scholarly journals Shinella granuli gen. nov., sp. nov., and proposal of the reclassification of Zoogloea ramigera ATCC 19623 as Shinella zoogloeoides sp. nov.

2006 ◽  
Vol 56 (2) ◽  
pp. 443-448 ◽  
Author(s):  
Dong-Shan An ◽  
Wan-Taek Im ◽  
Hee-Chan Yang ◽  
Sung-Taik Lee
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Upflow Anaerobic Sludge Blanket ◽  
Anaerobic Sludge ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
Major Respiratory Quinone ◽  
Anaerobic Sludge Blanket ◽  
Zoogloea Ramigera

The taxonomic position of a novel bacterial strain, Ch06T, isolated from an upflow anaerobic sludge blanket reactor was determined. Strain Ch06T was Gram-negative, aerobic, motile and oxidase- and catalase-positive. A comparative 16S rRNA gene sequence analysis showed a clear affiliation of strain Ch06T to the Alphaproteobacteria and it was most closely related to Zoogloea ramigera ATCC 19623 and Mycoplana dimorpha IAM 13154T (97·9 and 96·3 % sequence similarity, respectively). The major respiratory quinone was Q-10 and the predominant fatty acids were C16 : 0, 3-OH C16 : 0, C18 : 0, C19 : 0 cyclo ω8c and summed feature 7 (C18 : 1 ω7c/ω9t/ω12t, C18 : 1 ω7c/ω9c/ω12t). On the basis of phenotypic, chemotaxonomic and phylogenetic characteristics, the novel isolate was assigned to a new genus, Shinella gen. nov., as Shinella granuli gen. nov., sp. nov. (type strain Ch06T=KCTC 12237T=JCM 13254T). It is proposed that Zoogloea ramigera ATCC 19623 is reclassified into the novel genus Shinella as Shinella zoogloeoides sp. nov. (type strain ATCC 19623T=IAM 12669T=I-16-MT).

scholarly journals Lysobacter novalis sp. nov., isolated from fallow farmland soil

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 3131-3136 ◽  
Author(s):  
Hina Singh ◽  
Juan Du ◽  
Kyung-Hwa Won ◽  
Jung-Eun Yang ◽  
Shahina Akter ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Gliding Motility ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Farmland Soil ◽  
Major Respiratory Quinone

A novel bacterial strain, designated THG-PC7T, was isolated from fallow farmland soil in Yongin, South Korea. Cells of strain THG-PC7T were Gram-stain-negative, dark yellow, aerobic, rod-shaped and had gliding motility. Strain THG-PC7T grew optimally at 25–35 °C, at pH 7 and in the absence of NaCl. Comparative 16S rRNA gene sequence analysis identified strain THG-PC7T as belonging to the genus Lysobacter, exhibiting highest sequence similarity with Lysobacter ximonensis KCTC 22336T (98.7 %) followed by Lysobacter niastensis KACC 11588T (95.7 %). In DNA–DNA hybridization tests, DNA relatedness between strain THG-PC7T and its closest phylogenetic neighbour L. ximonensis was below 25 %. The DNA G+C content of the novel isolate was determined to be 62.5 mol%. Flexirubin-type pigments were found to be present. The major cellular fatty acids were determined to be iso-C15 : 0, iso-C16 : 0, anteiso-C15 : 0 and iso-C17 : 1ω9c. The major respiratory quinone was identified as ubiquonone-8 (Q8). The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminophospolipid. On the basis of results from DNA–DNA hybridization and the polyphasic data, strain THG-PC7T represents a novel species of the genus Lysobacter, for which the name Lysobacter novalis sp. nov. is proposed. The type strain is THG-PC7T( = KACC 18276T = CCTCC AB 2014319T).

scholarly journals Tumebacillus ginsengisoli sp. nov., isolated from soil of a ginseng field

2011 ◽  
Vol 61 (7) ◽  
pp. 1715-1719 ◽  
Author(s):  
Sang-Hoon Baek ◽  
Yingshun Cui ◽  
Sun-Chang Kim ◽  
Chang-Hao Cui ◽  
Chengri Yin ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Major Respiratory Quinone ◽  
The 16S Rrna Gene

A Gram-reaction-positive, rod-shaped, spore-forming bacterium, designated Gsoil 1105T, was isolated from soil of a ginseng field in Pocheon Province in South Korea and characterized in order to determine its taxonomic position. Comparative analysis of the 16S rRNA gene sequence showed that the isolate belongs to the order Bacillales, showing the highest level of sequence similarity with respect to Tumebacillus permanentifrigoris Eur1 9.5T (94.6 %). The phylogenetic distances from other described species with validly published names within the order Bacillales were greater than 9.0 %. Strain Gsoil 1105T had a genomic DNA G+C content of 55.6 mol% and menaquinone 7 (MK-7) as the major respiratory quinone. The major fatty acids were iso-C15 : 0 and anteiso-C15 : 0. On the basis of its phenotypic properties and phylogenetic distinctiveness, strain Gsoil 1105T represents a novel species of the genus Tumebacillus, for which the name Tumebacillus ginsengisoli sp. nov. is proposed. The type strain is Gsoil 1105T ( = KCTC 13942T  = DSM 18389T).

scholarly journals Modestobacter versicolor sp. nov., an actinobacterium from biological soil crusts that produces melanins under oligotrophy, with emended descriptions of the genus Modestobacter and Modestobacter multiseptatus Mevs et al. 2000

2007 ◽  
Vol 57 (9) ◽  
pp. 2014-2020 ◽  
Author(s):  
Gundlapally S. N. Reddy ◽  
Ruth M. Potrafka ◽  
Ferran Garcia-Pichel
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Total Pigment ◽  
Ph Tolerance ◽  
Major Respiratory Quinone ◽  
Polyphasic Characterization

A novel isolate, CP153-2T, was obtained from topsoil biological crusts in the Colorado Plateau (USA). Colonies were black in colour due to melanin-like pigments when grown on oligotrophic medium, but not when grown on copiotrophic medium. Induction of melanogenesis was independent of growth phase or illumination conditions, including exposure to UVB and UVA radiation, but exposure to UVB could enhance total pigment production and growth under low nitrogen prevented its synthesis. This mode of regulation was previously unknown among melanin-producing bacteria. Polyphasic characterization of the strain revealed that cells were short, straight to curved or irregular rods that developed into pairs and formed multiseptate short filaments, with rare bud-like cells. Short rods were typically motile by means of flagella; multicellular structures tended to be sessile. Cells stained Gram-positive, grew at 4–30 °C and had a narrow range of pH tolerance (pH 5–9). The major fatty acids were iso-C15:0 iso-C16 : 0, anteiso-C15 : 0 and C18 : 1; MK-9(H4) was the major respiratory quinone. Its peptidoglycan contained meso-diaminopimelic acid. Based on 16S rRNA gene sequence similarity data, its closest relative (98.1 % similarity) was Modestobacter multiseptatus DSM 44406T, which is similar morphologically. Based on the above characteristics, strain CP153-2T was also assigned to the genus Modestobacter. However, CP153-2T had a relatedness of only 49.9 % in whole-genome reassociation comparisons with the type strain of M. multiseptatus and thus formally represents a novel species, for which the name Modestobacter versicolor sp. nov. is proposed. Additional evidence in support of a novel species comes from phenotypic and chemotaxonomic characteristics. Strain CP153-2T (=ATCC BAA-1040T =DSM 16678T) is the type strain of M. versicolor.

scholarly journals Propioniciclava tarda gen. nov., sp. nov., isolated from a methanogenic reactor treating waste from cattle farms

2011 ◽  
Vol 61 (9) ◽  
pp. 2298-2303 ◽  
Author(s):  
Yoshimichi Sugawara ◽  
Atsuko Ueki ◽  
Kunihiro Abe ◽  
Nobuo Kaku ◽  
Kazuya Watanabe ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Major Respiratory Quinone ◽  
Diamino Acid ◽  
Cattle Farms

Two facultatively anaerobic bacterial strains, designated WR061T and WR054, were isolated from rice-straw residue in a methanogenic reactor treating waste from cattle farms in Japan. The two strains were phylogenetically positioned close to one another and had almost the same phenotypic properties. Cells were Gram-reaction-positive, non-motile, non-spore-forming, irregular rods. Cobalamin (vitamin B12) was required for growth. The strains utilized various carbohydrates, including hexoses and disaccharides, and produced acetate and propionate from these carbohydrates. Pentoses and polysaccharides were not utilized. They grew at 20–37 °C (optimum 35 °C) and pH 5.3–8.0 (optimum pH 6.8–7.5). Catalase and nitrate-reducing activities were detected. Aesculin was hydrolysed. The major cellular fatty acids were anteiso-C15 : 0 and C15 : 0 DMA, the major respiratory quinone was menaquinone MK-9(H4) and the genomic DNA G+C content was 69.3–69.5 mol%. The diagnostic diamino acid in the peptidoglycan was meso-diaminopimelic acid. Phylogenetic analysis based on 16S rRNA gene sequences placed the strains in the phylum Actinobacteria. Both strains were remotely related to the species in the family Propionibacteriaceae and Propionibacterium propionicum JCM 5830T was the most closely related type strain with a sequence similarity of 91.6 %. Based on phylogenetic, physiological and chemotaxonomic analyses, the two novel strains together represent a novel species of a new genus, for which the name Propioniciclava tarda gen. nov., sp. nov. is proposed. The type strain is WR061T ( = JCM 15804T  = DSM 22130T).

scholarly journals Fibrivirga Algicola Gen. Nov., Sp. Nov., An Algicidal Bacterium Isolated from a Freshwater River

2021 ◽  
Author(s):  
Sanghwa Park ◽  
JaYoung Cho ◽  
Dong-Hyun Jung ◽  
SeokWon Jang ◽  
JungHye Eom ◽  
...  
Keyword(s):  
Genomic Dna ◽  
Sequence Similarity ◽  
Amino Acid Identity ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
Algicidal Bacterium ◽  
Average Amino Acid Identity ◽  
The Family ◽  
Major Respiratory Quinone

Abstract An aerobic, gram-negative, pink-colored, non-motile, rod-shaped algicidal bacterium, designated JA-25T was isolated from the freshwater of the Geumgang River, Republic of Korea. It grew at 15–30°C, 6.0–9.0 pH, and in the presence of 0–1% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain JA-25T belongs to the Family ‘Spirosomaceae’ and is most closely related to Fibrella aestuarina BUZ 2T (93.6%). The strain JA-25T showed < 90% sequence similarity to other members of the Family ‘Spirosomaceae’. The average nucleotide identity(ANI), in silico DNA-DNA hybridization and the average amino acid identity(AAI) values based on the genomic sequences of JA-25T and F. aestuarina BUZ 2T were 74.4, 20.5 and 73.6 %, respectively. The genomic DNA G + C content was 52.5mol %. The major cellular fatty acids were Summed feature 3 (C16:1 ω6c/C16:1 ω7c), C16:1 ω5c, C16:0 (> 10%). The genomic DNA G + C content was 52.5 mol %. The major respiratory quinone was MK-7 and the polar lipids were phosphatidylethanolamine, two unidentified aminolipids, two phospholipids and five unidentified lipids. Considering the phylogenetic inference, phenotypic and chemotaxonomic data, strain JA-25T should be classified as a novel species of the novel genus Fibrivirga, with the proposed name Fibrivirga algicola sp. nov. The type strain is JA-25T (= KCCM 43334T = NBRC 114259T).

Silanimonas mangrovi sp. nov., a member of the family Xanthomonadaceae isolated from mangrove sediment, and emended description of the genus Silanimonas

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 274-279 ◽  
Author(s):  
T. N. R. Srinivas ◽  
T. B. Kailash ◽  
Pinnaka Anil Kumar
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Mangrove Sediment ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Emended Description ◽  
Major Respiratory Quinone

A novel Gram-negative, rod-shaped, motile bacterium, designated strain AK13T, was isolated from a sediment sample collected from mangrove of Namkhana, Sunderbans, West Bengal, India. Strain AK13T was positive for oxidase, DNase and lipase activities and negative for catalase, gelatinase, ornithine decarboxylase, lysine decarboxylase, nitrate reductase, aesculinase and urease activities. The fatty acids were dominated by iso-C11 : 0, iso-C11 : 0 3-OH, iso-C15 : 0, iso-C16 : 0, iso-C17 : 1ω9c and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH). Strain AK13T contained Q-8 as the major respiratory quinone and diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine, two unidentified aminolipids, one unidentified glycolipid and one unidentified lipid as the polar lipids. The DNA G+C content of strain AK13T was 55.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the type strain of Silanimonas lenta , of the family Xanthomonadaceae (phylum Proteobacteria ), was the closest neighbour of strain AK13T, with 95.2 % sequence similarity. Other members of the family showed sequence similarities <94.4 %. Based on the phenotypic characteristics and phylogenetic inference, strain AK13T is proposed as a member of a novel species of the genus Silanimonas , Silanimonas mangrovi sp. nov.; the type strain is AK13T ( = MTCC 11082T  = DSM 24914T). An emended description of the genus Silanimonas is also provided.

scholarly journals Mucilaginibacter myungsuensis sp. nov., isolated from a mesotrophic artificial lake

2011 ◽  
Vol 61 (7) ◽  
pp. 1506-1510 ◽  
Author(s):  
Yochan Joung ◽  
Kiseong Joh
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Artificial Lake ◽  
Respiratory Quinone ◽  
Major Respiratory Quinone ◽  
Type Strains

A non-motile, pale-yellow bacterium, designated strain HMD1056T, was isolated from an artificial lake located within the campus of Hankuk University of Foreign Studies, Yongin, Korea. The major fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c; 49.1 %) and iso-C15 : 0 (22.4 %). The major respiratory quinone was MK-7. The DNA G+C content was 46.9 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain HMD1056T formed a lineage within the genus Mucilaginibacter and was closely related to the type strains of Mucilaginibacter ximonensis (95.4 % sequence similarity), Mucilaginibacter kameinonensis (94.5 %) and Mucilaginibacter paludis (93.4 %). On the basis of the evidence presented in this study, strain HMD1056T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter myungsuensis sp. nov. is proposed. The type strain is HMD1056T ( = KCTC 22746T  = CECT 7550T).

Rhodocytophaga aerolata gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from air

2010 ◽  
Vol 60 (7) ◽  
pp. 1554-1558 ◽  
Author(s):  
Rangasamy Anandham ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Soon-Wo Kwon
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Major Respiratory Quinone

A strictly aerobic, Gram-staining-negative, oxidase- and catalase-positive, non-motile, rod-shaped bacterium, designated strain 5416T-29T, was isolated from air and was characterized by using a polyphasic approach. Colonies were reddish pink and circular with entire margins. Flexirubin-type pigments were absent. The strain formed a distinct phylogenetic lineage within the family Cytophagaceae of the phylum Bacteroidetes. Strain 5416T-29T did not show more than 88 % 16S rRNA gene sequence similarity to the type strain of any recognized species. The major cellular fatty acids were C16 : 1 ω5c, iso-C17 : 0 3-OH and iso-C15 : 0. The polar lipids were phosphatidylethanolamine, one unknown amino lipid and several unknown polar lipids. Menaquinone-7 (MK-7) was the major respiratory quinone. The G+C content of the DNA of strain 5416T-29T was 45.5 mol%. Results of phenotypic and phylogenetic analyses clearly indicate that strain 5416T-29T represents a novel species of a new genus in the family Cytophagaceae, for which the name Rhodocytophaga aerolata gen. nov., sp. nov. is proposed. The type strain of Rhodocytophaga aerolata is 5416T-29T (=KACC 12507T =DSM 22190T).

scholarly journals Pedobacter glucosidilyticus sp. nov., isolated from dry riverbed soil

2010 ◽  
Vol 60 (1) ◽  
pp. 229-233 ◽  
Author(s):  
Xuesong Luo ◽  
Zhang Wang ◽  
Jun Dai ◽  
Lei Zhang ◽  
Jun Li ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Bacterial Strains ◽  
Biochemical Tests ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Major Respiratory Quinone ◽  
Physiological And Biochemical

Two Gram-staining-negative, rod-shaped, non-spore-forming bacterial strains, 1-2T and 1-4 were isolated from dry riverbed soil collected from the Xietongmen area of Tibet, China. On the basis of 16S rRNA gene sequence similarity, the novel strains were shown to belong to the genus Pedobacter, sharing <95 % sequence similarity with all recognized species of the genus Pedobacter. The major respiratory quinone was MK-7 and the predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (comprising iso-C16 : 1 ω7c and/or C16 : 1 ω6c). The DNA G+C contents were 37.2–37.6 mol%. Chemotaxonomic data supported the affiliation of the two new isolates to the genus Pedobacter and the results of physiological and biochemical tests confirmed that the new strains differed significantly from the recognized species of the genus Pedobacter. Therefore, the new isolates represent a novel species within the genus Pedobacter, for which the name Pedobacter glucosidilyticus sp. nov. is proposed. The type strain is 1-2T (=CCTCC AB 206110T=KCTC 22438T).

scholarly journals Chimaereicella boritolerans sp. nov., a boron-tolerant and alkaliphilic bacterium of the family Flavobacteriaceae isolated from soil

2007 ◽  
Vol 57 (5) ◽  
pp. 986-992 ◽  
Author(s):  
Iftikhar Ahmed ◽  
Akira Yokota ◽  
Toru Fujiwara
Keyword(s):  
Phylogenetic Analysis ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
The Family ◽  
Boron Minerals ◽  
Major Respiratory Quinone ◽  
Ph Range ◽  
Alkaliphilic Bacterium

A non-motile, Gram-negative, boron-tolerant and alkaliphilic bacterium was isolated from soil of the Hisarcik area in the Kutahya Province of Turkey that was naturally high in boron minerals. The novel isolate, designated T-22T, formed rod-shaped cells, was catalase- and oxidase-positive and tolerated up to 300 mM boron. The strain also survived on agar medium containing up to 3 % (w/v) NaCl. The pH range for growth of this strain was 6.5–10.0 (optimum pH 8.0–9.0) and the temperature range was 16–37 °C (optimum 28–30 °C). Phylogenetic analysis based on 16S rRNA gene sequences revealed a clear affiliation with the genus Chimaereicella, with 97.4 % sequence similarity to Chimaereicella alkaliphila AC-74T, which was the highest similarity among cultivated bacteria. The DNA–DNA relatedness with C. alkaliphila AC-74T was 28.3 %. The major respiratory quinone system was MK-7 and the predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 1 ω9c, iso-C17 : 0 3-OH and summed feature 3 (iso-C15 : 0 2-OH and/or iso-C16 : 1 ω7c). The DNA G+C content was 42.5 mol%. Based on the phylogenetic analysis and physiological, chemotaxonomic and genetic data, we concluded that strain T-22T should be classified in the genus Chimaereicella, and we propose the name Chimaereicella boritolerans sp. nov. for this novel species. The type strain is strain T-22T (=DSM 17298T=NBRC 101277T=ATCC BAA-1189T).

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