scholarly journals Terrabacter aerolatus sp. nov., isolated from an air sample

2007 ◽  
Vol 57 (9) ◽  
pp. 2106-2109 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Peter Schumann ◽  
Reiner M. Kroppenstedt ◽  
Byung-Yong Kim ◽  
Jaekyeong Song ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Mycolic Acids ◽  
Sequencing Studies ◽  
Total Fatty Acids ◽  
Air Sample ◽  
Rrna Gene Sequencing

A Gram-positive, strictly aerobic, motile, rod- or coccoid-shaped bacterium, strain 5516J-36T, was isolated from an air sample from Jeju region, Korea, and its taxonomic position was investigated by a polyphasic approach. The organism grew optimally at 30 °C and pH 7.0–8.0. Comparative 16S rRNA gene sequencing studies demonstrated that this strain was highly related phylogenetically to Terrabacter terrae PPLBT and Terrabacter tumescens DSM 20308T, showing 98.9 % sequence similarity to both strains. However, the DNA–DNA reassociation values between 5516J-36T and the type strains of Terrabacter terrae and Terrabacter tumescens were low (51 and 48 %, respectively). The peptidoglycan type was A3γ, the predominant menaquinone was MK-8(H4), the polar lipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol and an unidentified phosphoglycolipid and the whole-cell sugars were glucose, ribose, rhamnose, xylose and galactose. Mycolic acids were absent. The major fatty acids (>5 % of total fatty acids) were iso-C15 : 0, iso-C16 : 0, iso-C14 : 0, iso-C17 : 0 and anteiso-C15 : 0. The DNA G+C content was 71.7 mol%. On the basis of the above data, it is proposed that strain 5516J-36T represents a novel species, Terrabacter aerolatus sp. nov. The type strain of Terrabacter aerolatus is 5516J-36T (=KACC 20556T =DSM 18562T).

scholarly journals Loktanella koreensis sp. nov., isolated from sea sand in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2199-2202 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Hee Yoo ◽  
Jong-Shik Kim ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Sand Sample ◽  
Sea Sand ◽  
Sequencing Studies ◽  
Rrna Gene Sequencing ◽  
Taxonomic Characterization

A bacterial strain, GA2-M3T, isolated from a sea-sand sample in Korea, was subjected to polyphasic taxonomic characterization. Cells of strain GA2-M3T were Gram-negative, non-motile, non-spore-forming and short rod- to ovoid-shaped. Comparative 16S rRNA gene sequencing studies confirmed that the bacterium fell within the radiation of the genus Loktanella. Similarity levels between the 16S rRNA gene sequence of strain GA2-M3T and those of type strains of Loktanella species with validly published names were 93.5–96.1 %; highest sequence similarity was with Loktanella rosea. The G+C content of the genomic DNA of strain GA2-M3T was 60.0 mol% and the predominant ubiquinone was Q-10. Major fatty acids were 18 : 1ω7c, 18 : 0 and 18 : 1ω7c 11-methyl. On the basis of the evidence presented, it is proposed that strain GA2-M3T represents a novel species, for which the name Loktanella koreensis sp. nov. is proposed. The type strain is GA2-M3T (=KACC 11519T=DSM 17925T).

scholarly journals Pseudomonas simiae sp. nov., isolated from clinical specimens from monkeys (Callithrix geoffroyi)

2006 ◽  
Vol 56 (11) ◽  
pp. 2671-2676 ◽  
Author(s):  
Ana I. Vela ◽  
María C. Gutiérrez ◽  
Enevold Falsen ◽  
Eduardo Rollán ◽  
Isabel Simarro ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Molecular Genetic ◽  
16S Rrna Gene Sequencing ◽  
Clinical Samples ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Sequencing Studies ◽  
Rrna Gene Sequencing ◽  
Callithrix Geoffroyi

An unusual Gram-negative, catalase- and oxidase-positive, rod-shaped bacterium isolated from different clinical samples from two monkeys (Callithrix geoffroyi) was characterized by phenotypic and molecular genetic methods. The micro-organism was tentatively identified as a Pseudomonas species on the basis of the results of cellular morphological and biochemical tests. Fatty acid studies confirmed this generic placement and comparative 16S rRNA gene sequencing studies demonstrated that the unknown isolates were phylogenetically closely related to each other (100 % sequence similarity) and were part of the ‘Pseudomonas fluorescens intrageneric cluster’. The novel bacterium, however, was distinguished from other phylogenetically related species of Pseudomonas by DNA–DNA hybridization studies and biochemical tests. On the basis of both phenotypic and phylogenetic findings, it is proposed that the novel Pseudomonas isolates are classified as Pseudomonas simiae sp. nov. The type strain of P. simiae is OLiT (=CCUG 50988T=CECT 7078T).

scholarly journals Rhodococcus triatomae sp. nov., isolated from a blood-sucking bug

2005 ◽  
Vol 55 (4) ◽  
pp. 1575-1579 ◽  
Author(s):  
A. F. Yassin
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Mycolic Acids ◽  
Blood Sucking ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

Two bacterial isolates, strains IMMIB RIV-085T and IMMIB RIV-095, isolated from a blood-sucking bug of the genus Triatoma, were characterized by phenotypic and molecular taxonomic methods. Chemotaxonomic investigations revealed the presence of cell-wall chemotype IV and mycolic acids consistent with the genus Rhodococcus. Comparative 16S rRNA gene sequencing showed that the two isolates are genealogically highly related (100 % sequence similarity) and constitute a new subline within the genus Rhodococcus, with Rhodococcus corynebacteroides and Rhodococcus rhodnii as their nearest phylogenetic neighbours (98·4 and 98·3 % sequence similarity, respectively). However, DNA–DNA hybridization experiments demonstrated unambiguously that the isolates are genealogically distinct from R. corynebacteroides and R. rhodnii (32 and 43 % relatedness, respectively). The isolates could be distinguished from their phylogenetic relatives and other members of the genus Rhodococcus by means of biochemical tests. On the basis of both phenotypic and phylogenetic evidence, it is proposed that these isolates be classified as a novel species, Rhodococcus triatomae sp. nov. The type strain is strain IMMIB RIV-085T (=CCUG 50202T=DSM 44892T).

scholarly journals Xenophilus aerolatus sp. nov., isolated from air

2010 ◽  
Vol 60 (2) ◽  
pp. 327-330 ◽  
Author(s):  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Hang-Yeon Weon ◽  
Rangasamy Anandham ◽  
Hyung-Jun Noh ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Closely Related Species ◽  
Gene Sequence Analysis ◽  
Total Fatty Acids ◽  
Air Sample ◽  
Xylophilus Ampelinus ◽  
Type Strains

A novel aerobic, Gram-negative, motile, rod-shaped bacterial strain designated 5516S-2T was isolated from an air sample taken in Suwon, Republic of Korea. Colonies were yellow-pigmented and circular with entire margins. 16S rRNA gene sequence analysis showed that strain 5516S-2T was closely related to Xylophilus ampelinus DSM 7250T (97.6 % sequence similarity), Variovorax soli KACC 11579T (97.5 %) and Xenophilus azovorans DSM 13620T (97.1 %). However, the phylogenetic tree indicated that strain 5516S-2T formed a separate clade from Xenophilus azovorans. Strain 5516S-2T displayed 42, 31 and 30 % DNA–DNA relatedness to the type strains of Xenophilus azovorans, Xylophilus ampelinus and V. soli, respectively. The major fatty acids (>10 % of total fatty acids) were C16 : 0 (33.3 %), C17 : 0 cyclo (18.8 %), C18 : 1 ω7c (17.5 %) and summed feature 3 (comprising C16 : 1 ω7c and/or iso-C15 : 0 2-OH; 13.0 %). The DNA G+C content was 69 mol%. The major quinone was ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and two unknown aminophospholipids. Genotypic and phenotypic characteristics clearly distinguished strain 5516S-2T from closely related species and indicated that it represents a novel species within the genus Xenophilus, for which the name Xenophilus aerolatus sp. nov. is proposed. The type strain is 5516S-2T (=KACC 12602T=DSM 19424T).

scholarly journals Nocardia elegans sp. nov., a member of the Nocardia vaccinii clade isolated from sputum

2005 ◽  
Vol 55 (4) ◽  
pp. 1505-1509 ◽  
Author(s):  
A. F. Yassin ◽  
S. Brenner
Keyword(s):  
16S Rrna ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
16S Rrna Sequence ◽  
Closely Related Species ◽  
Mycolic Acids ◽  
Rrna Gene Sequencing ◽  
Established Species ◽  
Sequence Similarities

Two bacterial isolates from the sputa of a patient with a pulmonary infection were subjected to a polyphasic taxonomic study. Chemotaxonomic investigations revealed the presence of cell-wall chemotype IV and mycolic acids consistent with the profile for the genus Nocardia. Comparative 16S rRNA gene sequencing showed that these isolates constitute a distinct subline within the genus Nocardia, displaying 99·6–95·5 % sequence similarities with established species. However, DNA–DNA hybridization studies demonstrated unambiguously that the isolates are genealogically distinct from closely related species, namely Nocardia veterana and Nocardia africana, which show high levels of 16S rRNA sequence similarity (99·2 and 99·6 % sequence similarity, respectively). On the basis of both phenotypic and phylogenetic evidence, it is proposed that these isolates be classified as a novel species of the genus Nocardia, for which the name Nocardia elegans sp. nov. is proposed. The type strain is IMMIB N-402T (=CCUG 50200T=CIP 108553T).

Streptococcus tigurinus sp. nov., isolated from blood of patients with endocarditis, meningitis and spondylodiscitis

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2941-2945 ◽  
Author(s):  
Andrea Zbinden ◽  
Nicolas J. Mueller ◽  
Philip E. Tarr ◽  
Cathrin Spröer ◽  
Peter M. Keller ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Viridans Streptococci ◽  
Content Type ◽  
Link Type ◽  
Sequencing Studies ◽  
Rrna Gene Sequencing

Four Gram-stain-positive, catalase-negative, coccus-shaped bacterial strains were isolated from multiple blood cultures of patients with endocarditis, meningitis and spondylodiscitis. The isolates were tentatively identified as viridans streptococci on the basis of phenotypic characteristics. Comparative 16S rRNA gene sequencing studies showed that the organisms were members of the Streptococcus mitis group but did not correspond to any recognized species. The nearest phylogenetic relative was S. mitis ATCC 49456T, with 98.6 % sequence similarity. The representative strain AZ_3aT showed less than 96.8, 97.6, 94.5 and 95.5 % similarity to the phylogenetically most closely related species by recA, rpoB, sodA and groEL gene sequence analysis, respectively. DNA–DNA hybridization analyses showed a low reassociation value of 32.2 % between strain AZ_3aT and S. mitis DSM 12643T. Reassociation values with members of other S. mitis group species ranged from 27.3 to 49.7 %. The G+C content of the DNA was 40.0 mol%. Based on our biochemical and molecular analyses, the isolates represent a novel species, for which the name Streptococcus tigurinus sp. nov. is proposed. The type strain is AZ_3aT ( = CCOS 600T  = DSM 24864T).

scholarly journals Campylobacter insulaenigrae sp. nov., isolated from marine mammals

2004 ◽  
Vol 54 (6) ◽  
pp. 2369-2373 ◽  
Author(s):  
Geoffrey Foster ◽  
Barry Holmes ◽  
Arnold G. Steigerwalt ◽  
Paul A. Lawson ◽  
Petra Thorne ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Marine Mammals ◽  
16S Rrna Gene Sequencing ◽  
Single Species ◽  
Rrna Gene ◽  
Campylobacter Coli ◽  
Phylogenetic Studies ◽  
Sequencing Studies ◽  
Rrna Gene Sequencing ◽  
Campylobacter Lari

Phenotypic and phylogenetic studies were performed on four Campylobacter-like organisms recovered from three seals and a porpoise. Comparative 16S rRNA gene sequencing studies demonstrated that the organisms represent a hitherto unknown subline within the genus Campylobacter, associated with a subcluster containing Campylobacter jejuni, Campylobacter coli and Campylobacter lari. DNA–DNA hybridization studies confirmed that the bacteria belonged to a single species, for which the name Campylobacter insulaenigrae sp. nov. is proposed. The type strain of Campylobacter insulaenigrae sp. nov. is NCTC 12927T (=CCUG 48653T).

Pseudomonas cyclaminis sp. nov., a pathogen causing bacterial bud blight of cyclamen in Japan

2019 ◽  
Vol 71 (3) ◽  
Author(s):  
Hiroyuki Sawada ◽  
Takashi Fujikawa ◽  
Shigeru Osada ◽  
Mamoru Satou
Keyword(s):  
Fatty Acids ◽  
Type Species ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Total Fatty Acids

Five phytopathogenic bacterial strains, MAFF 301449T, MAFF 301450, MAFF 301451, MAFF 301452, and MAFF 301453, which were isolated from bud blight lesions of cyclamen (Cyclamen persicum Mill.) in Miyagi, Japan, were subjected to polyphasic taxonomic characterisation. The cells were Gram-reaction-negative, aerobic, non-spore-forming, motile with one to five polar flagella, and rod-shaped. Analysis of 16S rRNA gene sequences showed that they belong to the genus Pseudomonas , with Pseudomonas extremaustralis 14-3T (99.79 % sequence similarity), Pseudomonas trivialis DSM 14937T (99.79 %), Pseudomonas poae DSM 14936T (99.72 %), and Pseudomonas antarctica CMS 35T (99.72 %) as their relatives. The genomic DNA G+C content was 60.3 mol% and the major fatty acids (>5 % of the total fatty acids) were C16 : 0, summed feature 3 (C16 : 1 ω7c/C16 : 1 ω6c), summed feature 8 (C18 : 1 ω7c/C18 : 1 ω6c), and C17 : 0 cyclo. Phylogenetic analysis using the rpoD gene sequences and phylogenomic analyses based on the whole genome sequences demonstrated that the strains are members of the Pseudomonas fluorescens subgroup, but form a monophyletic and robust clade separated from their relatives. Average nucleotide identity and digital DNA–DNA hybridisation analyses with the closely related Pseudomonas species corroborated their novel species status. The strains were differentiated from their relatives by phenotypic characteristics, pathogenicity towards cyclamen, cellular fatty acid composition, and whole-cell MALDI-TOF mass spectrometry profiles. Based on the phenotypic, chemotaxonomic, and genotypic data obtained, we conclude that the strains represent a novel Pseudomonas species, for which we propose the name Pseudomonas cyclaminis sp. nov.; the type strain is MAFF 301449T (=ICMP 23720T).

scholarly journals Pontibaca methylaminivorans gen. nov., sp. nov., a member of the family Rhodobacteraceae

2010 ◽  
Vol 60 (9) ◽  
pp. 2170-2175 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Song-Gun Kim
Keyword(s):  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
The Family ◽  
Novel Genus And Species ◽  
Unknown Phospholipid ◽  
Rrna Gene Sequencing ◽  
Family Rhodobacteraceae

The alphaproteobacterial strains GRP21T and PH34, which were isolated from coastal sediment of the East Sea, Korea, were subjected to a polyphasic taxonomic investigation. The strains were Gram-negative, non-motile, non-spore-forming, oval-shaped rods that produced creamy-white colonies on tryptic soy agar, required NaCl for growth, contained Q-10 as the predominant ubiquinone, contained 16 : 0, 18 : 1ω7c and 19 : 0 cyclo ω8c as major fatty acids and had polar lipid profiles consisting of phosphatidylcholine, phosphatidylglycerol, an unknown aminolipid, an unknown phospholipid and three unknown lipids. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that the strains were most closely related to Donghicola eburneus KCTC 12735T, with 94.5 % sequence similarity, but formed a separate lineage within the family Rhodobacteraceae. The combined genotypic and phenotypic data supported the conclusion that the strains represent a novel genus and species, for which the name Pontibaca methylaminivorans gen. nov., sp. nov. is proposed. The type strain of Pontibaca methylaminivorans is GRP21T (=KCTC 22497T =DSM 21219T).

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