H00420T).


2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 886-892 ◽  
Author(s):  
Kun Dong ◽  
Fang Chen ◽  
Yan Du ◽  
Gejiao Wang

A Gram-negative, strictly aerobic, yellow-pigmented rod, designated DK69T, was isolated from soil collected from the waste liquid treatment facility of Bafeng Pharmaceutical Company in the city of Enshi, Hubei Province, China. Phylogenetic analysis based on 16S rRNA gene sequences placed strain DK69T in the genus Flavobacterium of the family Flavobacteriaceae . The highest 16S rRNA gene sequence similarities were found with Flavobacterium cauense R2A-7T (96.9 %), Flavobacterium saliperosum AS 1.3801T (96.3 %) and Flavobacterium suncheonense GH29-5T (95.7 %). The major fatty acids (≥5 %) were iso-C15 : 0, iso-C17 : 1ω9c, C15 : 0, iso-C17 : 0 3-OH and iso-C15 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The major respiratory quinone was menaquinone-6. The genomic DNA G+C content was 34.4 mol%. Strain DK69T represents a novel species of the genus Flavobacterium , for which the name Flavobacterium enshiense sp. nov. is proposed. The type strain is DK69T ( = CCTCC AB 2011144T  = KCTC 23775T). Emended descriptions of the genus Flavobacterium and Flavobacterium cauense , Flavobacterium saliperosum and Flavobacterium suncheonense are also proposed.


Author(s):  
Renju Liu ◽  
Qiliang Lai ◽  
Li Gu ◽  
Peisheng Yan ◽  
Zongze Shao

A novel Gram-stain-negative, aerobic, gliding, rod-shaped and carotenoid-pigmented bacterium, designated A20-9T, was isolated from a microbial consortium of polyethylene terephthalate enriched from a deep-sea sediment sample from the Western Pacific. Growth was observed at salinities of 1–8 %, at pH 6.5–8 and at temperatures of 10–40 °C. The results of phylogenetic analyses based on the genome indicated that A20-9T formed a monophyletic branch affiliated to the family Schleiferiaceae , and the 16S rRNA gene sequences exhibited the maximum sequence similarity of 93.8 % with Owenweeksia hongkongensis DSM 17368T, followed by similarities of 90.4, 90.1 and 88.8 % with Phaeocystidibacter luteus MCCC 1F01079T, Vicingus serpentipes DSM 103558T and Salibacter halophilus MCCC 1K02288T, respectively. Its complete genome size was 4 035 598 bp, the genomic DNA G+C content was 43.2 mol%. Whole genome comparisons indicated that A20-9T and O. hongkongensis DSM 17368T shared 67.8 % average nucleotide identity, 62.7 % average amino acid identity value, 46.6% of conserved proteins and 17.8 % digital DNA–DNA hybridization identity. A20-9T contained MK-7 as the major respiratory quinone. Its major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phospatidylcholine; and the major fatty acids were iso-C15 : 0 (37.5 %), iso-C16 : 0 3-OH (12.4 %), and summed feature 3 (C16 : 1ω7c /C16 : 1ω6c, 11.6 %). Combining the genotypic and phenotypic data, A20-9T could be distinguished from the members of other genera within the family Schleiferiaceae and represents a novel genus, for which the name Croceimicrobium hydrocarbonivorans gen. nov., sp. nov. is proposed. The type strain is A20-9T (=MCCC 1A17358T =KCTC 72878T).


2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 1003-1007 ◽  
Author(s):  
Hao Feng ◽  
Yanhua Zeng ◽  
Yili Huang

A Gram-staining-negative, non-motile, yellow-coloured, rod-shaped bacterium, designated S44T, was isolated from bankside soil of Xixi wetland, located in Zhejiang province, China. Growth of strain S44T was observed at 6–37 °C (optimum, 28 °C) and at pH 6.0–9.0 (optimum, 7.0). No growth occurred in the presence of >2 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain S44T represented a member of the genus Flavobacterium , showing the highest sequence similarities to the sequences from Flavobacterium succinicans DSM 4002T (96.9 %), Flavobacterium reichenbachii WB 3.2-61T (96.6 %) and Flavobacterium glycines NCBI 105008T (96.5 %). The G+C content of the genomic DNA was 33.6 mol%. The predominant cellular fatty acids were C15 : 0, iso-C15 : 0, anteiso-C15 : 0 and summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH), and the major respiratory quinone was menaquinone 6 (MK-6). The major polar lipids were phosphatidylethanolamine, two unknown aminolipids, two unknown aminophospholipids and four unknown polar lipids. On the basis of the phenotypic and genotypic data, it is proposed that the isolate S44T be classified as representing a novel species of the genus Flavobacterium , for which the name Flavobacterium palustre sp. nov. is proposed. The type strain is S44T ( = CGMCC 1.12811T = NBRC 110389T).


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