scholarly journals Isoptericola hypogeus sp. nov., isolated from the Roman catacomb of Domitilla

2005 ◽  
Vol 55 (4) ◽  
pp. 1715-1719 ◽  
Author(s):  
Ingrid Groth ◽  
Peter Schumann ◽  
Barbara Schütze ◽  
Juan M. Gonzalez ◽  
Leonila Laiz ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Phenotypic Characterization ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
Rrna Gene Sequence ◽  
Dna Relatedness ◽  
The 16S Rrna Gene

In order to clarify the taxonomic position of an actinobacterium from the Roman catacomb of Domitilla, a combination of phenotypic characterization, phylogenetic analysis based on the 16S rRNA gene sequence and DNA–DNA relatedness studies was used. The results from the polyphasic taxonomic study of this organism showed that strain HKI 0342T (=DSM 16849T=NCIMB 14033T) should be considered as the type strain of a novel species of the genus Isoptericola, for which the name Isoptericola hypogeus sp. nov. is proposed.

scholarly journals Polyphasic taxonomic study of strain CCM 2783 resulting in the description of Arthrobacter stackebrandtii sp. nov.

2005 ◽  
Vol 55 (2) ◽  
pp. 805-808 ◽  
Author(s):  
Ludmila Tvrzová ◽  
Peter Schumann ◽  
Cathrin Spröer ◽  
Ivo Sedláček ◽  
Susanne Verbarg ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
Rrna Gene Sequence ◽  
Dna Relatedness ◽  
Arthrobacter Aurescens ◽  
Gene Sequence Analysis

Strain CCM 2783, previously classified as representing Arthrobacter aurescens, was subjected to a polyphasic taxonomic study. 16S rRNA gene sequence analysis and chemotaxonomic characteristics such as peptidoglycan type A3α Lys–Ala2, major menaquinone MK-9(H2) and fatty acid composition confirmed assignment of the strain to the genus Arthrobacter. The results of phylogenetic analysis, DNA–DNA relatedness experiments and physiological and chemotaxonomic characteristics indicate that CCM 2783 differs from its nearest phylogenetic relative Arthrobacter psychrolactophilus and from other recognized Arthrobacter species. Therefore, a novel species, Arthrobacter stackebrandtii sp. nov., is proposed with the type strain CCM 2783T (=DSM 16005T).

scholarly journals Lactobacillus farraginis sp. nov. and Lactobacillus parafarraginis sp. nov., heterofermentative lactobacilli isolated from a compost of distilled shochu residue

2007 ◽  
Vol 57 (4) ◽  
pp. 708-712 ◽  
Author(s):  
Akihito Endo ◽  
Sanae Okada
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Dna Relatedness ◽  
Clear Separation ◽  
Micro Organisms

Five strains of lactic acid bacteria were isolated from a compost of distilled shochu residue in Japan. The isolates were separated into two groups on the basis of 16S rRNA gene sequence similarity, and two subclusters were formed that comprised micro-organisms closely related to Lactobacillus buchneri, L. diolivorans, L. hilgardii, L. kefiri, L. parabuchneri and L. parakefiri. DNA–DNA relatedness results revealed that the isolates could be separated into two groups, and these groups correlated well with the subclusters generated using the phylogenetic analysis. Moreover, the levels of DNA–DNA relatedness showed clear separation of the two groups from their phylogenetic relatives. Therefore, the two groups represent two novel species, for which the names Lactobacillus farraginis sp. nov. (type strain NRIC 0676T=JCM 14108T=DSM 18382T) and Lactobacillus parafarraginis sp. nov. (type strain NRIC 0677T=JCM 14109T=DSM 18390T) are proposed.

scholarly journals Corynebacterium marinum sp. nov. isolated from coastal sediment

2010 ◽  
Vol 60 (8) ◽  
pp. 1944-1947 ◽  
Author(s):  
Zong-Jun Du ◽  
Elizabeth M. Jordan ◽  
Alejandro P. Rooney ◽  
Guan-Jun Chen ◽  
Brian Austin
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Coastal Sediment ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
Rrna Gene Sequence ◽  
Power Station ◽  
Dna Relatedness

A taxonomic study was performed on strain D7015T, which was isolated from coastal sediment close to a coal-fired power station in Qingdao, China. Cells of strain D7015T were Gram-positive, non-motile, diphtheroid rods that grew in the presence of 0–8 % (w/v) NaCl and at 4–37 °C, with optimum growth at 1 % (w/v) NaCl and 30–32 °C. The DNA G+C content was 65.0 mol%. The major fatty acids were C18 : 1 ω9c (56.18 %), C16 : 0 (38.02 %), C16 : 1 ω7c (4.45 %), C18 : 0 (1.0 %) and C14 : 0 (0.35 %). On the basis of morphological, physiological and phylogenetic characteristics, strain D7015T was classified in the genus Corynebacterium. It exhibited a 16S rRNA gene sequence similarity of 95.9 % and a DNA–DNA relatedness value of 20.4 % with Corynebacterium halotolerans DSM 44683T. Strain D7015T was sufficiently different from recognized species of the genus Corynebacterium to be considered to represent a novel species. The name Corynebacterium marinum sp. nov. is proposed, with strain D7015T (=CGMCC 1.6998T=NRRL B-24779T) as the type strain.

scholarly journals Lactobacillus paracollinoides sp. nov., isolated from brewery environments

2004 ◽  
Vol 54 (1) ◽  
pp. 115-117 ◽  
Author(s):  
Koji Suzuki ◽  
Wataru Funahashi ◽  
Masahiro Koyanagi ◽  
Hiroshi Yamashita
Keyword(s):  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Dna Relatedness ◽  
Beer Spoilage

Three novel strains isolated from brewery environments are described. These strains were Gram-positive, facultatively anaerobic, heterofermentative rods that did not exhibit catalase activity. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that these strains belong to the genus Lactobacillus and are most closely related to Lactobacillus collinoides (approximately 99 % similarity). The novel strains could be differentiated from L. collinoides on the basis of DNA–DNA relatedness, differences in beer-spoilage ability and the inability to utilize d-fructose. These isolates represent a novel species, for which the name Lactobacillus paracollinoides sp. nov. is proposed. The type strain is LA2T (=DSM 15502T=JCM 11969T).

Sphingomonas histidinilytica sp. nov., isolated from a hexachlorocyclohexane dump site

2010 ◽  
Vol 60 (5) ◽  
pp. 1038-1043 ◽  
Author(s):  
Aeshna Nigam ◽  
Simran Jit ◽  
Rup Lal
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Separate Species ◽  
Dump Site ◽  
Dna Relatedness ◽  
Sphingomonas Wittichii ◽  
The 16S Rrna Gene

A Gram-negative, non-spore-forming, cream-coloured bacterial strain, UM2T, was isolated from an open hexachlorocyclohexane (HCH) dump site at Ummari village in Lucknow, India. Data generated from a polyphasic approach including phenotypic, genotypic and chemotaxonomic analyses confirmed that strain UM2T belonged to the genus Sphingomonas. The highest similarity found to the 16S rRNA gene sequence of strain UM2T was 99.4 %, with Sphingomonas wittichii DSM 6014T, whereas the DNA–DNA relatedness value between these strains was 31 %, indicating that they represent separate species. The DNA G+C content of UM2T was 66.9 mol%. The respiratory pigment ubiquinone Q-10 was present. The predominant fatty acids were summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c; 32.9 %), C19 : 0 cyclo ω8c (15.5 %) and C16 : 0 (12.1 %). The major polar lipids were phosphatidylcholine, phosphatidylglycerol and phosphatidyldimethylethanolamine. sym-Homospermidine was the major polyamine observed. On the basis of the data reported, it was concluded that UM2T represents a novel species of the genus Sphingomonas, for which the name Sphingomonas histidinilytica sp. nov. is proposed. The type strain is UM2T (=MTCC 9473T =CCM 7545T).

scholarly journals Paenibacillus algorifonticola sp. nov., isolated from a cold spring

2011 ◽  
Vol 61 (9) ◽  
pp. 2167-2172 ◽  
Author(s):  
Qi-Yong Tang ◽  
Na Yang ◽  
Jian Wang ◽  
Yu-Qing Xie ◽  
Biao Ren ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Gram Stain ◽  
Rrna Gene Sequence ◽  
Cold Spring ◽  
Xinjiang Uyghur Autonomous Region ◽  
The 16S Rrna Gene

A Gram-stain-positive, endospore-forming, rod-shaped bacterium, designated XJ259T, was isolated from a cold spring sample from Xinjiang Uyghur Autonomous Region, China. The isolate grew optimally at 20–30 °C and pH 7.3–7.8. Comparative analysis of the 16S rRNA gene sequence showed that isolate XJ259T belonged phylogenetically to the genus Paenibacillus, and was most closely related to Paenibacillus xinjiangensis B538T (with 96.6 % sequence similarity), Paenibacillus glycanilyticus DS-1T (96.3 %) and Paenibacillus castaneae Ch-32T (96.1 %), sharing less than 96.0 % sequence similarity with all other members of the genus Paenibacillus. Chemotaxonomic analysis revealing menaquinone-7 (MK-7) as the major isoprenoid quinone, diphosphatidylglycerol, phosphatidylethanolamine and two unknown phosphoglycolipids as the major cellular polar lipids, a DNA G+C content of 47.0 mol%, and anteiso-C15 : 0 and C16 : 0 as the major fatty acids supported affiliation of the new isolate to the genus Paenibacillus. Based on these data, isolate XJ259T is considered to represent a novel species of the genus Paenibacillus, for which the name Paenibacillus algorifonticola sp. nov. is proposed. The type strain is XJ259T ( = CGMCC 1.10223T  = JCM 16598T).

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 Kocuria koreensis sp. nov., isolated from fermented seafood

2010 ◽  
Vol 60 (1) ◽  
pp. 140-143 ◽  
Author(s):  
Eun-Jin Park ◽  
Seong Woon Roh ◽  
Min-Soo Kim ◽  
Mi-Ja Jung ◽  
Kee-Sun Shin ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Genomic Dna ◽  
Type Strain ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
The 16S Rrna Gene

A Gram-positive, aerobic, non-motile and coccoid actinobacterium, designated P31T, was isolated from a traditional, fermented seafood. The strain was catalase-positive and oxidase-negative. Cells grew in the presence of 0–15.0 % (w/v) NaCl, and at pH 5–10 and 15–37 °C. Major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. Strain P31T contained MK-7 as the predominant menaquinone. The DNA G+C content of the genomic DNA of strain P31T was 65.2 mol%. A phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain P31T was most closely related to Kocuria kristinae DSM 20032T, with 96.9 % similarity, and these two strains clustered together in constructed phylogenetic trees. The DNA–DNA hybridization value between strain P31T and K. kristinae DSM 20032T was 21.1 %. On the basis of the phenotypic, chemotaxonomic and phylogenetic data, it is suggested that strain P31T represents a novel species of the genus Kocuria, for which the name Kocuria koreensis sp. nov. is proposed. The type strain is P31T (=KCTC 19595T=JCM 15915T).

scholarly journals Solimonas soli gen. nov., sp. nov., isolated from soil of a ginseng field

2007 ◽  
Vol 57 (11) ◽  
pp. 2591-2594 ◽  
Author(s):  
Myung Kyum Kim ◽  
Yu-Jin Kim ◽  
Dong-Ha Cho ◽  
Tae-Hoo Yi ◽  
Nak-Kyun Soung ◽  
...  
Keyword(s):  
Pseudomonas Aeruginosa ◽  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
The 16S Rrna Gene

A micro-organism, DCY12T, comprising Gram-negative, non-motile, pale-yellow rods was isolated from soil from a ginseng field in South Korea and was investigated to determine its taxonomic status. It grew optimally at 30 °C and at pH 7.0, the G+C content of its DNA was 40.5 mol%, the major components of the fatty acid profile were C16 : 0 and C18 : 1 and the major ubiquinone was Q-8. A phylogenetic analysis based on the 16S rRNA gene sequence revealed that the novel isolate was most closely related to Hydrocarboniphaga effusa AP103T (89.2 %), Nevskia ramosa Soe1 (88.8 %) and Pseudomonas aeruginosa ATCC 10145T (83.2 %). The phenotypic, physiological, metabolic and phylogenetic properties of DCY12T suggest that it represents a novel genus (class Gammaproteobacteria) and species, for which the name Solimonas soli gen. nov., sp. nov. is proposed. The type strain of Solimonas soli is DCY12T (=KCTC 12834T =LMG 24014T).

scholarly journals Vogesella mureinivorans sp. nov., a peptidoglycan-degrading bacterium from lake water

2010 ◽  
Vol 60 (10) ◽  
pp. 2467-2472 ◽  
Author(s):  
Niels O. G. Jørgensen ◽  
Kristian K. Brandt ◽  
Ole Nybroe ◽  
Michael Hansen
Keyword(s):  
Lake Water ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Degrading Bacterium ◽  
Genotypic Characteristics ◽  
The 16S Rrna Gene

A novel, non-pigmented, rod-shaped, Gram-negative strain was isolated from mesotrophic lake water in Zealand, Denmark. Phylogenetic analysis of the 16S rRNA gene sequence of the bacterium, designated strain 389T, indicated that the strain belonged to the genus Vogesella and formed a monophyletic group with Vogesella perlucida DS-28T (99.1 % nucleotide similarity); it was less related to Vogesella indigofera ATCC 19706T (96.9 % similarity) and Vogesella lacus LMG 24504T (96.8 % similarity). Hybridization of DNA from strain 389T and V. perlucida demonstrated a reassociation of 50.6±9.6 %. The DNA G+C content of strain 389T was 61.2 mol%. The fatty acid profile of the strain differed from those of the other strains representing the genus Vogesella by a high content of C16 : 1 ω7c and/or iso-C15 : 0 2-OH (71.6 %) and a lower content of C16 : 0. Strain 389T was capable of degrading peptidoglycan and had chitinase and lysozyme activities, possibly associated with the degradation of peptidoglycan, and had capacity for degradation of several other polymer compounds. Based on phenotypic and genotypic characteristics, strain 389T represents a novel species, for which we propose the name Vogesella mureinivorans sp. nov. The type strain is 389T (=DSM 21247T =LMG 25302T).

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