Seleniivibrio woodruffii gen. nov., sp. nov., a selenate- and arsenate-respiring bacterium in the Deferribacteraceae

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3659-3665 ◽  
Author(s):  
Ines Rauschenbach ◽  
Valeriya Posternak ◽  
Pasquale Cantarella ◽  
Jennifer McConnell ◽  
Valentin Starovoytov ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Optimum Growth Temperature ◽  
Link Type ◽  
Fermentative Growth ◽  
Novel Genus And Species

A Gram-type-negative, obligately anaerobic, selenate-respiring bacterium, strain S4T, was isolated from activated sludge of a wastewater treatment plant in New Jersey after enrichment with 10 mM selenate as the sole electron acceptor. In addition to its selenate-respiring capability, strain S4T also respired arsenate with acetate as carbon source and electron donor. Fermentative growth was not observed. The optimum growth temperature was 37 °C and optimum pH was pH 7. Phylogenetic analysis of the 16S rRNA gene sequence revealed that strain S4T is a novel member of the family Deferribacteraceae , with the type strain of Denitrovibrio acetiphilus as its closest cultivated relative, with 91.5 % sequence similarity. The cellular fatty acid profile was composed predominantly of straight-chain fatty acids C14 : 0, C15 : 0, C16 : 0, C17 : 0 and C18 : 0, which distinguishes this organism from its closest relatives. The DNA G+C content was 47.7 mol%. Together, these findings support the conclusion that strain S4T represents a novel genus and species, for which the name Seleniivibrio woodruffii gen. nov., sp. nov. is proposed. The type strain of Seleniivibrio woodruffii is S4T ( = DSM 24984T = ATCC BAA-2290T).

scholarly journals Amylibacter marinus gen. nov., sp. nov., isolated from surface seawater

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4016-4020 ◽  
Author(s):  
Maki Teramoto ◽  
Miyuki Nishijima
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Surface Seawater ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species

A Gram-stain-negative, non-motile, mesophilic, aerobic, rod-shaped bacterium, designated strain 2-3T, was isolated from surface seawater at Muroto city, Kochi prefecture, Japan. This strain grew well with starch. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Rhodobacteraceae and that the strain was related most closely to the genus Pacificibacter (94.0 % sequence similarity to the type strain). The DNA G+C content was 52.4 mol%. The major fatty acids were C18 : 1ω7c, C14 : 0 and C16 : 0. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, one unidentified lipid, one unidentified aminolipid and one unidentified phospholipid. The major isoprenoid quinone was Q-10. Strain 2-3T did not grow at 4 or 35 °C, while the type strain of the type species of the genus Pacificibacter grows at both temperatures. From the taxonomic data obtained in this study, it is proposed that strain 2-3T be placed into a novel genus and species named Amylibacter marinus gen. nov., sp. nov. in the family Rhodobacteraceae . The type strain of Amylibacter marinus is 2-3T ( = NBRC 110140T = LMG 28364T).

Novisyntrophococcus fermenticellae gen. nov., sp. nov., isolated from an anaerobic fermentation cellar of Chinese strong-flavour baijiu

2021 ◽  
Vol 71 (9) ◽  
Author(s):  
Li-Juan Chai ◽  
Guan-Yu Fang ◽  
Peng-Xiang Xu ◽  
Xiao-Juan Zhang ◽  
Zhen-Ming Lu ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Anaerobic Fermentation ◽  
Sequence Similarity ◽  
Amino Acid Identity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species

A Gram-stain-negative, coccus-shaped, obligately anaerobic, non-motile and non-spore-forming bacterium, designated strain JN500902T, was isolated from the mud in a fermentation cellar used continuously over 30 years for Chinese strong-flavour baijiu production. Colonies were white, circular, convex and smooth-edged. Growth was observed at 20–40 °C (optimum, 37 °C), at pH 5.0–10 (optimum, pH 7.5), with 0–2 % (w/v) NaCl and with 0–4 % (v/v) ethanol. The Biolog assay demonstrated positive reactions of strain JN500902T in the metabolism of l-fucose and pyruvate. The predominant cellular fatty acids (>10 %) consisted of C16 : 0 and C14 : 0. The major end metabolites of strain JN500902T were acetic acid and ethanol when incubated anaerobically in liquid reinforced clostridial medium. Acetate was the major organic acid end product. The complete genome size of strain JN500902T was 3 420 321 bp with 3327 identified genes. The G+C content was 43.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequences affiliated strain JN500902T with the family Lachnospiraceae , having low sequence similarity (92.8 %) to the nearest type strain, Syntrophococcus sucromutans DSM 3224T and forming a clearly distinct branch. Core genome phylogenetic analysis of the isolate and 134 strains belonging to the family Lachnospiraceae also revealed that strain JN500902T was well-separated from other genera of this family as a monophyletic clade. The average nucleotide identity and amino acid identity values between strain JN500902T and 134 Lachnospiraceae strains were less than 74 and 65 %, respectively. Considering its polyphasic characteristics, strain JN500902T represents a novel genus and species within the family Lachnospiraceae , for which the name Novisyntrophococcus fermenticellae gen. nov., sp. nov. is proposed. The type strain is JN500902T (=CICC 24502T=JCM 33939T).

Glaciimonas singularis sp. nov., isolated from a uranium mine wastewater treatment plant

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2344-2350 ◽  
Author(s):  
Ana Paula Chung ◽  
Igor Tiago ◽  
M. Fernanda Nobre ◽  
António Veríssimo ◽  
Paula V. Morais
Keyword(s):  
16S Rrna ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Treatment Plant ◽  
Uranium Mine ◽  
Rrna Gene ◽  
High Sequence Similarity ◽  
Content Type ◽  
Link Type

A bacterial strain, A2-57T, recovered from a water sample collected in a uranium mine was taxonomically studied in detail. This strain was a Gram-reaction-negative, rod-shaped bacterium that grew optimally at 25 °C and at pH 6.0–7.0 and had a DNA G+C content of 55.0 mol%. Ubiquinone 8 (UQ-8) was the predominant respiratory quinone and the major fatty acids were C16 : 0, C17 : 0 cyclo, summed feature 3 (C16 : 1ω6c and/or ω7c and/or C15 : 0 iso 2-OH) and C18 : 1ω7c. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain A2-57T belonged to the family Oxalobacteraceae and formed a distinct branch with Glaciimonas immobilis Cr9-30T. Strain A2-57T shared approximately 97.3 % 16S rRNA sequence similarity with G. immobilis Cr9-30T and also showed high sequence similarity with members of the genera Herbaspirillum (96.3–97.0 %) and Collimonas (96.2–97.0 %). Although phylogenetically closely related to the type strain of G. immobilis , the low level of DNA–DNA hybridization between the two strains (21.6 %) and several physiological and biochemical properties indicated that the novel strain could be clearly distinguished from G. immobilis LMG 25547T. Therefore, it is concluded that strain A2-57T represents a novel species of the genus Glaciimonas , for which the name Glaciimonas singularis sp. nov. is proposed. The type strain is A2-57T ( = CIP 110539T = LMG 27070T).

scholarly journals Pusillimonas thiosulfatoxidans sp. nov., a thiosulfate oxidizer isolated from activated sludge

2019 ◽  
Vol 69 (4) ◽  
pp. 1041-1046 ◽  
Author(s):  
Hyeon-Woo Koh ◽  
Myeong-Sub Song ◽  
Kyoung-Tag Do ◽  
Hongik Kim ◽  
Soo-Je Park
Keyword(s):  
Activated Sludge ◽  
Type Strain ◽  
Type Species ◽  
Municipal Wastewater ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Treatment Plant ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, motile bacterium, designated strain YE3T, was isolated from activated sludge obtained from a municipal wastewater treatment plant in Daejeon Metropolitan City, Republic of Korea. The cells were oxidase- and catalase-positive, and grew under aerobic conditions at 10–40 °C (optimum, 30 °C), with 1.0–8.0 % (w/v) NaCl (1.0 %) and at pH 5.5–9.0 (pH 7.0). Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain YE3T was most closely related to Pusillimonas harenae KACC 14927T (98.2 % sequence similarity) and Pusillimonas ginsengisoli KCTC 22046T (98.0 %). DNA–DNA relatedness values for strain YE3T and P. harenae KACC 14927T, P. ginsengisoli KCTC 22046T and P. soli KCTC 22455T were 28.7±2.27 %, 21.3±1.16 %, and 14.0±0.67 %, respectively. The genomic G+C content of the type strain YE3T was 59.3 mol%, as determined by whole-genome sequencing. The dominant fatty acids were C16 : 0 (39.2 %) and C17 : 0cyclo (37.5 %). The major polar lipids of strain YE3T were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Two aminophospholipids and four unidentified lipids were also detected. Furthermore, strain YE3T was able to oxidize thiosulfate under heterotrophic conditions. Based on the phenotypic, genotypic, chemotaxonomic and phylogenetic analyses, strain YE3T represents a novel species of the genus Pusillimonas , for which the name Pusillimonas thiosulfatoxidans sp. nov. is proposed. The type strain is YE3T (=KCTC 62737T=NBRC 113113T).

Methylobacterium pseudosasicola sp. nov. and Methylobacterium phyllostachyos sp. nov., isolated from bamboo leaf surfaces

2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2376-2384 ◽  
Author(s):  
Munusamy Madhaiyan ◽  
Selvaraj Poonguzhali
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Methylotrophic Bacteria ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Pairwise Sequence Similarity ◽  
Promote Plant Growth

Two strains of Gram-negative, methylotrophic bacteria, isolated because of their abilities to promote plant growth, were subjected to a polyphasic taxonomic study. The isolates were strictly aerobic, motile, pink-pigmented, facultatively methylotrophic, non-spore-forming rods. The chemotaxonomic characteristics of the isolates included the presence of C18 : 1ω7c as the major cellular fatty acid. The DNA G+C contents of strains BL36T and BL47T were 69.4 and 69.8 mol%, respectively. 16S rRNA gene sequence analysis of strains BL36T and BL47T placed them under the genus Methylobacterium, with the pairwise sequence similarity between them and the type strains of closely related species ranging from 97.2 to 99.0 %. On the basis of their phenotypic and phylogenetic distinctiveness and the results of DNA–DNA hybridization analysis, the isolates represent two novel species within the genus Methylobacterium , for which the names Methylobacterium pseudosasicola sp. nov. (type strain BL36T = NBRC 105203T = ICMP 17621T) and Methylobacterium phyllostachyos sp. nov. (type strain BL47T = NBRC 105206T = ICMP 17619T) are proposed.

scholarly journals Microvirga lupini sp. nov., Microvirga lotononidis sp. nov. and Microvirga zambiensis sp. nov. are alphaproteobacterial root-nodule bacteria that specifically nodulate and fix nitrogen with geographically and taxonomically separate legume hosts

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2579-2588 ◽  
Author(s):  
Julie K. Ardley ◽  
Matthew A. Parker ◽  
Sofie E. De Meyer ◽  
Robert D. Trengove ◽  
Graham W. O’Hara ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Housekeeping Gene ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type

Strains of Gram-negative, rod-shaped, non-spore-forming bacteria were isolated from nitrogen-fixing nodules of the native legumes Listia angolensis (from Zambia) and Lupinus texensis (from Texas, USA). Phylogenetic analysis of the 16S rRNA gene showed that the novel strains belong to the genus Microvirga , with ≥96.1 % sequence similarity with type strains of this genus. The closest relative of the representative strains Lut6T and WSM3557T was Microvirga flocculans TFBT, with 97.6–98.0 % similarity, while WSM3693T was most closely related to Microvirga aerilata 5420S-16T, with 98.8 % similarity. Analysis of the concatenated sequences of four housekeeping gene loci (dnaK, gyrB, recA and rpoB) and cellular fatty acid profiles confirmed the placement of Lut6T, WSM3557T and WSM3693T within the genus Microvirga . DNA–DNA relatedness values, and physiological and biochemical tests allowed genotypic and phenotypic differentiation of Lut6T, WSM3557T and WSM3693T from each other and from other Microvirga species with validly published names. The nodA sequence of Lut6T was placed in a clade that contained strains of Rhizobium , Mesorhizobium and Sinorhizobium , while the 100 % identical nodA sequences of WSM3557T and WSM3693T clustered with Bradyrhizobium , Burkholderia and Methylobacterium strains. Concatenated sequences for nifD and nifH show that the sequences of Lut6T, WSM3557T and WSM3693T were most closely related to that of Rhizobium etli CFN42T nifDH. On the basis of genotypic, phenotypic and DNA relatedness data, three novel species of Microvirga are proposed: Microvirga lupini sp. nov. (type strain Lut6T  = LMG 26460T  = HAMBI 3236T), Microvirga lotononidis sp. nov. (type strain WSM3557T  = LMG 26455T  = HAMBI 3237T) and Microvirga zambiensis sp. nov. (type strain WSM3693T  = LMG 26454T  = HAMBI 3238T).

scholarly journals Aureitalea marina gen. nov., sp. nov., a member of the family Flavobacteriaceae, isolated from seawater

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 912-916 ◽  
Author(s):  
Sanghwa Park ◽  
Susumu Yoshizawa ◽  
Kentaro Inomata ◽  
Kazuhiro Kogure ◽  
Akira Yokota
Keyword(s):  
Type Strain ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
North Pacific Ocean ◽  
Rrna Gene ◽  
Optimum Growth ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species

An irregular rod-shaped, non-gliding, yellow-pigmented bacterium was isolated from seawater from the western North Pacific Ocean near Japan. The strain, designated S1-66T, was Gram-negative, obligately aerobic, heterotrophic and oxidase-positive. Growth occurred in the presence of 1–4 % NaCl, with optimum growth at 2 % NaCl. The strain grew at 15–30 °C, with optimum growth at 20–25 °C. The G+C content of genomic DNA was 48.1 mol% (HPLC). The predominant isoprenoid quinone was MK-6 and the major cellular fatty acids were iso-C15 : 0 (26.4 %), iso-C15 : 1 (20.3 %) and iso-C17 : 0 3-OH (14.2 %). Phylogenetic trees generated by using 16S rRNA gene sequences revealed that strain S1-66T belongs to the family Flavobacteriaceae and showed 94.2 % sequence similarity to the most closely related type strain, Ulvibacter antarcticus IMCC3101T. On the basis of phenotypic and phylogenetic features, S1-66T is classified in a novel genus and species within the family Flavobacteriaceae , for which the name Aureitalea marina gen. nov., sp. nov. is proposed. The type strain of Aureitalea marina is S1-66T ( = NBRC 107741T  = KCTC 23434T).

scholarly journals Oligoflexus tunisiensis gen. nov., sp. nov., a Gram-negative, aerobic, filamentous bacterium of a novel proteobacterial lineage, and description of Oligoflexaceae fam. nov., Oligoflexales ord. nov. and Oligoflexia classis nov.

2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3353-3359 ◽  
Author(s):  
Ryosuke Nakai ◽  
Miyuki Nishijima ◽  
Nozomi Tazato ◽  
Yutaka Handa ◽  
Fatma Karray ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Bootstrap Support ◽  
Rrna Gene ◽  
The Novel ◽  
Filamentous Bacterium ◽  
Gram Negative ◽  
Content Type ◽  
Link Type ◽  
Novel Genus And Species

A phylogenetically novel proteobacterium, strain Shr3T, was isolated from sand gravels collected from the eastern margin of the Sahara Desert. The isolation strategy targeted bacteria filterable through 0.2-µm-pore-size filters. Strain Shr3T was determined to be a Gram-negative, aerobic, non-motile, filamentous bacterium. Oxidase and catalase reactions were positive. Strain Shr3T showed growth on R2A medium, but poor or no growth on nutrient agar, trypticase soy agar and standard method agar. The major isoprenoid quinone was menaquinone-7. The dominant cellular fatty acids detected were C16 : 1ω5c and C16 : 0, and the primary hydroxy acid present was C12 : 0 3-OH. The DNA G+C content was 54.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain Shr3T was affiliated with an uncultivated lineage of the phylum Proteobacteria ; the nearest known type strain, with 83 % sequence similarity, was Desulfomicrobium orale DSM 12838T in the class Deltaproteobacteria . The isolate and closely related environmental clones formed a novel class-level clade in the phylum Proteobacteria with high bootstrap support (96–99 %). Based on these results, the novel class Oligoflexia classis nov. in the phylum Proteobacteria and the novel genus and species Oligoflexus tunisiensis gen. nov., sp. nov. are proposed for strain Shr3T, the first cultivated representative of the Oligoflexia. The type strain of Oligoflexus tunisiensis is Shr3T ( = JCM 16864T = NCIMB 14846T). We also propose the subordinate taxa Oligoflexales ord. nov. and Oligoflexaceae fam. nov. in the class Oligoflexia.

scholarly journals Pseudoseohaeicola caenipelagi gen. nov., sp. nov., isolated from a tidal flat

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1819-1824 ◽  
Author(s):  
Sooyeon Park ◽  
Ji-Min Park ◽  
Chul-Hyung Kang ◽  
Song-Gun Kim ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Strain ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, non-motile, aerobic and pleomorphic bacterium, designated BS-W13T, was isolated from a tidal flat on the South Sea, South Korea, and its taxonomic position was investigated using a polyphasic approach. Strain BS-W13T grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of 1.0–2.0 % (w/v) NaCl. Neighbour-joining and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences showed that strain BS-W13T clustered with the type strain of Seohaeicola saemankumensis , showing the highest sequence similarity (95.96 %) to this strain. Strain BS-W13T exhibited 16S rRNA gene sequence similarity values of 95.95, 95.91, 95.72 and 95.68 % to the type strains of Sulfitobacter donghicola , Sulfitobacter porphyrae , Sulfitobacter mediterraneus and Roseobacter litoralis , respectively. Strain BS-W13T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The polar lipid profile of strain BS-W13T, containing phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid as major components, was distinguishable from those of some phylogenetically related taxa. The DNA G+C content of strain BS-W13T was 58.1 mol%. The phylogenetic data and differential chemotaxonomic and other phenotypic properties revealed that strain BS-W13T constitutes a novel genus and species within family Rhodobacteraceae of the class Alphaproteobacteria , for which the name Pseudoseohaeicola caenipelagi gen. nov., sp. nov. is proposed. The type strain is BS-W13T ( = KCTC 42349T = CECT 8724T).

Litorilinea aerophila gen. nov., sp. nov., an aerobic member of the class Caldilineae , phylum Chloroflexi , isolated from an intertidal hot spring

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1149-1154 ◽  
Author(s):  
Varsha Kale ◽  
Snædís H. Björnsdóttir ◽  
Ólafur H. Friðjónsson ◽  
Sólveig K. Pétursdóttir ◽  
Sesselja Ómarsdóttir ◽  
...  
Keyword(s):  
Type Species ◽  
Hot Spring ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Phenotypic Differences ◽  
Link Type ◽  
Fermentative Growth ◽  
Distinct Lineage ◽  
Ph Range

A thermophilic, aerobic, Gram-stain-negative, filamentous bacterium, strain PRI-4131T, was isolated from an intertidal hot spring in Isafjardardjup, NW Iceland. The strain grew chemo-organotrophically on various carbohydrates. The temperature range for growth was 40–65 °C (optimum 55 °C), the pH range was pH 6.5–9.0 (optimum pH 7.0) and the NaCl range was 0–3 % (w/v) (optimum 0.5 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain PRI-4131T represented a distinct lineage within the class Caldilineae of the phylum Chloroflexi. The highest levels of sequence similarity, about 91 %, were with Caldilinea aerophila STL-6-O1T and Caldilinea tarbellica D1-25-10-4T. Fermentative growth was not observed for strain PRI-4131T, which, in addition to other characteristics, distinguished it from the two Caldilinea species. Owing to both phylogenetic and phenotypic differences from the described members of the class Caldilineae , we propose to accommodate strain PRI-4131T in a novel species in a new genus, Litorilinea aerophila gen. nov., sp. nov. The type strain of Litorilinea aerophila is PRI-4131T ( = DSM 25763T  = ATCC BAA-2444T).

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