scholarly journals Bacillus selenatarsenatis sp. nov., a selenate- and arsenate-reducing bacterium isolated from the effluent drain of a glass-manufacturing plant

2007 ◽  
Vol 57 (5) ◽  
pp. 1060-1064 ◽  
Author(s):  
Shigeki Yamamura ◽  
Mitsuo Yamashita ◽  
Noriyuki Fujimoto ◽  
Masashi Kuroda ◽  
Masami Kashiwa ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Electron Acceptors ◽  
Rrna Gene ◽  
Manufacturing Plant ◽  
Contaminated Sediment ◽  
Rrna Gene Sequence ◽  
Phenotypic Differences

A facultatively anaerobic, selenate- and arsenate-reducing bacterium, designated strain SF-1T, was isolated from a selenium-contaminated sediment obtained from an effluent drain of a glass-manufacturing plant in Japan. The bacterium stained Gram-positive and was a motile, spore-forming rod capable of respiring with selenate, arsenate and nitrate as terminal electron acceptors. The major cellular fatty acids of the strain were iso-C15 : 0, iso-C17 : 1 ω10c and C16 : 1 ω7c alcohol. The G+C content of the genomic DNA was 42.8 mol%. Though the nearest phylogenetic neighbour was Bacillus jeotgali JCM 10885T, with a 16S rRNA gene sequence similarity of 99.6 %, DNA–DNA hybridization studies showed only 14 % relatedness between these strains, a level that is clearly below the value recommended to delimit different species. This, together with the phenotypic differences (utilization of electron acceptors, NaCl tolerance), suggests that strain SF-1T represents a novel species of the genus Bacillus, for which the name Bacillus selenatarsenatis sp. nov. is proposed. The type strain is SF-1T (=JCM 14380T=DSM 18680T).

scholarly journals Arthrobacter gangotriensis sp. nov. and Arthrobacter kerguelensis sp. nov. from Antarctica

2004 ◽  
Vol 54 (6) ◽  
pp. 2375-2378 ◽  
Author(s):  
P. Gupta ◽  
G. S. N. Reddy ◽  
D. Delille ◽  
S. Shivaji
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Sea Water ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Differences ◽  
Indian Station

Two coryneform bacteria were isolated from a penguin rookery soil sample collected in Antarctica, near the Indian station Dakshin Gangotri (strain Lz1yT), and from sea water from Kerguelen island, Antarctica (strain KGN15T). They have morphological and chemotaxonomic properties (peptidoglycan A4α type; major menaquinones MK-8, MK-9 and MK-10; predominant fatty acids anteiso-C15 : 0 and anteiso-C17 : 0) that are characteristic of members of the genus Arthrobacter. The isolates shared 97·8 % 16S rRNA gene sequence similarity to each other and were most closely related to Arthrobacter sulfureus (about 98·5 % sequence similarity). DNA–DNA hybridization experiments revealed 50 % relatedness between the isolates, while the levels of DNA–DNA relatedness between strains Lz1yT and KGN15 T and their phylogenetic relative, A. sulfureus, were respectively 54 and 12 %. Based on the above data and distinct phenotypic differences between the isolates and A. sulfureus, two novel species are proposed, Arthrobacter gangotriensis sp. nov. (type strain Lz1yT=DSM 15796T=JCM 12166T) and Arthrobacter kerguelensis sp. nov. (type strain KGN15T=DSM 15797T=JCM 12165T).

scholarly journals Tetrathiobacter mimigardefordensis sp. nov., isolated from compost, a betaproteobacterium capable of utilizing the organic disulfide 3,3′-dithiodipropionic acid

2006 ◽  
Vol 56 (6) ◽  
pp. 1305-1310 ◽  
Author(s):  
Jan Hendrik Wübbeler ◽  
Tina Lütke-Eversloh ◽  
Stefanie Van Trappen ◽  
Peter Vandamme ◽  
Alexander Steinbüchel
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Alcaligenes Faecalis ◽  
Rrna Gene ◽  
Fatty Acid Profiles ◽  
Rrna Gene Sequence ◽  
Nearest Neighbours ◽  
The 16S Rrna Gene

In this study, a novel betaproteobacterium, strain DPN7T, was isolated under mesophilic conditions from compost because of its capacity to utilize the organic disulfide 3,3′-dithiodipropionic acid. Analysis of the 16S rRNA gene sequence of strain DPN7T revealed 98.5 % similarity to that of Tetrathiobacter kashmirensis LMG 22695T. Values for sequence similarity to members of the genera Alcaligenes, Castellaniella and Taylorella, the nearest neighbours of the genus Tetrathiobacter, were about 95 % or less. The DNA G+C content of strain DPN7T was 55.1 mol%. The level of DNA–DNA hybridization between strain DPN7T and T. kashmirensis LMG 22695T was 41 %, whereas it was much lower between strain DPN7T and Alcaligenes faecalis LMG 1229T (7 %) or Castellaniella defragrans LMG 18538T (5 %). This genotypic divergence was supported by differences in biochemical and chemotaxonomic characteristics. For this reason, and because of the differences in the protein and fatty acid profiles, strain DPN7T should be classified within a novel species of Tetrathiobacter, for which the name Tetrathiobacter mimigardefordensis sp. nov. is proposed. The type strain is strain DPN7T (=DSM 17166T=LMG 22922T).

scholarly journals Agromyces arachidissp. nov. Isolated from a Peanut (Arachis hypogaea) Crop Field

2013 ◽  
Vol 2013 ◽  
pp. 1-6 ◽  
Author(s):  
Chandandeep Kaur ◽  
Anil Kumar Pinnaka ◽  
Nitin Kumar Singh ◽  
Monu Bala ◽  
Shanmugam Mayilraj
Keyword(s):  
Arachis Hypogaea ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Crop Field ◽  
Bacterium Strain ◽  
The 16S Rrna Gene

A Gram-positive, yellowish bacterium strain AK-1Twas isolated from soil sample collected from peanut (Arachis hypogaea) crop field and studied by using a polyphasic approach. The organism had morphological and chemotaxonomic properties consistent with its classification in the genusAgromyces. Phylogenetic analysis of the 16S rRNA gene sequence showed that strain AK-1Twas closely related toAgromyces aurantiacus(98.6%) followed byAgromyces soli(98.3%),Agromyces tropicus(97.6%),Agromyces ulmi(97.3%),Agromyces flavus(97.2%), andAgromyces italicus(97.0%), whereas the sequence similarity values with respect to the otherAgromycesspecies with validly published names were between 95.3 and 96.7 %. However, the DNA-DNA hybridization values obtained between strain AK-1Tand other related strains were well below the threshold that is required for the proposal of a novel species. The DNAG+Ccontent of the strain is 71.8 mol%. The above data in combination with the phenotypic distinctiveness of AK-1Tclearly indicate that the strain represents a novel species, for which the nameAgromyces arachidissp. nov. is proposed. The type strain is AK-1T(=MTCC 10524T= JCM 19251T).

scholarly journals Description of Shewanella glacialipiscicola sp. nov. and Shewanella algidipiscicola sp. nov., isolated from marine fish of the Danish Baltic Sea, and proposal that Shewanella affinis is a later heterotypic synonym of Shewanella colwelliana

2007 ◽  
Vol 57 (2) ◽  
pp. 347-352 ◽  
Author(s):  
Masataka Satomi ◽  
Birte Fonnesbech Vogel ◽  
Kasthuri Venkateswaran ◽  
Lone Gram
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Group 2 ◽  
Type Strains ◽  
Group 1

Two novel species belonging to the genus Shewanella are described on the basis of a polyphasic taxonomic approach. A total of 40 strains of Gram-negative, psychrotolerant, H2S-producing bacteria were isolated from marine fish (cod and plaice) caught in the Baltic Sea off Denmark. Strains belonging to group 1 (seven strains) were a lactate-assimilating variant of Shewanella morhuae with a G+C content of 44 mol%. The strains of group 2 (33 strains) utilized lactate, N-acetylglucosamine and malate but did not produce DNase or ornithine decarboxylase. Their G+C content was 47 mol%. Phylogenetic analysis of the 16S rRNA gene sequence data placed the two novel species within the genus Shewanella. Group 1 showed greatest sequence similarity with S. morhuae ATCC BAA-1205T (99.9 %). However, gyrB gene sequence analysis and DNA–DNA hybridization differentiated these isolates from S. morhuae, with 95.6 % sequence similarity and less than 57 % DNA relatedness, respectively. Group 2 strains shared more than 99 % 16S rRNA gene sequence similarity with the type strains of Shewanella colwelliana and Shewanella affinis, but gyrB sequence similarity (~85 %) and the results of DNA hybridization (~28 %) indicated that the new isolates represented a novel species. Furthermore, when compared to each other, the type strains of S. colwelliana and S. affinis had almost identical gyrB sequences and significantly high DNA reassociation values (76–83 %), indicating that they belonged to the same species. Based on the conclusions of this study, we propose the novel species Shewanella glacialipiscicola sp. nov. (type strain T147T=LMG 23744T=NBRC 102030T) for group 1 strains and Shewanella algidipiscicola sp. nov. (type strain S13T=LMG 23746T=NBRC 102032T) for group 2 strains, and we propose that Shewanella affinis as a later heterotypic synonym of Shewanella colwelliana.

scholarly journals Dyadobacter beijingensis sp. nov., isolated from the rhizosphere of turf grasses in China

2007 ◽  
Vol 57 (4) ◽  
pp. 862-865 ◽  
Author(s):  
Zhi Dong ◽  
Xiaoyu Guo ◽  
Xiaoxia Zhang ◽  
Fubin Qiu ◽  
Lei Sun ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Reclaimed Water ◽  
Rrna Gene ◽  
Rhizospheric Soil ◽  
Rrna Gene Sequence ◽  
Beijing China ◽  
Type Strains

Strain A54T was isolated from rhizospheric soil of turf grasses irrigated with reclaimed water in Taoranting Park, Beijing, China. Phenotypic, chemotaxonomic and polygenetic analyses established the affiliation of the isolate to the genus Dyadobacter. Strain A54T possessed 97.7, 94.4 and 94.7 % 16S rRNA gene sequence similarity with respect to the type strains of Dyadobacter fermentans, D. hamtensis and D. crusticola, respectively. Furthermore, DNA–DNA hybridization did not show significant relatedness (<25 % hybridization) between strain A54T and D. fermentans ATCC 700827T. Therefore, these results indicate that strain A54T belongs to a novel species of the genus Dyadobacter, for which the name Dyadobacter beijingensis sp. nov. is proposed. The type strain is strain A54T (=CGMCC 1.6375T=JCM 14200T).

scholarly journals Saccharothrix ecbatanensis sp. nov., an actinobacterium isolated from soil

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4544-4549 ◽  
Author(s):  
Fatemeh Mohammadipanah ◽  
Javad Hamedi ◽  
Peter Schumann ◽  
Cathrin Spröer ◽  
María del Carmen Montero-Calasanz ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Unknown Phospholipid ◽  
Hamedan Province

A novel actinomycete, designated HM 537T, was isolated from soil in Hamedan Province, Iran. Cell-wall hydrolysates of strain HM 537T contained meso-diaminopimelic acid, and whole-cell hydrolysates contained ribose, glucose, galactose, rhamnose and traces of mannose. The main phospholipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol and an unknown phospholipid. MK-9(H4), an unknown MK and MK-10(H4) were the predominant menaquinones. The major fatty acids included iso-C16 : 0, iso-C15 : 0, iso-C16 : 1 G and 9(?)-methyl C16 : 0. Strain HM 537T had the highest 16S rRNA gene sequence similarity to Saccharothrix hoggarensis DSM 45457T (99.5 %) and Saccharothrix saharensis DSM 45456T (99.0 %). DNA–DNA hybridization studies showed relatedness values of 13.8 ± 3.3 % with S. hoggarensis DSM 45457T and 16.3 ± 3.5 % with S. saharensis DSM 45456T. Based on the results of phenotypic and genotypic studies, strain HM 537T represents a novel species of the genus Saccharothrix, for which the name Saccharothrix ecbatanensis sp. nov. is proposed. The type strain is HM 537T ( = DSM 45486T = UTMC 00537T = CCUG 63021T).

scholarly journals Virgibacillus olivae sp. nov., isolated from waste wash-water from processing of Spanish-style green olives

2007 ◽  
Vol 57 (5) ◽  
pp. 906-910 ◽  
Author(s):  
Teresa Quesada ◽  
Margarita Aguilera ◽  
José Antonio Morillo ◽  
Alberto Ramos-Cormenzana ◽  
Mercedes Monteoliva-Sánchez
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Carbon Sources ◽  
Wash Water ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Phenotypic Differences ◽  
The 16S Rrna Gene

Four bacterial strains (E308T, E5549, I3077 and N30129) were isolated from the residual wash-water produced during the processing of Spanish-style green table olives. The isolates were subjected to a polyphasic taxonomic study using phenotypic, phylogenetic and genotypic methods. The bacteria were Gram-positive, spore-forming rods. Moreover, they were heterotrophs that were able to utilize cellobiose, glucose, mannose and rhamnose as carbon sources. The G+C content of their genomic DNA ranged from 30.7 to 33.4 mol%. The major cellular fatty acids found in strain E308T were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0 and anteiso-C17 : 0. DNA–DNA hybridization shows 76.2–88.3 % relatedness among the four strains. The 16S rRNA gene sequence of isolate E308T shows that it belongs to the genus Virgibacillus, with the highest sequence similarity (99 %) to Virgibacillus marismortui 123T. However, phenotypic differences and DNA–DNA relatedness between strain E308T and V. marismortui ATCC 700626T of less than 47 % suggest the placement of these strains within a novel species of the genus Virgibacillus. The name Virgibacillus olivae sp. nov. is proposed, with strain E308T (=LMG 23503T=DSM 18098T) as the type strain.

Weissella diestrammenae sp. nov., isolated from the gut of a camel cricket (Diestrammena coreana)

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2951-2956 ◽  
Author(s):  
Sei Joon Oh ◽  
Na-Ri Shin ◽  
Dong-Wook Hyun ◽  
Pil Soo Kim ◽  
Joon Yong Kim ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
The 16S Rrna Gene

A novel, Gram-stain-positive, non-motile, facultatively anaerobic, rod- or coccoid-shaped bacterium, designated strain ORY33T, was isolated from the gut of a camel cricket (Diestrammena coreana). The 16S rRNA gene sequence analysis showed that strain ORY33T belonged to the genus Weissella , with highest sequence similarity to Weissella koreensis S-5623T (97.7 %). The strain grew optimally at 30 °C and pH 7 in the presence of 0 % (w/v) NaCl. Catalase and oxidase activities were negative. The genomic DNA G+C content of strain ORY33T was 45.1 mol%. DNA–DNA hybridization values between strain ORY33T and closely related members of the genus Weissella were less than 27 %. The major fatty acids of strain ORY33T were C18 : 1ω9c, C16 : 0 and C14 : 0. Based on these phenotypic, phylogenetic and genotypic analyses, strain ORY33T represents a novel species belonging to the genus Weissella , for which the name Weissella diestrammenae sp. nov. is proposed. The type strain is ORY33T ( = KACC 16890T = JCM 18559T).

scholarly journals Chryseobacterium vrystaatense sp. nov., isolated from raw chicken in a chicken-processing plant

2005 ◽  
Vol 55 (5) ◽  
pp. 2149-2153 ◽  
Author(s):  
Hanli de Beer ◽  
Celia J. Hugo ◽  
Piet J. Jooste ◽  
Anne Willems ◽  
Marc Vancanneyt ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Processing Plant ◽  
Rrna Gene Sequence ◽  
Reference Species ◽  
Taxonomic Approach ◽  
Gram Negative Organisms

Yellow-pigmented, Gram-negative organisms isolated from raw chicken were investigated by means of a polyphasic taxonomic approach and were shown to represent a novel species in the genus Chryseobacterium, for which the name Chryseobacterium vrystaatense sp. nov. is proposed. Its nearest phylogenetic neighbours were Chryseobacterium joostei, Chryseobacterium indologenes and Chryseobacterium gleum, which showed 16S rRNA gene sequence similarity levels of 96·9, 97·1 and 96·1 %, respectively. Levels of DNA–DNA hybridization between strains of C. vrystaatense and Chryseobacterium reference species were below 46 %. Strain LMG 22846T (=CCUG 50970T) was chosen as the type strain and has a DNA G+C content of 37·1 mol%.

scholarly journals Mesonia phycicola sp. nov., isolated from seaweed, and emended description of the genus Mesonia

2010 ◽  
Vol 60 (3) ◽  
pp. 591-594 ◽  
Author(s):  
Hye Soon Kang ◽  
Soon Dong Lee
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Inference ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Positive Bacterium ◽  
Phenotypic Data ◽  
Emended Description

An aerobic, Gram-reaction-negative, non-motile, catalase- and oxidase-positive bacterium, designated strain MDSW-25T, was isolated from seaweed collected in the vicinity of Mara Island in Jeju province, Republic of Korea. Colonies were smooth, circular and convex with entire edges and yellow in colour. Growth occurred at 10–30 °C, at pH 6.1–9.1 and in the presence of 1–12 % (w/v) NaCl. The major fatty acids were iso-C15 : 0 (25.6 %) and iso-C15 : 1 G (11.3 %), and the major menaquinone was MK-6. The DNA G+C content was 30.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequence showed that strain MDSW-25T belonged to the genus Mesonia, family Flavobacteriaceae. Sequence similarity with Mesonia mobilis and Mesonia algae was 97.5 and 95.4 %, respectively, but DNA relatedness between strain MDSW-25T and M. mobilis KCTC 12708T was only 47 %. A battery of phenotypic data, phylogenetic inference and DNA–DNA hybridization analyses supports the conclusion that strain MDSW-25T (=KCTC 22373T =DSM 21425T) represents a novel species of the genus Mesonia, for which the name Mesonia phycicola sp. nov. is proposed. On the basis of new data obtained in this study, an emended description of the genus Mesonia is also proposed.

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