Marininema halotolerans sp. nov., a novel thermoactinomycete isolated from a sediment sample, and emended description of the genus Marininema Li et al. 2012

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4562-4567 ◽  
Author(s):  
Xiao-Mei Zhang ◽  
Jie He ◽  
Dao-Feng Zhang ◽  
Wei Chen ◽  
Zhao Jiang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sediment Sample ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

A novel Gram-stain-positive bacterium, designated strain YIM M11385T, was isolated from a marine sediment sample collected from the South Bay, Little Andaman Island, India with a salinity of 35 p.p.m., pH 8.5. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM M11385T belongs to the genus Marininema , supported by a bootstrap value of 100 %. The taxonomic position of this organism was further established by using a polyphasic approach. Strain YIM M11385T grew optimally at 28 °C, pH 7.0 and in the presence of 0–5 % (w/v) NaCl. The 16S rRNA gene sequence similarity between strain YIM M11385T and Marininema mesophilum SCSIO 10219T was 98.3 %. Strain YIM M11385T exhibited a quinone system with only MK-7, the polar lipid profile included diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine as major components, and the major fatty acids were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The level of DNA–DNA relatedness between strain YIM M11385T and M. mesophilum SCSIO 10219T was 59.36 %. On the basis of genotypic and phenotypic data, it is apparent that strain YIM M11385T represents a novel species of the genus Marininema , for which the name Marininema halotolerans sp. nov. is proposed. The type strain is YIM M11385T ( = CCTCC AB 2012052T = DSM 45789T). In addition, we propose that the description of the genus Marininema should be further emended based on the results of the present study.

scholarly journals Prauserella coralliicola sp. nov., isolated from the coral Galaxea fascicularis

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3341-3345 ◽  
Author(s):  
Jia-Fa Wu ◽  
Jie Li ◽  
Zhi-Qing You ◽  
Si Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipid ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Galaxea Fascicularis ◽  
Link Type

A novel Gram-stain-positive actinobacterium, designated strain SCSIO 11529T, was isolated from tissues of the stony coral Galaxea fascicularis, and characterized by using a polyphasic approach. The temperature range for growth was 22–50 °C (optimum 28–45 °C), the pH range for growth was 6.0–8.0 (optimum pH 7.0), and the NaCl concentration range for growth was 0–7 % (w/v) NaCl. The polar lipid profile contained diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine and an unknown polar lipid. The predominant menaquinone was MK-9(H4). The major fatty acids (>10 %) were iso-C16 : 0, iso-C17 : 1ω6c, iso-C16 : 1 H and C16 : 1ω7c/iso-C15 : 0 2-OH. The DNA G+C content of strain SCSIO 11529T was 70.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SCSIO 11529T belongs to the genus Prauserella , with the closest neighbours being Prauserella marina MS498T (97.0 % 16S rRNA gene sequence similarity), Prauserella rugosa DSM 43194T (96.4 %) and Prauserella flava YIM 90630T (95.9 %). Based on the evidence of the present study, strain SCSIO 11529T is considered to represent a novel species of the genus Prauserella , for which the name Prauserella coralliicola sp. nov. is proposed. The type strain is SCSIO 11529T ( = DSM 45821T = NBRC 109418T).

scholarly journals Amycolatopsis rhabdoformis sp. nov., an actinomycete isolated from a tropical forest soil

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1786-1793 ◽  
Author(s):  
Wallace Rafael Souza ◽  
Rafael Eduardo Silva ◽  
Michael Goodfellow ◽  
Kanungnid Busarakam ◽  
Fernanda Sales Figueiro ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Gene Tree ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

Strain SB026T was isolated from Brazilian rainforest soil and its taxonomic position established using data from a polyphasic study. The organism showed a combination of chemotaxonomic and morphological features consistent with its classification in the genus Amycolatopsis and formed a branch in the Amycolatopsis 16S rRNA gene tree together with Amycolatopsis bullii NRRL B-24847T, Amycolatopsis plumensis NRRL B-24324T, Amycolatopsis tolypomycina DSM 44544T and Amycolatopsis vancoresmycina NRRL B-24208T. It was related most closely to A. bullii NRRL B-24847T (99.0 % 16S rRNA gene sequence similarity), but was distinguished from this strain by a low level of DNA–DNA relatedness (~46 %) and discriminatory phenotypic properties. Based on the combined genotypic and phenotypic data, it is proposed that the isolate should be classified in the genus Amycolatopsis as representing a novel species, Amycolatopsis rhabdoformis sp. nov. The type strain is SB026T ( = CBMAI 1694T = CMAA 1285T = NCIMB 14900T).

scholarly journals Aequorivita sinensis sp. nov., isolated from sediment of the East China Sea, and reclassification of Vitellibacter todarodis as Aequorivita todarodis comb. nov. and Vitellibacter aquimaris as Aequorivita aquimaris comb. nov.

2020 ◽  
Vol 70 (5) ◽  
pp. 3323-3327 ◽  
Author(s):  
Qian Wang ◽  
Sheng-Dong Cai ◽  
Jie Liu ◽  
De-Chao Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

The Gram-strain-negative, rod-shaped, facultatively anaerobic, non-motile bacterial strain, designated S1-10T, was isolated from marine sediment. Strain S1-10T grew at 4–42 °C (optimally at 30–35 °C), at pH 7.0–10 (optimally at pH 9) and in the presence of 0.5–8 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S1-10T was related to the genus Aequorivita and had highest 16S rRNA gene sequence similarity to Aequorivita viscosa 8-1bT (97.7%). The predominant cellular fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The main respiratory quinone was menaquinone 6 (MK-6). The genomic DNA G+C content of strain S1-10T was 34.6 mol%. The polar lipid profile of strain S1-10T contained phosphatidylethanolamine, two aminolipids, two glycolipids, one phosphoglycolipid and three unidentified polar lipids. In addition, the maximum values of in silico DNA–DNA hybridization (isDDH) and average nucleotide identity (ANI) between strain S1-10T and A. viscosa CGMCC 1.11023T were 15.4 and 75.7 %, respectively. Combined data from phenotypic, phylogenetic, isDDH and ANI analyses demonstrated that strain S1-10T is the representative of a novel species of the genus Aequorivita , for which we propose the name Aequorivita sinensis sp. nov. (type strain S1-10T=CGMCC 1.12579T=JCM 19789T). We also propose that Vitellibacter todarodis and Vitellibacter aquimaris should be transferred into genus Aequorivita and be named Aequorivita todarodis comb. nov. and Aequorivita aquimaris comb. nov., respectively. The type strain of Aequorivita todarodis comb. nov. is MYP2-2T (= KCTC 62141T= NBRC 113025T) and the type strain of Aequorivita aquimaris comb. nov. is D-24T (=KCTC 42708T=DSM 101732T).

Sphingobium sufflavum sp. nov., isolated from a freshwater lake

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3444-3450 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Yu-Wen Shiau ◽  
Wen-Ming Chen
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Distinct Branch ◽  
The 16S Rrna Gene

A Gram-stain negative, rod-shaped, non-motile, non-spore-forming and aerobic bacterial strain, designated HL-25T, was isolated and characterized in a taxonomic study using a polyphasic approach. Comparative analysis of the 16S rRNA gene sequences showed that the isolate constituted a distinct branch within the genus Sphingobium , showing the highest level of 16S rRNA gene sequence similarity to Sphingobium vulgare HU1-GD12T (96.6 %). The major fatty acids (>10 %) of strain HL-25T were C18 : 1ω7c, C16 : 0, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c) and C18 : 0. The major cellular hydroxy fatty acid was C14 : 0 2-OH. The major isoprenoid quinone was Q-10 and the DNA G+C content was 63.8 mol%. The polar lipid profile consisted of a mixture of sphingoglycolipid, phosphatidylglycerol, phosphatidylethanolamine, phosphatidyldimethylethanolamine, diphosphatidylglycerol, an uncharacterized glycolipid, an uncharacterized aminophospholipid and four uncharacterized phospholipids. The polyamine pattern of strain HL-25T contained spermidine and putrescine. On the basis of these genotypic, chemotaxonomic and phenotypic data, strain HL-25T represents a novel species in the genus Sphingobium , for which the name Sphingobium sufflavum sp. nov. is proposed. The type strain is HL-25T ( = BCRC 80413T = KCTC 23953T).

Parvularcula dongshanensis sp. nov., isolated from soft coral

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2114-2117 ◽  
Author(s):  
Zhiwei Yu ◽  
Qiliang Lai ◽  
Guizhen Li ◽  
Zongze Shao
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Soft Coral ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

A taxonomic study was carried out on strain SH25T, which was isolated from soft coral collected from Dongshan Island, China. The isolate was a heterotrophic organism to the soft coral, and was a Gram-reaction-negative, short rod that was motile by a polar flagellum. Growth was observed at salinities from 0 to 12 % and at temperatures from 10 to 41 °C. It was unable to reduce nitrate to nitrite. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SH25T belonged to the genus Parvularcula , with highest sequence similarity to Parvularcula lutaonensis CC-MMS-1T (96.1 %) and Parvularcula bermudensis HTCC2503T (94.3 %); 16S rRNA gene sequence similarities to other taxa were below 90.0 %. The dominant fatty acids were C16 : 0 and summed feature 8 (C18 : 1ω7c/ω6c,). The G+C content of the chromosomal DNA was 61.8 mol%. The major quinone was Q10. These combined genotypic and phenotypic data show that strain SH25T represents a novel species of the genus Parvularcula , for which the name Parvularcula dongshanensis sp. nov. is proposed. The type strain is SH25T ( = CCTCC AB 2010355T = LMG 26158T = MCCC 1A06534T).

scholarly journals Oleiharenicola lentus sp. nov., isolated from irrigation water

2020 ◽  
Vol 70 (5) ◽  
pp. 3440-3448 ◽  
Author(s):  
Wen-Ming Chen ◽  
Tzu-Ying Chen ◽  
Che-Chia Yang ◽  
Shih-Yi Sheu
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Irrigation Water ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

Bacterial strain TWA-58T, isolated from irrigation water in Taiwan, was characterized using a polyphasic taxonomy approach. Phylogenetic analyses based on 16S rRNA gene sequences and coding sequences of 92 protein clusters indicated that strain TWA-58T formed a phylogenetic lineage in the genus Oleiharenicola of the family Opitutaceae . Strain TWA-58T was most closely related to Oleiharenicola alkalitolerans NVTT with a 96.7 % 16S rRNA gene sequence similarity. Strain TWA-58T showed 75.2 % average nucleotide identity, 70.9 % average amino acid identity and 21.0 % digital DNA–DNA hybridization identity with O. alkalitolerans NVTT. Cells were Gram-stain-negative, aerobic, motile, coccoid-shaped and formed transparent colonies. Optimal growth occurred at 25 °C, pH 6, and 0 % NaCl. The major fatty acids of strain TWA-58T were iso-C15 : 0 and anteiso-C15 : 0. The predominant hydroxy fatty acid was iso-C13 : 0 3-OH. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and two unidentified aminophospholipids. The major isoprenoid quinone was MK-7. Genomic DNA G+C content of strain TWA-58T was 65.3 mol%. On the basis of phenotypic and genotypic properties and phylogenetic inference, strain TWA-58T should be classified in a novel species of the genus Oleiharenicola , for which the name Oleiharenicola lentus sp. nov. is proposed. The type strain is TWA-58T (=BCRC 81161T=LMG 31019T=KCTC 62872T).

Rothia endophytica sp. nov., an actinobacterium isolated from Dysophylla stellata (Lour.) Benth

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 3964-3969 ◽  
Author(s):  
Zi-Jun Xiong ◽  
Jin-Li Zhang ◽  
Dao-Feng Zhang ◽  
Zhi-Li Zhou ◽  
Min-Jiao Liu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Endophytic Actinobacterium

A novel endophytic actinobacterium, designated strain YIM 67072T, was isolated from healthy roots of Dysophylla stellata (Lour.) Benth. Cells of this aerobic, cream–yellow-coloured strain occurred singly, in pairs or in tetrads, were Gram-stain-positive and ovoid- to spherical-shaped. Strain YIM 67072T grew at 4–45 °C, pH 5.0–10.0 and in the presence of 0–7 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 67072T belonged to the genus Rothia . The isolate contained MK-7 as the major component of the quinone system. The peptidoglycan type was A3α. The polar lipid profile consisted predominantly of diphosphatidylglycerol and glycolipids. The major fatty acids were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The DNA G+C content was 53.2 mol%. However, strain YIM 67072T differed from its closest relatives Rothia nasimurium CCUG 35957T (98.5 % 16S rRNA gene sequence similarity), Rothia amarae JCM 11375T (97.6 %) and Rothia terrae L-143T (97.3 %) in many phenotypic characteristics. Moreover, the levels of DNA–DNA relatedness between the novel isolate and the three above-mentioned type strains were 28.7±1.3 %, 36.5±1.2 %, 46.8±1.5 %, respectively. Based on comparative analysis of physiological and chemotaxonomic data, strain YIM 67072T represents a novel species of the genus Rothia , for which the name Rothia endophytica sp. nov. is proposed. The type strain is YIM 67072T ( = DSM 26247T = JCM 18541T).

scholarly journals Candidimonas bauzanensis sp. nov., isolated from soil, and emended description of the genus Candidimonas Vaz-Moreira et al. 2011

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2084-2089 ◽  
Author(s):  
De-Chao Zhang ◽  
Hans-Jürgen Busse ◽  
Cornelia Wieser ◽  
Hong-Can Liu ◽  
Yu-Guang Zhou ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Minor Amount ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
A Minor

A Gram-negative, facultatively anaerobic, psychrophilic, motile rod, designated BZ59T, was isolated from hydrocarbon-contaminated soil. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain BZ59T belonged to the genus Candidimonas and had highest 16S rRNA gene sequence similarity with Candidimonas nitroreducens SC-089T (97.7 %) and Candidimonas humi SC-092T (97.6 %). The ubiquinone was Q-8 and the major fatty acids were C16 : 0, C17 : 0 cyclo and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH). The polar lipid profile contained the major compounds phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmonomethylethanolamine and diphosphatidylglycerol. The major polyamines were putrescine and spermidine; a minor amount of 2-hydroxyputrescine was present. The DNA G+C content of strain BZ59T was 61.6 mol%. Combined data from phenotypic, phylogenetic and DNA–DNA relatedness studies demonstrated that strain BZ59T represents a novel species of the genus Candidimonas , for which the name Candidimonas bauzanensis sp. nov. is proposed. The type strain is BZ59T ( = DSM 22805T = LMG 26046T = CGMCC 1.10190T). The description of the genus Candidimonas is emended.

Roseomonas aerophila sp. nov., isolated from air

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2334-2337 ◽  
Author(s):  
Soo-Jin Kim ◽  
Hang-Yeon Weon ◽  
Jae-Hyung Ahn ◽  
Seung-Beom Hong ◽  
Soon-Ja Seok ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
16S Rna

An aerobic, Gram-stain-negative, motile, mesophilic bacterium, designated strain 7515T-07T, was isolated from an air sample in the Taean region, Republic of Korea. The strain grew at 4–40 °C (optimum, 30 °C) and pH 5.0–9.0 (optimum, pH 7.0). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain 7515T-07T was related to members of the genus Roseomonas and had highest 16S rRNA gene sequence similarity with Roseomonas ludipueritiae 170/96T (96.7 %). 16S RNA gene sequence similarity between strain 7515T-07T and Roseomonas gilardii ATCC 49956T (the type species of the genus Roseomonas ) was 93.4 %. Strain 7515T-07T contained Q-10 as the ubiquinone and C18 : 1ω7c and C19 : 0 cyclo ω8c as the dominant fatty acids (>10 %). The polar lipid profile contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and two unidentified aminolipids. The DNA G+C content was 73.0 mol%. Combined data from phenotypic, phylogenetic and chemotaxonomic studies demonstrated that strain 7515T-07T is a representative of a novel species of the genus Roseomonas , for which the name Roseomonas aerophila sp. nov. is proposed. The type strain is 7515T-07T ( = KACC 16529T = NBRC 108923T).

Chitinophaga jiangningensis sp. nov., a mineral-weathering bacterium

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 260-265 ◽  
Author(s):  
Qi Wang ◽  
Cheng Cheng ◽  
Lin-Yan He ◽  
Zhi Huang ◽  
Xia-Fang Sheng
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Mineral Weathering ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, rod-shaped bacterial strain, JN53T, was isolated from the surfaces of weathered rock (potassic trachyte) from Nanjing, Jiangsu Province, PR China. Strain JN53T grew optimally at 30 °C, pH 7.0. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain JN53T belonged to the genus Chitinophaga in the family Chitinophagaceae . It was most closely related to Chitinophaga terrae KP01T (97.3 % 16S rRNA gene sequence similarity), Chitinophaga eiseniae YC6729T (96.3 %). Strain JN53T contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The main fatty acids of strain JN53T were iso-C15 : 0, C16 : 1ω5c, C16 : 1ω7c and/or C16 : 1ω6c (summed feature 3), iso-C17 : 0 3-OH, C16 : 0, iso-C15 : 0 3-OH and C16 : 0 3-OH. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain JN53T was 49.7 mol%. The low level of DNA–DNA relatedness to other species of the genus Chitinophaga and the many phenotypic properties that distinguished strain JN53T from recognized species of this genus demonstrated that isolate JN53T should be classified as representing a novel species of the genus Chitinophaga , for which the name Chitinophaga jiangningensis sp. nov. is proposed. The type strain is JN53T ( = CCTCC AB 2013166T = JCM 19354T).

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