scholarly journals Novosphingobium ovatum sp. nov., isolated from a freshwater mesocosm

2020 ◽  
Vol 70 (10) ◽  
pp. 5243-5254 ◽  
Author(s):  
Wen-Ming Chen ◽  
Cheng-Ye Cai ◽  
Der-Shyan Sheu ◽  
Jyh-Ming Tsai ◽  
Shih-Yi Sheu
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A bacterial strain, designated FSY-8T, was isolated from a freshwater mesocosm in Taiwan and characterized using the polyphasic taxonomy approach. Cells of strain FSY-8T were aerobic, Gram-stain-negative, rod-shaped, non-motile and formed yellow coloured colonies on Reasoner's 2A agar. Growth occurred at 20–40 °C (optimum, 30–37 °C) and pH 5–7 (optimum, pH 6) and in the presence of 0–0.5 % NaCl (optimum, 0 %, w/v). The major fatty acids (>10 %) of strain FSY-8T were summed feature 8 (C18 : 1  ω7c and/or C18 : 1  ω6c) and summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω6c). The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, sphingoglycolipid, diphosphatidylglycerol, an uncharacterized aminophospholipid, an uncharacterized glycolipid and an uncharacterized lipid. The major polyamine was spermidine. The major isoprenoid quinone was Q-10. The DNA G+C content was 64.8 mol %. Phylogenetic analyses based on 16S rRNA gene sequences and coding sequences of 92 protein clusters indicated that strain FSY-8T formed a phylogenetic lineage in the genus Novosphingobium . Strain FSY-8T showed 71.6–77.2 % average nucleotide identity and 19.9–22.8 % digital DNA–DNA hybridization identity with the strains of other Novosphingobium species. On the basis of phenotypic and genotypic properties and phylogenetic inference, strain FSY-8T should be classified in a novel species of the genus Novosphingobium , for which the name Novosphingobium ovatum sp. nov. is proposed. The type strain is FSY-8T (=BCRC 81051T=LMG 30053T=KCTC 52812T).

scholarly journals Bacillus mesonae sp. nov., isolated from the root of Mesona chinensis

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3346-3352 ◽  
Author(s):  
Bo Liu ◽  
Guo-Hong Liu ◽  
Gui-Hing Hu ◽  
Mei-Chun Chen
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A Gram-stain-positive, short rod-shaped and motile, mildly halotolerant, endospore-forming bacterium, FJAT-13985T, was isolated from the internal tissues of Mesona chinensis root. Strain FJAT-13985T grew at 20–45 °C (optimum 30 °C) and pH 5.7–9.0 (optimum pH 7.0) and in the presence of 0–2 % (w/v) NaCl [optimum 1 % (w/v)]. The strain was catalase-positive and oxidase-negative. The cell wall of strain FJAT-13985T contained meso-diaminopimelic acid and the predominant isoprenoid quinone was MK-7 (97.4 %). The major fatty acids of the strain were anteiso-C15 : 0 (23.3 %) and iso-C15 : 0 (40.8 %). The DNA G+C content was 41.64 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FJAT-13985T is a member of the genus Bacillus and is most closely related to Bacillus drentensis DSM 15600T (98.4 %), Bacillus vireti DSM 15602T (98.2 %) and Bacillus novalis DSM 15603T (98.3 %). DNA–DNA hybridization indicated that relatedness between strain FJAT-13985T and its closest relative, B. drentensis DSM 15600T, was 36.63 %. The phenotypic, chemotaxonomic and genotypic properties clearly indicate that strain FJAT-13985T represents a novel species of the genus Bacillus , for which the name Bacillus mesonae sp. nov. is proposed. The type strain is FJAT-13985T ( = DSM 25968T = CGMCC1.12238T).

scholarly journals Muriicola marianensis sp. nov., isolated from seawater

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 407-411 ◽  
Author(s):  
Jing Hu ◽  
Wei-Yan Zhang ◽  
Xin-Qi Zhang ◽  
Hong-Cheng ◽  
Xu-Fen Zhu ◽  
...  
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A Gram-stain-negative, aerobic, orange-pigmented, rod-shaped and non-motile bacterium, designated strain A6B8T, was isolated from seawater of the Mariana Trench. The isolate grew at 4–50 °C (optimum 30–35 °C), at pH 6.5–8.0 (optimum pH 7.5) and with 0.5–4.0 % (w/v) NaCl (optimum 1.0–2.0 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain A6B8T was related most closely to the genus Muriicola and shared highest sequence similarity of 97.7 % with Muriicola jejuensis EM44T. Chemotaxonomic analysis showed menaquinone 6 (MK-6) was the predominant isoprenoid and iso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH were the major cellular fatty acids. The polar lipid profile of strain A6B8T included phosphatidylethanolamine, three unidentified aminolipids and four unidentified lipids. The genomic DNA G+C content was 47.1 mol%. The DNA–DNA relatedness value (23.3 %) clearly demonstrated that strains A6B8T and M. jejuensis EM44T were representatives of two different species. Based on the phenotypic, phylogenetic and chemotaxonomic characterizations, A6B8T ( = CGMCC 1.12606T = KCTC 32436T) is considered to be the type strain of a novel species of the genus Muriicola , for which the name Muriicola marianensis sp. nov. is proposed.

scholarly journals Solimonas terrae sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1218-1222 ◽  
Author(s):  
Soo-Jin Kim ◽  
Ji-Young Moon ◽  
Hang-Yeon Weon ◽  
Jae-Hyung Ahn ◽  
Wen-Ming Chen ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
Isoprenoid Quinone ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph

A Gram-stain-negative, aerobic, motile, rod-shaped bacterium, designated strain KIS83-12T, was isolated from soil of Gaui island in the Taean region of South Korea. The strain grew at 15–33 °C (optimum, 28 °C), at pH 5.0–8.0 (optimum, pH 7.0). Growth did not occur in the presence of NaCl. The strain was catalase-negative and oxidase-positive. Phylogenetic analysis based on 16S rRNA gene sequences showed that KIS83-12T was most closely related to Solimonas soli DCY12T (96.9 %), Solimonas variicoloris MN28T (96.5 %), Solimonas flava CW-KD 4T (96.5 %) and Solimonas aquatica NAA16T (96.0 %), and formed a robust phyletic lineage with members of the genus Solimonas . The main isoprenoid quinone was Q-8. Major polar lipids included phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Fatty acids present in large and moderate amounts (>5.0 %) were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), C16 : 0, C16 : 1ω5c, summed feature 2 (iso-C16 : 1 I and/or C14 : 0 3-OH) and C12 : 0. The DNA G+C content was 67.9 mol%. On the basis of the taxonomic data obtained in this study, KIS83-12T represents a novel species of the genus Solimonas , for which the name Solimonas terrae sp. nov. is proposed, with KIS83-12T ( = KACC 16967T = DSM 27281T) as the type strain.

Halarchaeum rubridurum sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt samples

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3143-3147 ◽  
Author(s):  
Yuto Yamauchi ◽  
Hiroaki Minegishi ◽  
Akinobu Echigo ◽  
Yasuhiro Shimane ◽  
Masahiro Kamekura ◽  
...  
Keyword(s):  
Type Species ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
The Philippines ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
The 16S Rrna Gene

Six halo-acidophilic archaeal strains were isolated from four commercial salt samples obtained from seawater in the Philippines, Indonesia (Bali) and Japan (Okinawa) on agar plates at pH 4.5. Cells of the six strains were pleomorphic, and stained Gram-negative. Two strains were pink–red pigmented, while four other strains were orange–pink pigmented. Strain MH1-16-3T was able to grow at 9–30 % (w/v) NaCl [with optimum at 18 % (w/v) NaCl], at pH 4.5–6.8 (optimum, pH 5.5) and at 20–50 °C (optimum, 42 °C). The five other strains grew at slightly different ranges. The six strains required at least 1 mM Mg2+ for growth. The 16S rRNA gene sequences of the six strains were almost identical, sharing 99.9 (1–2 nt differences) to 100 % similarity. The closest relatives were Halarchaeum acidiphilum MH1-52-1T and Halarchaeum salinum MH1-34-1T with 97.7 % similarity. The DNA G+C contents of the six strains were 63.2–63.7 mol%. Levels of DNA–DNA relatedness amongst the six strains were 79–86 %, while those between MH1-16-3T and H. acidiphilum MH1-52-1T and H. salinum MH1-34-1T were both 43 and 45 % (reciprocally), respectively. Based on the phenotypic, genotypic and phylogenetic analyses, it is proposed that the six isolates represent a novel species of the genus Halarchaeum , for which the name Halarchaeum rubridurum sp. nov. is proposed. The type strain is MH1-16-3T ( = JCM 16108T = CECT 7535T).

Methylobacterium tarhaniae sp. nov., isolated from arid soil

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2823-2828 ◽  
Author(s):  
Aysel Veyisoglu ◽  
Mustafa Camas ◽  
Demet Tatar ◽  
Kiymet Guven ◽  
Anil Sazak ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Arid Soil ◽  
Link Type ◽  
Hybridization Data

A reddish-orange-pigmented, Gram-stain-negative, aerobic, facultatively methylotrophic strain, N4211T, isolated from arid soil, collected from Abuja, Nigeria, was analysed by using a polyphasic approach. Phylogenetic analysis, based on 16S rRNA gene sequences, showed that strain N4211T belonged to the genus Methylobacterium . Strain N4211T was most closely related to Methylobacterium aquaticum GR16T (98.56 %), Methylobacterium platani PMB02T (97.95 %) and Methylobacterium variabile GR3T (97.2 %), and the phylogenetic similarities to all other species of the genus Methylobacterium with validly published names were less than 97.0 %. The major ubiquinones detected were Q-10. The major fatty acids were summed feature 7 (C18 : 1 cis11/t9/t6). The DNA G+C content was 67.3 mol%. DNA–DNA relatedness of strain N4211T and the most closely related strains M. aquaticum DSM 16371T and M. platani KCTC 12901T were 60.0 and 48.2 %, respectively. On the basis of phenotypic, phylogenetic and DNA–DNA hybridization data, strain N4211T is assigned to a novel species of the genus Methylobacterium for which the name Methylobacterium tarhaniae sp. nov. is proposed. The type strain is N4211T( = KCTC 23615T = DSM 25844T).

Flavobacterium fontis sp. nov., isolated from freshwater

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1653-1657 ◽  
Author(s):  
Jeesun Chun ◽  
Ji Young Kang ◽  
Kwang Yeop Jahng
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Freshwater Pond ◽  
The Family ◽  
The 16S Rrna Gene

A taxonomic study was carried out on a novel bacterial strain, designated MIC3010T, which was isolated from a freshwater pond in Jeonju, Republic of Korea. Cells of the isolate were Gram-stain-negative, rod-shaped and non-motile. Comparison of the 16S rRNA gene sequences indicated that the isolate belonged to the family Flavobacteriaceae , with Flavobacterium haoranii LQY-7T as its closest relative, with a similarity of 94.2 %. The predominant fatty acids of strain MIC3010T were iso-C15 : 1 G, iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipid profile of strain MIC3010T revealed the presence of phosphatidylethanolamine (PE) and one unidentified lipid (L1) as major components. In addition, two aminolipids (AL1, AL2) and one glycolipid were present in small amounts. The DNA G+C content of the strain was 41.0 mol%. The strain contained MK-6 as the major quinone and sym-homospermidine as the predominant polyamine. On the basis of the evidence presented, it is concluded that strain MIC3010T represents a novel species of the genus Flavobacterium , for which the name Flavobacterium fontis sp. nov. is proposed. The type strain is MIC3010T ( = KACC 16593T = JCM 18212T).

scholarly journals Gynuella sunshinyii gen. nov., sp. nov., an antifungal rhizobacterium isolated from a halophyte, Carex scabrifolia Steud

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 1038-1043 ◽  
Author(s):  
Eu Jin Chung ◽  
Jeong Ae Park ◽  
Che Ok Jeon ◽  
Young Ryun Chung
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Cellular Fatty Acids ◽  
Link Type ◽  
Sequence Similarities

An antifungal bacterial strain, designated YC6258T, was isolated from the rhizosphere of a halophyte (Carex scabrifolia Steud.) growing in a tidal flat area of Namhae Island, Korea. Cells of the strain were Gram-stain-negative, facultatively anaerobic, moderately halophilic, rod-shaped and motile by a single polar flagellum. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YC6258T formed a phyletic lineage distinct from members of the most closely related genera, Saccharospirillum and Reinekea, with less than 91.2 % sequence similarities. The major cellular fatty acids were C18 : 1ω7c, C16 : 0 and Summed feature 3 (C16 : 1ω7c/ C16 : 1ω6c). The quinone system of strain YC6258T consisted mainly of ubiquinone Q-8. The polar lipid profile exhibited phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and unknown lipids. The DNA G+C content was 48.9 mol%. Based on the phylogenetic and phenotypic characteristics, strain YC6258T should be classified as a representative of a novel species in a novel genus for which the name Gynuella sunshinyii gen. nov., sp. nov. is proposed. The type strain is YC6258T (KCCM 43015T = NBRC 109345T).

scholarly journals Paenibacillus dongdonensis sp. nov., isolated from rhizospheric soil of Elymus tsukushiensis

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2865-2870 ◽  
Author(s):  
Jin-Soo Son ◽  
Hyun-Uk Kang ◽  
Sa-Youl Ghim
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Rhizospheric Soil ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A Gram-staining-positive, endospore-forming and rod-shaped bacterial strain, designated KUDC0114T, was isolated from rhizospheric soil of Elymus tsukushiensis from Dongdo Island, one of the largest of the Dokdo Islands, South Korea. The strain displayed optimal growth at 37 °C, pH 8.5 in the absence of NaCl. Based on phylogenetic analysis of 16S rRNA gene sequences, strain KUDC0114T represented a member of the genus Paenibacillus and was most closely related to Paenibacillus taichungensis BCRC 17757T (98.46 %). The cell-wall peptidoglycan was A1γ type, and the predominant quinone was menaquinone-7 (MK-7). The major cellular fatty acids were anteiso-C15 : 0 and C16 : 0. The DNA–DNA hybridization of strain KUDC0114T with nine other strains indicated less than 23 % relatedness, and its DNA G+C content was 44.30 mol%. Based on genomic, phenotypic and phylogenetic analyses, KUDC0114T should be classified as representing novel species within the genus Paenibacillus . The name Paenibacillus dongdonensis sp. nov. is proposed. The type strain is KUDC0114T ( = DSM27607T = KCTC33221T).

scholarly journals Enterococcus diestrammenae sp. nov., isolated from the gut of Diestrammena coreana

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4540-4545 ◽  
Author(s):  
Joon Yong Kim ◽  
Na-Ri Shin ◽  
Hong-Kyung Na ◽  
Dong-Wook Hyun ◽  
Tae Woong Whon ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Sequence Analyses ◽  
Content Type ◽  
Link Type

A novel Gram-stain-positive, facultatively anaerobic, non-motile and lactic-acid-producing bacterium, designated strain ORL-24T, was isolated from the gut of the camel cricket, Diestrammena coreana. Optimal growth occurred at 37 °C, pH 8 and with 0 % (w/v) NaCl. The ratio of l-lactate to d-lactate in strain ORL-24T was 96 : 4. Lancefield antigen D was not detected. The strain was negative for oxidase activity and catalase activity. According to a phylogenetic analysis based on 16S rRNA gene sequences, strain ORL-24T was most closely related to the type strain of Enterococcus asini (96.9 % similarity). Comparative pheS and rpoA sequence analyses of strain ORL-24T indicated that the strain belonged to the genus Enterococcus . The major fatty acids were C16 : 0 and C18 : 1ω9c. The DNA G+C content was 41.3 mol%. Based on phenotypic, genotypic and phylogenetic analyses, strain ORL-24T represents a novel species of the genus Enterococcus , for which the name Enterococcus diestrammenae is proposed. The type strain is ORL-24T ( = KACC 16708T = JCM 18359T).

scholarly journals Ornithinicoccus soli sp. nov., isolated from farmland soil

2020 ◽  
Vol 70 (3) ◽  
pp. 1793-1799 ◽  
Author(s):  
Wan-Kui Jiang ◽  
Qin-Qin Gao ◽  
Lu Zhang ◽  
Gao-Jie Sun ◽  
Ming-Liang Zhang ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Farmland Soil ◽  
Diamino Acid

A Gram-stain-positive, aerobic, non-motile and coccoid-shaped bacterium, designated XNB-1T, was isolated from farmland soil in Taian, Shandong province, China. Strain XNB-1T contained iso-C15 : 0 and iso-C16 : 0 as the predominant fatty acids. The diagnostic diamino acid of the peptidoglycan was ornithine, and the interpeptide bridge was l-Orn←Gly(1, 2)←d-Glu. The polar lipid profile of strain XNB-1T consisted of diphosphatidylglycerol, phosphatidylglycerol, an unidentified phosphoglycolipid and three unidentified phospholipids. The predominant menaquinone of strain XNB-1T was MK-8(H4) and the DNA G+C content was 70.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain XNB-1T belonged to the genus Ornithinicoccus , and shared the highest similarity with Ornithinicoccus hortensis HKI 0125T (96.0 %), followed by Ornithinicoccus halotolerans EGI 80423T (95.5 %). Genome-based analysis of average nucleotide identity of strain XNB-1T with O. hortensis HKI 0125T and O. halotolerans EGI 80423T yielded values of 73.1 and 73.3 %, respectively, while the digital DNA–DNA hybridization values were 19.5 and 19.9 %, respectively. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain XNB-1T is considered to represent a novel species of the genus Ornithinicoccus , for which the name Ornithinicoccus soli sp. nov. is proposed. The type strain is XNB-1T (=CCTCC AB 2019099T=KCTC 49259T).

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