scholarly journals Description of Symbiobacterium ostreiconchae sp. nov., Symbiobacterium turbinis sp. nov. and Symbiobacterium terraclitae sp. nov., isolated from shellfish, emended description of the genus Symbiobacterium and proposal of Symbiobacteriaceae fam. nov.

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3375-3383 ◽  
Author(s):  
Hatsumi Shiratori-Takano ◽  
Kae Akita ◽  
Kazune Yamada ◽  
Takashi Itoh ◽  
Takafumi Sugihara ◽  
...  
Keyword(s):  
Type Strain ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Low Frequencies ◽  
Content Type ◽  
Content Sharing ◽  
Link Type ◽  
The Pacific ◽  
Emended Description ◽  
Sequence Similarities

Three novel moderately anaerobic, thermophilic, rod-shaped bacterial strains, KY38T, KY46T and KA13T, were isolated from shellfish collected on the Pacific coastline of Enoshima, Japan. Phylogenetic analysis of the 16S rRNA gene sequences indicated that these bacteria belong to the genus Symbiobacterium , sharing sequence similarities of 97.8 % (KY38T), 96.4 % (KY46T) and 93.3 % (KA13T) with the type strain of Symbiobacterium thermophilum , the only species of the genus with a validly published name. These isolates reduced nitrate and grew optimally at 55–60 °C. Strains KY38T and KA13T formed endospore-like structures in the terminal or subterminal part of their cells at low frequencies. Genomic DNA G+C contents were 68.8 (KY38T), 67.2 (KY46T) and 67.1 (KA13T) mol%. The isolates all presented the predominant menaquinone MK-6, major fatty acids iso-C15 : 0, C16 : 0 and iso-C17 : 0 and the major polar lipids phosphatidylglycerol, phosphatidylethanolamine and unknown glycol-containing phospholipids. On the basis of their morphological, physiological and phylogenetic properties, strains KY38T, KY46T and KA13T represent three novel species, for which the names Symbiobacterium ostreiconchae sp. nov. (type strain KY38T = DSM 27624T = KCTC 4567T = JCM 15048T), Symbiobacterium turbinis sp. nov. (type strain KY46T = DSM 27625T = KCTC 4568T = JCM 15996T) and Symbiobacterium terraclitae sp. nov. (type strain KA13T = DSM 27138T = KCTC 4569T = JCM 15997T) are proposed. An emended description of the genus Symbiobacterium is also presented. The phylogenetic distinctiveness of the genus Symbiobacterium indicates its affiliation with a novel family, for which the name Symbiobacteriaceae fam. nov. is proposed.

Albimonas pacifica sp. nov., isolated from seawater of the Pacific, and emended description of the genus Albimonas

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3597-3601 ◽  
Author(s):  
Guo-Wei Li ◽  
Xi-Ying Zhang ◽  
Chun-Sheng Wang ◽  
Yan-Jiao Zhang ◽  
Xue-Wei Xu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Pacific ◽  
Emended Description

A Gram-stain-negative, aerobic, catalase- and oxidase-positive, non-flagellated, rod-shaped bacterium, designated strain P-50-3T, was isolated from seawater of the Pacific. The strain grew at 10–40 °C (optimum at 30 °C) and with 0–12 % (w/v, optimum 2 %) NaCl. It reduced nitrate to nitrite but did not hydrolyse gelatin, starch or Tween 80. Analysis of 16S rRNA gene sequences showed that strain P-50-3T clustered tightly with the genus Albimonas and shared the highest 16S rRNA gene sequence similarity (94.3 %) with the type strain of Albimonas donghaensis . The major respiratory quinone was Q-10 and the major cellular fatty acids were C18 : 1ω7c, C18 : 0, 11-methyl C18 : 1ω7c and C16 : 0. Polar lipids included phosphatidylglycerol (PG), phosphatidylcholine (PC), two unidentified aminolipids and an unidentified lipid. The genomic DNA G+C content of strain P-50-3T was 69.0 mol%. On the basis of the data obtained in this polyphasic study, strain P-50-3T represents a novel species within the genus Albimonas , for which the name Albimonas pacifica sp. nov. is proposed. The type strain of Albimonas pacifica is P-50-3T ( = KACC 16527T = CGMCC 1.11030T). An emended description of the genus Albimonas Lim et al. 2008 is also proposed.

scholarly journals Aneurinibacillus soli sp. nov., isolated from mountain soil

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3792-3797 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Mi Kyung Eom ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Content Sharing ◽  
Link Type ◽  
Emended Description ◽  
Aneurinibacillus Aneurinilyticus ◽  
Sequence Similarities

A novel bacterial strain designated CB4T was isolated from soil from the Hallasan, Jeju, Korea. Strain CB4T was found to be strictly aerobic, Gram-stain-positive, rod-shaped, motile and formed creamy greyish colonies on nutrient agar. The major fatty acids were identified as iso-C15 : 0 and iso-C16 : 0, and the predominant isoprenoid quinone as MK-7. The cell-wall peptidoglycan contained glycine and alanine as the diagnostic amino acids and phosphatidyl-N-methylethanolamine, phosphatidylethanolamine, diphosphatidylglycerol and an unidentified aminophospholipid as the polar lipids. The genomic DNA G+C content of strain CB4T was 46.5 mol%. Phylogenetic analysis, based on 16S rRNA gene sequence similarities, showed that strain CB4T forms a deep branch within the genus Aneurinibacillus , sharing the highest level of sequence homology with Aneurinibacillus aneurinilyticus DSM 5562T (96.5 %). On the basis of the phenotypic, chemotaxonomic and phylogenetic characteristics, strain CB4T is considered to represent a novel species within the genus Aneurinibacillus , for which the name Aneurinibacillus soli sp. nov. is proposed. The type strain is CB4T ( = KCTC 33505T = CECT 8566T). An emended description of the genus Aneurinibacillus is also proposed.

Algibacter agarivorans sp. nov. and Algibacter agarilyticus sp. nov., isolated from seawater, reclassification of Marinivirga aestuarii as Algibacter aestuarii comb. nov. and emended description of the genus Algibacter

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3494-3500 ◽  
Author(s):  
Seong Chan Park ◽  
Yeoung Min Hwang ◽  
Ji Hee Lee ◽  
Keun Sik Baik ◽  
Chi Nam Seong
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Emended Description ◽  
The Common ◽  
Gwangyang Bay

Two yellow-pigmented, rod-shaped, non-motile, Gram-reaction-negative and aerobic bacterial strains, designated KYW560T and KYW563T, were isolated from seawater collected from Gwangyang Bay, Republic of Korea. The isolates required sea salts for growth. Flexirubin-type pigments were absent. The common major cellular fatty acids (>5 % of total) of the two strains were C16 : 0, C18 : 0, iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c). Strain KYW560T also contained iso-C15 : 0 3-OH and C20 : 1ω9c as major fatty acids. The main polar lipids were phosphatidylethanolamine, an unidentified aminolipid and two unidentified lipids. The predominant isoprenoid quinone was MK-6. The DNA G+C contents of strains KYW560T and KYW563T were 41.0±0.7 and 38.3±0.4 mol% (mean±sd of three determinations), respectively. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolates belonged to the family Flavobacteriaceae , and were related to the genus Algibacter . Based on data from this taxonomic study using a polyphasic approach, it is proposed that the isolates represent novel species of the genus Algibacter , for which the names Algibacter agarivorans sp. nov. (type strain, KYW560T = KCTC 23855T = JCM 18285T) and Algibacter agarilyticus sp. nov. (type strain, KYW563T = KCTC 23857T = JCM 18275T) are proposed. Reclassification of Marinivirga aestuarii as Algibacter aestuarii comb. nov. and emended description of the genus Algibacter are also proposed.

scholarly journals Marinomonas mangrovi sp. nov., isolated from mangrove sediment

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1537-1541 ◽  
Author(s):  
De-Chao Zhang ◽  
Rosa Margesin
Keyword(s):  
Phylogenetic Analysis ◽  
Type Species ◽  
Mangrove Sediment ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Content Sharing ◽  
Link Type ◽  
Curved Rods ◽  
Sequence Similarities

A Gram-stain-negative, Na+-requiring bacterial strain, designated B20-1T, was isolated from soil of the root system of mangrove forest. Cells were curved rods and motile by means of a polar flagellum. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B20-1T belonged to the genus Marinomonas , sharing highest sequence similarities with Marinomonas rhizomae IVIA-Po-145T (97.6 %), Marinomonas dokdonensis DSW10-10T (97.0 %) and Marinomonas foliarum IVIA-Po-155T (96.9 %). The predominant cellular fatty acids of strain B20-1T were C10 : 0 3-OH, C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C16 : 0. Phosphatidylethanolamine and phosphatidylglycerol were identified as the predominant phospholipids. The predominant ubiquinone was Q-8. The genomic DNA G+C content of strain B20-1T was 46.6 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness, a novel species, Marinomonas mangrovi sp. nov., is proposed with B20-1T ( = DSM 28136T = LMG 28077T) as the type strain.

Bowmanella yangjiangensis sp. nov. and Amphritea pacifica sp. nov., isolated from mariculture fishponds in China

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Zhipeng Cai ◽  
Huibin Lu ◽  
Youfeng Qian ◽  
Letian Chen ◽  
Meiying Xu
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Sequence ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Sequence Similarities

Four Gram-stain-negative, catalase- and oxidase-positive, rod-shaped and motile strains (Y26, Y57T, ZJ14WT and RP18W) were isolated from mariculture fishponds in PR China. Comparisons based on 16S rRNA gene sequences showed that strains Y26 and Y57T share 16S rRNA gene sequence similarities in the range of 95.1−98.5 % with species of the genus Bowmanella , and strains ZJ14WT and RP18W share 16S rRNA gene sequence similarities in the range of 96.7 −98.8 % with species of the genus Amphritea , respectively. The genome sizes of strains Y26, Y57T, ZJ14WT and RP18W were about 4.85, 5.40, 4.70 and 4.70 Mbp with 49.5, 51.7, 51.2 and 51.3 mol% G+C content, respectively. The calculated pairwise OrthoANIu values among strains Y26, Y57T and species of the genus Bowmanella were in the range of 72.6−83.1 %, but the value between strains Y26 and Y57T was 96.2 %. The pairwise OrthoANIu values among strains ZJ14WT, RP18W and other species of the genus Amphritea were all less than 93.9 %, but the value between strains ZJ14WT and RP18W was 99.3 %. Q-8 was the major respiratory quinone of strains Y26, Y57T, ZJ14WT and RP18W, and the major fatty acids of these strains were all C16 : 1 ω7c, C16 : 0 and C18 : 1 ω7c. The predominant polar lipids of strains Y26 and Y57T included phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and phosphatidylinositol, but strains ZJ14WT and RP18W only contained phosphatidylethanolamine and phosphatidylglycerol. Combining phenotypic, biochemical and genotypic characteristics, strains Y26 and Y57T should belong to the same species and represent a novel member of the genus Bowmanella , and strains ZJ14WT and RP18W should belong to the same species and represent a novel member of the genus Amphritea , for which the names Bowmanella yangjiangensis sp. nov. (type strain Y57T=GDMCC 1.2180T=KCTC 82439T) and Amphritea pacifica sp. nov. (type strain ZJ14WT=GDMCC 1.2203T=KCTC 82438T) are proposed.

scholarly journals Reclassification of Ruminococcus obeum as Blautia obeum comb. nov.

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 789-793 ◽  
Author(s):  
Paul A. Lawson ◽  
Sydney M. Finegold
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Gene Sequence ◽  
Culture Collection ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Strain Number ◽  
Sequence Similarities

During our previous studies we reclassified Clostridium coccoides and a number of misclassified ruminococci into a novel genus Blautia within the family Lachnospiraceae . However, the Rules of the Bacteriological Code currently require that the types of all species and subspecies with new names (including new combinations) be deposited in two different collections in two different countries. The type strain of Ruminococcus obeum was, at that period in time, only deposited in the American Type Culture Collection (ATCC) and a second independent deposit, as required by the Code, was not available. Consequently, the transfer of this species to the genus Blautia could not be made, because the resulting species name would not conform to the Rules governing the valid publication of species names and deposit of type material (Rules 27 and 30) and consequently would not be considered to be validly published. This resulted in a nomenclatural and taxonomic anomaly with R. obeum being phylogenetically placed among members of the genus Blautia with 16S rRNA gene sequence similarities of between 91.8 and 96.6 %. In order to rectify this unsatisfactory situation, through our discussions with the ATCC, the deposit of strain R. obeum ATCC 29174T to the DSMZ as strain number DSM 25238T was completed. Hence, the transfer of R. obeum to the genus Blautia as Blautia obeum comb. nov. is now proposed. The type strain is ATCC 29174T ( = DSM 25238T = KCTC 15206T).

scholarly journals Description of Anaerobaculum hydrogeniformans sp. nov., an anaerobe that produces hydrogen from glucose, and emended description of the genus Anaerobaculum

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 832-838 ◽  
Author(s):  
Matthew W. Maune ◽  
Ralph S. Tanner
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Moderately Thermophilic ◽  
Link Type ◽  
Production Water ◽  
Emended Description ◽  
Casamino Acids

A novel anaerobic, moderately thermophilic, NaCl-requiring fermentative bacterium, strain OS1T, was isolated from oil production water collected from Alaska, USA. Cells were Gram-negative, non-motile, non-spore-forming rods (1.7–2.7 × 0.4–0.5 µm). The G+C content of the genomic DNA of strain OS1T was 46.6 mol%. The optimum temperature, pH and NaCl concentration for growth of strain OS1T were 55 °C, pH 7 and 10 g l−1, respectively. The bacterium fermented d-fructose, d-glucose, maltose, d-mannose, α-ketoglutarate, l-glutamate, malonate, pyruvate, l-tartrate, l-asparagine, Casamino acids, l-cysteine, l-histidine, l-leucine, l-phenylalanine, l-serine, l-threonine, l-valine, inositol, inulin, tryptone and yeast extract. When grown on d-glucose, 3.86 mol hydrogen and 1.4 mol acetate were produced per mol substrate. Thiosulfate, sulfur and l-cystine were reduced to sulfide, and crotonate was reduced to butyrate with glucose as the electron donor. 16S rRNA gene sequence analysis indicated that strain OS1T was related to Anaerobaculum thermoterrenum (99.7 % similarity to the type strain), a member of the phylum Synergistetes . DNA–DNA hybridization between strain OS1T and A. thermoterrenum DSM 13490T yielded 68 % relatedness. Unlike A. thermoterrenum , strain OS1T fermented malonate, maltose, tryptone, l-leucine and l-phenylalanine, but not citrate, fumarate, lactate, l-malate, glycerol, pectin or starch. The major cellular fatty acid of strain OS1T was iso-C15 : 0 (91 % of the total). Strain OS1T also contained iso-C13 : 0 3-OH (3 %), which was absent from A. thermoterrenum , and iso-C13 : 0 (2 %), which was absent from Anaerobaculum mobile . On the basis of these results, strain OS1T represents a novel species of the genus Anaerobaculum , for which the name Anaerobaculum hydrogeniformans sp. nov. is proposed. The type strain is OS1T ( = DSM 22491T  = ATCC BAA-1850T). An emended description of the genus Anaerobaculum is also given.

scholarly journals Gilvimarinus polysaccharolyticus sp. nov., an agar-digesting bacterium isolated from seaweed, and emended description of the genus Gilvimarinus

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 562-569 ◽  
Author(s):  
Hong Cheng ◽  
Shun Zhang ◽  
Ying-Yi Huo ◽  
Xia-Wei Jiang ◽  
Xin-Qi Zhang ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Emended Description ◽  
Hydrolysis Of ◽  
Sequence Similarities

A taxonomic study was carried out on strain YN3T, which was isolated from a seaweed sample taken from the coast of Weihai, China. The bacterium was Gram-stain-negative, rod-shaped, and could grow at pH 5.0–10.0 and 4–32 °C in the presence of 0–9.0 % (w/v) NaCl. Strain YN3T was positive for the hydrolysis of polysaccharides, such as agar, starch and xylan. The predominant respiratory quinone was ubiquinone-8. The major fatty acids were C16 : 1ω7c and/or iso-C15 : 0 2-OH, C16 : 0 and C18 : 1ω7c. The main polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine, and two unidentified glycolipids. The genomic DNA G+C content was 49.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YN3T should be assigned to the genus Gilvimarinus . ‘Gilvimarinus agarilyticus’ KCTC 23325 and Gilvimarinus chinensis QM42T had the closest phylogenetic relationship to strain YN3T, and showed 97.9 % and 95.8 % sequence similarities, respectively. On the basis of phenotypic, chemotaxonomic and genotypic data and DNA–DNA hybridization studies, we propose that strain YN3T represents a novel species of the genus Gilvimarinus , for which the name Gilvimarinus polysaccharolyticus sp. nov. is proposed. The type strain is YN3T ( = KCTC 32438T = JCM 19198T). An emended description of the genus Gilvimarinus is also presented.

scholarly journals Phytohabitans flavus sp. nov., Phytohabitans rumicis sp. nov. and Phytohabitans houttuyneae sp. nov., isolated from plant roots, and emended description of the genus Phytohabitans

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2717-2723 ◽  
Author(s):  
Yuki Inahashi ◽  
Atsuko Matsumoto ◽  
Satoshi Ōmura ◽  
Yōko Takahashi
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Houttuynia Cordata ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Emended Description ◽  
Actinomycete Strain ◽  
Kanagawa Prefecture

An actinomycete strain, designated K09-0627T, was isolated from the roots of an orchid collected in Okinawa Prefecture, Japan. Two actinomycete strains K11-0047T and K11-0057T were isolated from the roots of Rumex acetosa and Houttuynia cordata collected in Kanagawa Prefecture, Japan. 16S rRNA gene sequence analyses indicated that the isolates belonged to the genus Phytohabitans, and that they were closely related to each other and to Phytohabitans suffuscus K07-0523T. The DNA–DNA relatedness values between the three isolates and Phytohabitans suffuscus were below 70 %. On the basis of phylogenetic analysis, DNA–DNA relatedness values and phenotypic characteristics, the strains should be classified as novel species in the genus Phytohabitans , for which the names Phytohabitans flavus sp. nov. (type strain, K09-0627T = JCM 17387T = NBRC 107702T = DSM 45551T), Phytohabitans rumicis sp. nov. (type strain, K11-0047T = JCM 17829T = NBRC 108638T = BCC 48146T) and Phytohabitans houttuyneae sp. nov. (type strain, K11-0057T = JCM 17830T = NBRC 108639T = BCC 48147T) are proposed.

scholarly journals Gryllotalpicola reticulitermitis sp. nov., isolated from a termite gut

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 85-89 ◽  
Author(s):  
Hao Fang ◽  
Wanyu Lv ◽  
Zhou Huang ◽  
Shuang-Jiang Liu ◽  
Hong Yang
Keyword(s):  
Type Strain ◽  
Phylogenetic Analyses ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Light Yellow ◽  
The Family ◽  
Sequence Similarities

Strain TS-56T was isolated from the gut of a wood-feeding termite, Reticulitermes chinensis Snyder. Phylogenetic analyses based on 16S rRNA gene sequences revealed that the strain represented a member of the genus Gryllotalpicola of the family Microbacteriaceae , with sequence similarities to other species of the genus ranging from 96.6 % to 97.8 %. The isolate was Gram-stain-positive, non-motile, with light yellow colonies and irregular short rod-shaped cells (0.4–0.6 µm in diameter, 0.6–1.0 µm in length). Growth of TS-56T occurred at 20–35 °C (optimum, 30 °C) and at pH 4.0–8.0 (optimum, pH 5.0). The peptidoglycan of TS-56T contained ornithine, glutamic acid, alanine, homoserine and glycine. The acyl type was acetyl. The most abundant cellular fatty acid of TS-56T was cyclohexyl-C17 : 0 (88.79 %). The respiratory menaquinone was MK-11. The polar lipid profile contained disphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylinositol and two unknown glycolipids. DNA of the type strain had a G+C content of 67.4 mol%. On the basis of the phylogenetic properties and phenotypic distinctiveness, TS-56T represents a novel species of the genus Gryllotalpicola , for which the name Gryllotalpicola reticulitermitis sp. nov. is proposed. The type strain is TS-56T ( = CGMCC 1.10363T = NBRC 109838T).

Sign in / Sign up

Export Citation Format

Share Document