Coprobacter fastidiosus gen. nov., sp. nov., a novel member of the family Porphyromonadaceae isolated from infant faeces

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 4181-4188 ◽  
Author(s):  
Andrei N. Shkoporov ◽  
Ekaterina V. Khokhlova ◽  
Andrei V. Chaplin ◽  
Lyudmila I. Kafarskaia ◽  
Alexei A. Nikolin ◽  
...  
Keyword(s):  
Type Species ◽  
Molar Ratio ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Rich Media ◽  
Gene Sequence Analysis ◽  
The Family ◽  
A Minor ◽  
Acetic Acids

A novel obligately anaerobic, non-spore-forming, rod-shaped, non-motile Gram-reaction-negative bacterium was isolated from infant faeces. The strain, designated NSB1T, was able to grow on rich media at 30–37 °C, in the presence of up to 2 % (w/v) Oxgall and 2 % (w/v) NaCl. Cells of strain NSB1T produced catalase, but not urease and indole. Aesculin was not hydrolysed. The strain was able to utilize d-glucose, lactose, maltose, mannose and raffinose as electron donors. When grown on d-glucose, the main metabolic end products were propionic and acetic acids, with a minor product being succinic acid. The major cellular fatty acids, iso-C15 : 0 and anteiso-C15 : 0, were present at a 1 : 1 molar ratio. The major menaquinone was MK-11. The DNA G+C content was found to be 38.5 mol%. According to 16S rRNA gene sequence analysis strain NSB1T is a member of the family Porphyromonadaceae , phylum Bacteroidetes . The closest relatives of the strain were Barnesiella viscericola (88.2 % identity) and Barnesiella intestinihominis (87.4 % identity). On the basis of phenotypic and genotypic properties of strain NSB1T we conclude that this strain represent a novel species in a new genus within the family of Porphyromonadaceae for which the name Coprobacter fastidiosus gen. nov., sp. nov. is proposed. The type strain of the species is NSB1T ( = DSM 26242T, = VKM B-2743T).

Imtechella halotolerans gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from estuarine water

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2624-2630 ◽  
Author(s):  
Vikram Surendra ◽  
Pant Bhawana ◽  
Korpole Suresh ◽  
T. N. R. Srinivas ◽  
Pinnaka Anil Kumar
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Estuarine Water ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Pairwise Sequence Similarity

A novel Gram-negative, rod-shaped, non-motile, non-sporulating bacterium, designated strain K1T, was isolated from an estuarine water sample collected from Kochi, Kerala, India. Colonies on marine agar were circular, 2.0–2.5 mm in diameter, shiny, yellow, translucent and convex with entire margins. Strain K1T was negative for ornithine decarboxylase, lysine decarboxylase, nitrate reduction and H2S production. The fatty acids were dominated by iso-branched components with a high abundance of iso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH; MK-6 (64 %) and MK-7 (34 %) were found as major respiratory quinones; and phosphatidylethanolamine, two unidentified aminolipids, four unidentified phospholipids and two unidentified lipids were major polar lipids. The DNA G+C content of strain K1T was 46.1 mol%. 16S rRNA gene sequence analysis indicated that strain K1T was related most closely to the type strain of Zhouia amylolytica (pairwise sequence similarity of 93.0 %). Phylogenetic analysis showed that strain K1T formed a distinct branch within the family Flavobacteriaceae and clustered with the clade comprising species of the genera Zhouia , Coenonia and Capnocytophaga , being phylogenetically most closely related to the type strain of Zhouia amylolytica at a distance of 9.2 % (90.8 % similarity). Other species of the genera within the same clade were related to strain K1T at distances of 15.0–23.1 %. Based on phenotypic and chemotaxonomic characteristics and on phylogenetic inference, strain K1T is considered to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Imtechella halotolerans gen. nov., sp. nov. is proposed. The type strain of Imtechella halotolerans is K1T ( = MTCC 11055T = JCM 17677T).

scholarly journals Acetobacteroides hydrogenigenes gen. nov., sp. nov., an anaerobic hydrogen-producing bacterium in the family Rikenellaceae isolated from a reed swamp

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 2986-2991 ◽  
Author(s):  
Xiao-Li Su ◽  
Qi Tian ◽  
Jie Zhang ◽  
Xian-Zheng Yuan ◽  
Xiao-Shuang Shi ◽  
...  
Keyword(s):  
Yeast Extract ◽  
Type Species ◽  
Wastewater Sludge ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Sequence Similarities

A strictly anaerobic, mesophilic, carbohydrate-fermenting, hydrogen-producing bacterium, designated strain RL-CT, was isolated from a reed swamp in China. Cells were Gram-stain-negative, catalase-negative, non-spore-forming, non-motile rods measuring 0.7–1.0 µm in width and 3.0–8.0 µm in length. The optimum temperature for growth of strain RL-CT was 37 °C (range 25–40 °C) and pH 7.0–7.5 (range pH 5.7–8.0). The strain could grow fermentatively on yeast extract, tryptone, arabinose, glucose, galactose, mannose, maltose, lactose, glycogen, pectin and starch. The main end products of glucose fermentation were acetate, H2 and CO2. Organic acids, alcohols and amino acids were not utilized for growth. Yeast extract was not required for growth; however, it stimulated growth slightly. Nitrate, sulfate, sulfite, thiosulfate, elemental sulfur and Fe(III) nitrilotriacetate were not reduced as terminal electron acceptors. Aesculin was hydrolysed but not gelatin. Indole and H2S were produced from yeast extract. The G+C content of the genomic DNA was 51.2 mol%. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0 and C16 : 0. The most abundant polar lipid of strain RL-CT was phosphatidylethanolamine. 16S rRNA gene sequence analysis revealed that the isolate belongs to the uncultured Blvii28 wastewater-sludge group (http://www.arb-silva.de/) in the family Rikenellaceae of the phylum Bacteroidetes, and shared low sequence similarities with the related species Alistipes shahii WAL 8301T (81.8 %), Rikenella microfusus ATCC 29728T (81.7 %) and Anaerocella delicata WN081T (80.9 %). On the basis of these data, a novel species in a new genus of the family Rikenellaceae is proposed, Acetobacteroides hydrogenigenes gen. nov., sp. nov. The type strain of the type species is RL-CT ( = JCM 17603T = DSM 24657T = CGMCC 1.5173T).

scholarly journals Tamlana fucoidanivorans sp. nov., isolated from algae collected in China

2020 ◽  
Vol 70 (3) ◽  
pp. 1496-1502 ◽  
Author(s):  
Jin Li ◽  
Yan Xu ◽  
Jiarong Feng ◽  
Mingqi Zhong ◽  
Qingyi Xie ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Pr China

A Gram-stain-negative, aerobic, non-motile and rod-shaped marine bacterium, CW2-9T, was isolated from algae collected from Fujian Province in PR China. 16S rRNA gene sequence analysis showed that this strain was affiliated with the genus Tamlana in the family Flavobacteriaceae of the class Flavobacteriia and was very similar to the type strain Tamlana sedimentorum MCCC 1A10799T (96.3 % sequence similarity). The whole genome of strain CW2-9T comprised 3 997 513 bp with a G+C content of 34.3 mol%. The average nucleotide identity value between strain CW2-9T and T. sedimentorum MCCC 1A10799T was 73.8 %. Growth was observed from 15 to 40 °C (optimum, 30 °C), at pH from pH 5.0 to 10.0 (pH 8.0) and in the presence of 0–4 % (w/v) NaCl (0–1 %). The major fatty acids (>10 % of the total) were iso-C15 : 0, iso G-C15 : 1, iso-C17 : 0 3-OH and anteiso-C15 : 0. The predominant menaquinone was MK-6. The combined phylogenetic, physiological and chemotaxonomic data indicate that strain CW2-9T represents a novel species in the genus Tamlana , for which the name Tamlana fucoidanivorans sp. nov. is proposed. The type strain is CW2-9T (=CICC 24749T=KCTC 72389T).

Parafilimonas terrae gen. nov., sp. nov., isolated from greenhouse soil

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 3040-3045 ◽  
Author(s):  
Soo-Jin Kim ◽  
Joo-Hyeon Park ◽  
Jun-Muk Lim ◽  
Jae-Hyung Ahn ◽  
Rangasamy Anandham ◽  
...  
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
The Novel ◽  
Greenhouse Soil ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family

A Gram-stain-negative, short rod-shaped, non-flagellated, yellow bacterium, designated strain 5GHs7-2T, was isolated from a greenhouse soil sample in South Korea. 16S rRNA gene sequence analysis of strain 5GHs7-2T indicated that the isolate belonged to the family Chitinophagaceae , and exhibited the highest sequence similarities with members of the genera Terrimonas (89.2–92.6 %), Sediminibacterium (90.8–91.4 %) and Chitinophaga (89.2–91.7 %), Filimonas lacunae YT21T (91.7 %), members of the genus Segetibacter (90.2–91.6 %), Parasegetibacter luojiensis RHYL-37T (90.9 %) and Flavihumibacter petaseus T41T (91.2 %). Flexirubin-type pigments were present. The major cellular fatty acids of the novel strain were iso-C15 : 0, iso-C17 : 0 3-OH and iso-C15 : 1 G. The polar lipid profile consisted of a large amount of phosphatidylethanolamine, and moderate and small amounts of several unknown aminolipids and lipids. The only respiratory quinone of strain 5GHs7-2T was MK-7, and the DNA G+C content was 47.6 mol%. On the basis of the evidence presented, it is concluded that strain 5GHs7-2T represents a novel species of a new genus in the family Chitinophagaceae , for which the name Parafilimonas terrae gen. nov., sp. nov. is proposed. The type strain of the type species is 5GHs7-2T ( = KACC 17343T = DSM 28286T).

Sphingomonas kyungheensis sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a ginseng field

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3848-3853 ◽  
Author(s):  
Heung-Min Son ◽  
Jung-Eun Yang ◽  
YongJin Park ◽  
Chang-Kyun Han ◽  
Song-Gun Kim ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family

A bacterial strain THG-B283T, which has β-glucosidase activity, was isolated from soil of a ginseng field. Cells were Gram-reaction-negative, oxidase- and catalase-positive, aerobic, motile with one polar flagellum and rod-shaped. The strain was subjected to a polyphasic taxonomic study. Strain THG-B283T grew optimally at around pH 7.0, at 25–28 °C and in the absence of NaCl on R2A agar. 16S rRNA gene sequence analysis revealed that strain THG-B283T belongs to the family Sphingomonadaceae and is closely related to Sphingomonas melonis DAPP-PG 224T (98.2 %), S. aquatilis JSS7T (98.1 %), S. insulae DS-28T (97.6 %), S. mali IFO 15500T (97.1 %) and S. pruni IFO 15498T (97.0 %). Strain THG-B283T contained Q-10 as the predominant ubiquinone. The major fatty acids included summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C18 : 1ω7c, C14 : 0 2-OH and C16 : 0. The DNA G+C content was 72.2 mol%. The major component in the polyamine pattern was sym-homospermidine. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, sphingoglycolipid, diphosphatidylglycerol, an unidentified glycolipid, unidentified aminolipids, an unidentified phospholipid and unidentified lipids. Genomic and chemotaxonomic data supported the affiliation of strain THG-B283T to the genus Sphingomonas . DNA–DNA relatedness between strain THG-B283T and its closest phylogenetic neighbours was below 23 %. On the basis of phenotypic, phylogenetic and genetic data, strain THG-B283T represents a novel species of genus Sphingomonas , for which the name Sphingomonas kyungheensis sp. nov. is proposed. The type strain is THG-B283T ( = KACC 16224T = LMG 26582T).

Kribbella endophytica sp. nov., an endophytic actinobacterium isolated from the surface-sterilized leaf of a native apricot tree

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1249-1253 ◽  
Author(s):  
Onuma Kaewkla ◽  
Christopher M. M. Franco
Keyword(s):  
Type Species ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Endophytic Actinobacterium ◽  
The Family ◽  
Apricot Tree

A new strain of the genus Kribbella , PIP 118T, was isolated from the leaf of an Australian native apricot tree (Pittosporum angustifolium), or Gumbi Gumbi in the indigenous language. This strain is an aerobic actinobacterium consisting of hyphae that fragment into short to elongated rod-like elements. Phylogenetic evaluation based on 16S rRNA gene sequence analysis placed this isolate as a member of the family Nocardioidaceae and most closely related to Kribbella antibiotica YIM 31530T (98.6 %) and Kribbella koreensis LM 161T (98.4 %). Chemotaxonomic data including cell wall components, major menaquinone and major fatty acids confirmed the affiliation of strain PIP 118T to the genus Kribbella . The results of the phylogenetic analysis, including physiological and biochemical studies in combination with DNA–DNA hybridization, allowed the genotypic and phenotypic differentiation of strain PIP 118T and members of the most closely related species with validly published names. The name proposed for the new species is Kribbella endophytica sp. nov. The type strain is PIP 118T ( = DSM 23718T = NRRL B-24812T).

scholarly journals Compostimonas suwonensis gen. nov., sp. nov., isolated from spent mushroom compost

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2410-2416 ◽  
Author(s):  
Soo-Jin Kim ◽  
Tomohiko Tamura ◽  
Moriyuki Hamada ◽  
Jae-Hyung Ahn ◽  
Hang-Yeon Weon ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Mushroom Compost ◽  
Spent Mushroom Compost ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Novel Genus And Species

A Gram-positive, aerobic, non-motile, short rod, designated SMC46T, was isolated from a spent mushroom compost sample collected in the Suwon region, South Korea. 16S rRNA gene sequence analysis revealed that strain SMC46T was a member of the family Microbacteriaceae ; however, the isolate formed a branch separate from other genera within the family. Sequence similarity between strain SMC46T and other members of the family Microbacteriaceae was ≤97 %, the highest sequence similarity being with Frigoribacterium faeni 801T and Frondihabitans australicus E1HC-02T (both 97.0 %). Some chemotaxonomic properties of strain SMC46T were consistent with those of the family Microbacteriaceae : MK-11 and MK-12 as the predominant menaquinones, anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0 as the major cellular fatty acids and diphosphatidylglycerol, phosphatidylglycerol and an unidentified glycolipid as the polar lipids. However, strain SMC46T contained a B-type peptidoglycan not previously found in the family Microbacteriaceae . The DNA G+C content was 68 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic distinctiveness, strain SMC46T was considered to represent a novel genus and species in the family Microbacteriaceae , for which the name Compostimonas suwonensis gen. nov., sp. nov. is proposed. The type strain of the type species is SMC46T ( = KACC 13354T  = NBRC 106304T).

Algimonas ampicilliniresistens sp. nov., isolated from the red alga Porphyra yezoensis, and emended description of the genus Algimonas

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4407-4412 ◽  
Author(s):  
Youhei Fukui ◽  
Masahiro Kobayashi ◽  
Hiroaki Saito ◽  
Hiroshi Oikawa ◽  
Yutaka Yano ◽  
...  
Keyword(s):  
Type Species ◽  
Porphyra Yezoensis ◽  
Red Alga ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Emended Description

Three strains (14A-2-7T, 14A-3-1 and 14A-3) of Gram-stain-negative, prosthecate, motile bacteria were isolated from an algal medium supplemented with 10 mg ampicillin l−1 (w/v), in which the red alga Porphyra yezoensis had been cultured. Based on the 16S rRNA gene sequence analysis, the three isolates formed a cluster with the genus Algimonas of the family Hyphomonadaceae . The sequences of the three isolates had high similarity with those of Algimonas porphyrae 0C-2-2T (97.6 % similarity) and Litorimonas taeanensis G5T (95.6 % similarity). The DNA G+C contents of the three isolates ranged from 54.3 to 55.0 mol%, which were more similar to that of A. porphyrae 0C-2-2T (58.5 mol%) than to that of L. taeanensis G5T (47.1 mol%). The DNA–DNA relatedness showed that the three isolates were representatives of the same species (88.1–94.0 % relatedness) and that strain 14A-2-7T was a representative of a different species from A. porphyrae 0C-2-2T and L. taeanensis G5T (1.2–8.6 % relatedness). The phenotypic characteristics of strain 14A-2-7T differed by 20 results and 30 results from A. porphyrae 0C-2-2T and L. taeanensis G5T, respectively. The three isolates contained ubiquinone-10 as the predominant quinone and C18 : 1ω7c as the major fatty acid. Based on the polyphasic taxonomic analysis, the three isolates represent a novel species of the genus Algimonas , for which the name Algimonas ampicilliniresistens sp. nov. is proposed. The type strain is 14A-2-7T ( = LMG 26421T = NBRC 108219T). An emended description of the genus Algimonas is also proposed.

scholarly journals Paenibacillus guangzhouensis sp. nov., an Fe(III)- and humus-reducing bacterium from a forest soil

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3891-3896 ◽  
Author(s):  
Jibing Li ◽  
Qin Lu ◽  
Ting Liu ◽  
Shungui Zhou ◽  
Guiqin Yang ◽  
...  
Keyword(s):  
Forest Soil ◽  
Type Species ◽  
Minor Amount ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Unknown Lipid ◽  
A Minor

A Gram-reaction-variable, rod-shaped, motile, facultatively aerobic and endospore-forming bacterium, designated strain GSS02T, was isolated from a forest soil. Strain GSS02T was capable of reducing humic substances and Fe(III) oxides. Strain GSS02T grew optimally at 35 °C, at pH 78 and in the presence of 1 % NaCl. The predominant menaquinone was MK-7. The major cellular fatty acids were anteiso-C15 : 0 and iso-C16 : 0 and the polar lipid profile contained mainly phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol, with moderate amounts of two unknown aminophospholipids and a minor amount of one unknown lipid. The DNA G+C content was 53.4 mol%. Comparative 16S rRNA gene sequence analysis showed that strain GSS02T was related most closely to Paenibacillus terrigena JCM 21741T (98.1 % similarity). Mean DNA–DNA relatedness between strain GSS02T and P. terrigena JCM 21741T was 58.8±0.5 %. The phylogenetic, chemotaxonomic and phenotypic results clearly demonstrated that strain GSS02T belongs to the genus Paenibacillus and represents a novel species, for which the name Paenibacillus guangzhouensis sp. nov. is proposed. The type strain is GSS02T ( = KCTC 33171T = CCTCC AB 2013236T).

scholarly journals Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1228-1234 ◽  
Author(s):  
Anil Sazak ◽  
Nevzat Sahin ◽  
Mustafa Camas
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Soil Actinomycetes ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Type Strains

The taxonomic position of two soil actinomycetes, strains A2012T and A2019T, isolated from Turkish soils, was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that the strains belonged to the family Nocardiaceae . Strains A2012T and A2019T were most closely related to Nocardia caishijiensis DSM 44831T (98.9 %) and Nocardia mexicana CIP 108295T (98.6 %), respectively; similarity to other type strains of the genus Nocardia ranged from 96.9 to 97.9 %. However, DNA–DNA relatedness and phenotypic data demonstrated that strains A2012T and A2019T could be clearly distinguished from members of the most closely related Nocardia species. It is evident from the genotypic and phenotypic data that the two isolates represent two novel species of the genus Nocardia . It is proposed, therefore, that strains A2012T and A2019T be classified in the genus Nocardia as representatives of Nocardia goodfellowii sp. nov. (type strain A2012T = DSM 45516T = NRRL B-24833T = KCTC 19986T) and Nocardia thraciensis sp. nov. (type strain A2019T = DSM 45517T = NRRL B-24834T = KCTC 19985T), respectively.

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