Deinococcus cellulosilyticus sp. nov., isolated from air

2007 ◽  
Vol 57 (8) ◽  
pp. 1685-1688 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Peter Schumann ◽  
Jung-A Son ◽  
Jaeseon Jang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Unknown Phospholipid ◽  
Air Sample

A pink-coloured bacterial strain, 5516J-15T, was isolated from an air sample from Jeju Island, Republic of Korea. The organism was found to have resistance to UV radiation typical of members of the genus Deinococcus, and it was placed within the radiation of the Deinococcus on a phylogenetic tree based on 16S rRNA gene sequences. Strain 5516J-15T shared low 16S rRNA gene sequence similarity (84.5–87.8 %) with Deinococcus species, showing highest sequence similarity to Deinococcus deserti VCD115T (87.8 %) and Deinococcus indicus Wt/1aT (87.8 %). Strain 5516J-15T had type A3β peptidoglycan with l-ornithine, menaquinone 8 (MK-8) as the major quinone and iso-C12 : 0, anteiso-C13 : 0, iso-C16 : 0 and C16 : 0 as the major fatty acids. Its polar lipid profile contained three unknown aminophospholipids, two unknown polar lipids, one unknown phospholipid and one unknown glycolipid. The DNA G+C content of strain 5516J-15T was 61.3 mol%. Based on the phylogenetic and phenotypic data presented, it is proposed that the unknown strain should be classified within a novel species in the genus Deinococcus with the name Deinococcus cellulosilyticus sp. nov. The type strain is 5516J-15T (=KACC 11606T =DSM 18568T).

scholarly journals Pontibacter chinhatensis sp. nov., isolated from pond sediment containing discarded hexachlorocyclohexane isomer waste

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2248-2254 ◽  
Author(s):  
Amit Kumar Singh ◽  
Nidhi Garg ◽  
Rup Lal
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
Pond Sediment ◽  
The 16S Rrna Gene

A halotolerant, Gram-negative, rod-shaped and light-red-pigmented bacterium, designated LP51T, was isolated from pond sediment near a hexachlorocyclohexane dumpsite located at Chinhat, Lucknow, India. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain LP51T formed a distinct phyletic clade along with the members of the genus Pontibacter. The 16S rRNA gene sequence similarity to members of the genus Pontibacter ranged from 94.2 to 99.4  %. The cells were motile, aerobic and catalase- and oxidase-positive. The major fatty acids were iso-C15  :  0 (17.8  %), iso-C15  :  0 3-OH (8.8  %), iso-C17  :  0 3-OH (5.7  %), summed feature 3 (C16  :  1ω7c and/or C16  :  1ω6c; 6.5  %) and summed feature 4 (iso-C17  :  1 I and/or anteiso-C17  :  1 B; 30.7  %). The polar lipid profile of strain LP51T showed the presence of phosphatidylethanolamine, an unidentified aminophospholipid, unknown aminolipids, unknown polar lipids and unknown glycolipids. DNA–DNA relatedness of strain LP51T with respect to the most closely related type strain, Pontibacter korlensis X14-1T, was 47.2  %. On the basis of this information, it is proposed that the isolate be assigned to a novel species of the genus Pontibacter, for which the name Pontibacter chinhatensis sp. nov. is proposed. The type strain is LP51T ( = CCM 8436T = MCC 2070T).

scholarly journals Terrimonas aquatica sp. nov., isolated from a freshwater spring

2010 ◽  
Vol 60 (12) ◽  
pp. 2705-2709 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Nian-Tsz Cho ◽  
A. B. Arun ◽  
Wen-Ming Chen
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Freshwater Spring

A yellow-pigmented bacterial strain, designated RIB1-6T, was isolated from a freshwater spring in Taiwan. Strain RIB1-6T was aerobic, Gram-negative, rod-shaped, non-motile and non-spore-forming. Growth occurred at 10–37 °C, at pH 7–8 and with 0–1 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain RIB1-6T belonged to the genus Terrimonas and its two closest neighbours were Terrimonas ferruginea ATCC 13524T and Terrimonas lutea DYT (16S rRNA gene sequence similarity 97.4 % and 93.5 %, respectively). Strain RIB1-6T contained iso-C15 : 0 (33.4 %), iso-C17 : 0 3-OH (18.2 %), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c; 14.7 %) and iso-C15 : 1 (11.5 %) as the predominant fatty acids. The major isoprenoid quinone was MK-7. The DNA G+C content of strain RIB1-6T was 47.3 mol%. On the basis of the genotypic and phenotypic data, strain RIB1-6T represents a novel species in the genus Terrimonas, for which the name Terrimonas aquatica sp. nov. is proposed. The type strain is RIB1-6T (=BCRC 17941T=LMG 24825T).

scholarly journals Sphingomonas fonticola sp. nov., isolated from spring water

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4495-4502 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Yi-Ling Chen ◽  
Wen-Ming Chen
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Spring Water ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Data ◽  
Polar Lipid Profile

A bacterial strain designated TNR-2T was isolated from spring water in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain TNR-2T were aerobic, Gram-stain-negative, straight rods, motile by a single polar flagellum and containing poly-β-hydroxybutyrate. The cells were covered by large capsules and formed yellow colonies. Growth occurred at 15–37 °C (optimum, 20–30 °C), with 0–1.0 % NaCl (optimum, 0–0.1 %) and at pH 5.0–8.0 (optimum, pH 6.0). According to a phylogenetic tree based on 16S rRNA gene sequence analysis, strain TNR-2T belonged to the genus Sphingomonas and clustered with Sphingomonas alpina S8-3T, with which it shared the highest 16S rRNA gene sequence similarity (95.6 %). The major fatty acids (>10 %) of strain TNR-2T were C18 : 1ω7c, C17 : 1ω6c and C16 : 0. The DNA G+C content was 62.8 mol%. The major isoprenoid quinone was Q-10. The major polyamine was homospermidine. The polar lipid profile consisted of sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylcholine, diphosphatidylglycerol, two uncharacterized glycolipids and an uncharacterized phospholipid. Phenotypic characteristics of the novel strain differed from those of the closest related species of the genus Sphingomonas. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain TNR-2T represents a novel species in the genus Sphingomonas, for which the name Sphingomonas fonticola sp. nov. is proposed. The type strain is TNR-2T ( = BCRC 80539T = LMG 27384T = KCTC 32258T).

Dyella thiooxydans sp. nov., a facultatively chemolithotrophic, thiosulfate-oxidizing bacterium isolated from rhizosphere soil of sunflower (Helianthus annuus L.)

2011 ◽  
Vol 61 (2) ◽  
pp. 392-398 ◽  
Author(s):  
Rangasamy Anandham ◽  
Soon-Wo Kwon ◽  
Pandiyan Indira Gandhi ◽  
Soo-Jin Kim ◽  
Hang-Yeon Weon ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Helianthus Annuus ◽  
Gene Sequence ◽  
Rhizosphere Soil ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Unknown Phospholipid

A Gram-negative, aerobic, motile, rod-shaped, thiosulfate-oxidizing bacterium, designated ATSB10T, was isolated from rhizosphere soil of sunflower (Helianthus annuus L.). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain ATSB10T was closely related to members of the genera Dyella (96.4–98.1 % 16S rRNA gene sequence similarity) and Luteibacter (96.4–97.0 %) and Fulvimonas soli LMG 19981T (96.7 %) and Frateuria aurantia IFO 3245T (97.8 %). The predominant fatty acids were iso-C16 : 0, iso-C17 : 1 ω9c and iso-C15 : 0. The major quinone was Q-8. The G+C content of the genomic DNA was 66.0 mol%. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidyldimethylethanolamine, an unknown phospholipid, unknown aminophospholipids and an unknown aminolipid. On the basis of phenotypic properties, phylogenetic distinctiveness and DNA–DNA relatedness, strain ATSB10T represents a novel species in the genus Dyella, for which the name Dyella thiooxydans sp. nov. is proposed. The type strain is ATSB10T (=KACC 12756T =LMG 24673T).

scholarly journals Pseudomonas bauzanensis sp. nov., isolated from soil

2011 ◽  
Vol 61 (10) ◽  
pp. 2333-2337 ◽  
Author(s):  
De-Chao Zhang ◽  
Hong-Can Liu ◽  
Yu-Guang Zhou ◽  
Franz Schinner ◽  
Rosa Margesin
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Unknown Phospholipid

A Gram-negative, aerobic, motile rod, designated BZ93T, was isolated from soil from an industrial site. The strain grew at 5–30 °C. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain BZ93T was related to members of the genus Pseudomonas and was related most closely to Pseudomonas xiamenensis C10-2T (97.8 % 16S rRNA gene sequence similarity) and Pseudomonas pertucinogena IFO 14163T (97.4 %). The predominant cellular fatty acids of strain BZ93T were C18 : 1ω7c (54.8 %), summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH; 10.3 %), C16 : 0 (9.9 %) and C17 : 0 cyclo (7.4 %). The major quinone was ubiquinone 9. The major phospholipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and an unknown phospholipid. The genomic DNA G+C content was 61.8 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness, a novel species, Pseudomonas bauzanensis sp. nov., is proposed. The type strain is BZ93T ( = DSM 22558T  = CGMCC 1.9095T = LMG 26048T).

Chitinophaga eiseniae sp. nov., isolated from vermicompost

2011 ◽  
Vol 61 (10) ◽  
pp. 2373-2378 ◽  
Author(s):  
Muhammad Yasir ◽  
Eu Jin Chung ◽  
Geun Cheol Song ◽  
Fehmida Bibi ◽  
Che Ok Jeon ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
The Family ◽  
Total Dna ◽  
Taxonomic Approach

A Gram-negative, rod-shaped bacterial strain, YC6729T, was isolated from vermicompost collected at Masan, Korea, and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729T grew optimally at 30 °C and at pH 6.5–8.5. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YC6729T belongs to the genus Chitinophaga in the family Chitinophagaceae. It was related most closely to Chitinophaga terrae KP01T (96.4 % 16S rRNA gene sequence similarity), Chitinophaga ginsengisegetis Gsoil 040T (96.1 %), Chitinophaga arvensicola IAM 12650T (96.1 %) and Chitinophaga pinensis DSM 2588T (93.3 %). Strain YC6729T contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The fatty acids of strain YC6729T were iso-C15 : 0, C16 : 1ω5c, iso-C17 : 0 3-OH, C16 : 0, anteiso-C18 : 0 and/or C18 : 2ω6,9c, iso-C15 : 0 2-OH and/or C16 : 1ω7c, C14 : 0, iso-C15 : 0 3-OH, iso-C15 : 1 G, C18 : 1ω5c, iso-C15 : 1 I and/or C13 : 0 3-OH, C13 : 0 2-OH, C16 : 0 3-OH and unknown fatty acid ECL 13.565. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain YC6729T was 48.9 mol%. The phenotypic, chemotaxonomic and phylogenetic data showed that strain YC6729T represents a novel species of the genus Chitinophaga, for which the name Chitinophaga eiseniae sp. nov. is proposed. The type strain is YC6729T ( = KACC 13774T  = DSM 22224T).

scholarly journals Streptomonospora litoralis sp. nov., a halophilic thiopeptides producer isolated from sand collected at Cuxhaven beach

2021 ◽  
Author(s):  
Shadi Khodamoradi ◽  
Richard L. Hahnke ◽  
Yvonne Mast ◽  
Peter Schumann ◽  
Peter Kämpfer ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Bioinformatic Analysis ◽  
Biosynthetic Gene Cluster ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Polar Lipid Profile

AbstractStrain M2T was isolated from the beach of Cuxhaven, Wadden Sea, Germany, in course of a program to attain new producers of bioactive natural products. Strain M2T produces litoralimycin and sulfomycin-type thiopeptides. Bioinformatic analysis revealed a potential biosynthetic gene cluster encoding for the M2T thiopeptides. The strain is Gram-stain-positive, rod shaped, non-motile, spore forming, showing a yellow colony color and forms extensively branched substrate mycelium and aerial hyphae. Inferred from the 16S rRNA gene phylogeny strain M2T affiliates with the genus Streptomonospora. It shows 96.6% 16S rRNA gene sequence similarity to the type species Streptomonospora salina DSM 44593 T and forms a distinct branch with Streptomonospora sediminis DSM 45723 T with 97.0% 16S rRNA gene sequence similarity. Genome-based phylogenetic analysis revealed that M2T is closely related to Streptomonospora alba YIM 90003 T with a digital DNA-DNA hybridisation (dDDH) value of 26.6%. The predominant menaquinones of M2T are MK-10(H6), MK-10(H8), and MK-11(H6) (> 10%). Major cellular fatty acids are iso-C16:0, anteiso C17:0 and C18:0 10-methyl. The polar lipid profile consisted of diphosphatidylglycerol phosphatidyl glycerol, phosphatidylinositol, phosphatidylcholine, phosphatidylethanolamine, three glycolipids, two unknown phospholipids, and two unknown lipids. The genome size of type strain M2T is 5,878,427 bp with 72.1 mol % G + C content. Based on the results obtained from phylogenetic and chemotaxonomic studies, strain M2T (= DSM 106425 T = NCCB 100650 T) is considered to represent a novel species within the genus Streptomonospora for which the name Streptomonospora litoralis sp. nov. is proposed.

scholarly journals Paenibacillus xinjiangensis sp. nov., isolated from Xinjiang province in China

2006 ◽  
Vol 56 (11) ◽  
pp. 2579-2582 ◽  
Author(s):  
Jee-Min Lim ◽  
Che Ok Jeon ◽  
Dong-Jin Park ◽  
Li-Hua Xu ◽  
Cheng-Lin Jiang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Sequence Similarities

Strain B538T is a Gram-positive, motile, rod-shaped bacterium, which was isolated from Xinjiang province in China. This organism grew optimally at 30–35 °C and pH 8.0–8.5. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B538T belonged to the genus Paenibacillus and chemotaxonomic data (DNA G+C content, 47.0 mol%; major isoprenoid quinone, MK-7; cell wall type, A1γ meso-diaminopimelic acid; major fatty acids, anteiso-C15 : 0 and C16 : 0) supported affiliation of the isolate with the genus Paenibacillus. Comparative 16S rRNA gene sequence analyses showed that the isolate was most closely related to Paenibacillus glycanilyticus DS-1T, with 16S rRNA gene sequence similarity of 98.1 %; sequence similarities to other members of the genus Paenibacillus used in the phylogenetic tree were less than 96.5 %. The DNA–DNA relatedness between strain B538T and P. glycanilyticus DS-1T was about 8.0 %. On the basis of physiological and molecular properties, strain B538T (=KCTC 3952T=DSM 16970T) is proposed as the type strain of a novel species within the genus Paenibacillus, for which the name Paenibacillus xinjiangensis sp. nov. is proposed.

scholarly journals Marinobacter flavimaris sp. nov. and Marinobacter daepoensis sp. nov., slightly halophilic organisms isolated from sea water of the Yellow Sea in Korea

2004 ◽  
Vol 54 (5) ◽  
pp. 1799-1803 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Soo-Hwan Yeo ◽  
In-Gi Kim ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sea Water ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Type Strains

Two Gram-negative, motile, non-spore-forming and slightly halophilic rods (strains SW-145T and SW-156T) were isolated from sea water of the Yellow Sea in Korea. Strains SW-145T and SW-156T grew optimally at 37 and 30–37 °C, respectively, and in the presence of 2–6 % (w/v) NaCl. Strains SW-145T and SW-156T were chemotaxonomically characterized as having ubiquinone-9 as the predominant respiratory lipoquinone and C16 : 0, C18 : 1 ω9c, C16 : 1 ω9c and C12 : 0 3-OH as the major fatty acids. The DNA G+C contents of strains SW-145T and SW-156T were 58 and 57 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains SW-145T and SW-156T fell within the evolutionary radiation enclosed by the genus Marinobacter. The 16S rRNA gene sequences of strains SW-145T and SW-156T were 94·8 % similar. Strains SW-145T and SW-156T exhibited 16S rRNA gene sequence similarity levels of 94·3–98·1 and 95·4–97·7 %, respectively, with respect to the type strains of all Marinobacter species. Levels of DNA–DNA relatedness, together with 16S rRNA gene sequence similarity values, indicated that strains SW-145T and SW-156T are members of two species that are distinct from seven Marinobacter species with validly published names. On the basis of phenotypic properties and phylogenetic and genotypic distinctiveness, strains SW-145T (=KCTC 12185T=DSM 16070T) and SW-156T (=KCTC 12184T=DSM 16072T) should be placed in the genus Marinobacter as the type strains of two distinct novel species, for which the names Marinobacter flavimaris sp. nov. and Marinobacter daepoensis sp. nov. are proposed.

scholarly journals Pseudonocardia kunmingensis sp. nov., an actinobacterium isolated from surface-sterilized roots of Artemisia annua L.

2011 ◽  
Vol 61 (9) ◽  
pp. 2292-2297 ◽  
Author(s):  
Guo-Zhen Zhao ◽  
Jie Li ◽  
Hai-Yu Huang ◽  
Wen-Yong Zhu ◽  
Dong-Jin Park ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Artemisia Annua ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
West China ◽  
Sequence Similarities

A Gram-positive, aerobic, actinobacterial strain with rod-shaped spores, designated YIM 63158T, was isolated from the surface-sterilized roots of Artemisia annua L. collected from Yunnan province, south-west China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 63158T belonged to the genus Pseudonocardia. The closest neighbours were ‘Pseudonocardia sichuanensis’ KLBMP 1115 (99.9 % 16S rRNA gene sequence similarity), Pseudonocardia adelaidensis EUM 221T (99.1 %) and Pseudonocardia zijingensis DSM 44774T (98.8 %); sequence similarities to other members of the genus Pseudonocardia ranged from 98.6 to 94.4 %. The chemotaxonomic characteristics, such as the cell-wall diaminopimelic acid, whole-cell sugars, fatty acid components and major menaquinones, suggested that the isolate belonged to the genus Pseudonocardia. The G+C content of the genomic DNA was 73.3 mol%. On the basis of physiological, biochemical and chemotaxonomic data, including low DNA–DNA relatedness between the isolate and other members of the genus Pseudonocardia, it is proposed that strain YIM 63158T represents a novel species in this genus, with the name Pseudonocardia kunmingensis sp. nov. The type strain is YIM 63158T ( = DSM 45301T  = CCTCC AA 208081T).

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