scholarly journals Atopococcus tabaci gen. nov., sp. nov., a novel Gram-positive, catalase-negative, coccus-shaped bacterium isolated from tobacco

2005 ◽  
Vol 55 (4) ◽  
pp. 1693-1696 ◽  
Author(s):  
Matthew D. Collins ◽  
Anna Wiernik ◽  
Enevold Falsen ◽  
Paul A. Lawson
Keyword(s):  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
New Genus And Species ◽  
Gram Positive ◽  
Sequencing Studies ◽  
Molecular Phylogenetic ◽  
A Cell ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

A novel Gram-positive, aerobic, catalase-negative, coccus-shaped organism originating from tobacco was characterized using phenotypic and molecular taxonomic methods. The organism contained a cell wall murein based on l-lysine (variation A4α, type l-lysine–l-glutamic acid), synthesized long-chain cellular fatty acids of the straight-chain saturated and monounsaturated types (with C16 : 1 ω9, C16 : 0 and C18 : 1 ω9 predominating) and possessed a DNA G+C content of 46 mol%. Based on morphological, biochemical and chemical characteristics, the coccus-shaped organism did not conform to any presently recognized taxon. Comparative 16S rRNA gene sequencing studies confirmed the distinctiveness of the unknown coccus, with the bacterium displaying sequence divergence values of greater than 7 % with other recognized Gram-positive taxa. Treeing analysis reinforced its distinctiveness, with the unidentified organism forming a relatively long subline branching at the periphery of an rRNA gene sequence cluster which encompasses the genera Alloiococcus, Allofustis, Alkalibacterium, Atopostipes, Dolosigranulum and Marinilactibacillus. Based on phenotypic and molecular phylogenetic evidence, it is proposed that the unknown organism from tobacco be classified as a new genus and species, Atopococcus tabaci gen. nov., sp. nov. The type strain of Atopococcus tabaci is CCUG 48253T (=CIP 108502T).

scholarly journals Catellicoccus marimammalium gen. nov., sp. nov., a novel Gram-positive, catalase-negative, coccus-shaped bacterium from porpoise and grey seal

2006 ◽  
Vol 56 (2) ◽  
pp. 429-432 ◽  
Author(s):  
Paul A. Lawson ◽  
Matthew D. Collins ◽  
Enevold Falsen ◽  
Geoffrey Foster
Keyword(s):  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Grey Seal ◽  
Gram Positive ◽  
Molecular Phylogenetic ◽  
Novel Genus And Species ◽  
Chemical Studies ◽  
A Cell ◽  
Rrna Gene Sequencing

Two strains of an unknown Gram-positive, catalase-negative, facultatively anaerobic, coccus-shaped bacterium, originating from a porpoise and a grey seal, were characterized using phenotypic, biochemical and molecular phylogenetic methods. Chemical studies revealed the presence of a cell-wall murein based on l-lysine (type l-lys–gly–d-Asp) and a DNA G+C content of 38 mol%. Comparative 16S rRNA gene sequencing showed that this unidentified coccus-shaped organism formed a hitherto unknown subline closely related to, albeit distinct from, a number of other catalase-negative genera which included Enterococcus, Melissococcus, Tetragenococcus and Vagococcus. Other known Gram-positive, catalase-negative taxa were more distantly related. Tree-branching considerations and sequence divergence values of >6 % with recognized taxa were indicative of this novel bacterium representing a separate genus. Based on phenotypic and phylogenetic evidence, it is proposed that this unknown bacterium, recovered from a porpoise and a grey seal, be classified as a novel genus and species, Catellicoccus marimammalium gen. nov., sp. nov. The type strain is M35/04/3T (=CCUG 49459T=CIP 108575T).

scholarly journals Actinomyces dentalis sp. nov., from a human dental abscess

2005 ◽  
Vol 55 (1) ◽  
pp. 427-431 ◽  
Author(s):  
Val Hall ◽  
Matthew D. Collins ◽  
Paul A. Lawson ◽  
Enevold Falsen ◽  
Brian I. Duerden
Keyword(s):  
Novel Species ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Dental Abscess ◽  
Unknown Species ◽  
Sequencing Studies ◽  
Molecular Phylogenetic ◽  
Rrna Gene Sequencing ◽  
Biochemical Testing

A previously undescribed filamentous, beaded, Gram-positive, rod-shaped bacterium was isolated from pus of a human dental abscess. Based on its cellular morphology and the results of biochemical testing the organism was tentatively identified as a member of the genus Actinomyces, but it did not correspond to any currently recognized species of this genus. Comparative 16S rRNA gene sequencing studies showed the bacterium represents a distinct subline within the genus Actinomyces, clustering within a group of species that includes Actinomyces bovis, the type species of the genus. Sequence divergence values of >8 % with other recognized species within this phylogenetic group clearly demonstrated that the organism represents a hitherto unknown species. Based on biochemical and molecular phylogenetic evidence, it is proposed that the unidentified organism recovered from a dental abscess be classified as a novel species, Actinomyces dentalis sp. nov. The type strain is R18165T (=CCUG 48064T=CIP 108337T).

scholarly journals Murdochiella asaccharolytica gen. nov., sp. nov., a Gram-stain-positive, anaerobic coccus isolated from human wound specimens

2010 ◽  
Vol 60 (5) ◽  
pp. 1013-1016 ◽  
Author(s):  
Nurver Ulger-Toprak ◽  
Chengxu Liu ◽  
Paula H. Summanen ◽  
Sydney M. Finegold
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Gram Stain ◽  
Sequencing Studies ◽  
Novel Genus And Species ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

Two strains of previously unknown Gram-stain-positive, anaerobic, coccus-shaped bacteria from human wound specimens were characterized using phenotypic and molecular taxonomic methods. Comparative 16S rRNA gene sequencing studies and distinguishable biochemical characteristics demonstrated that these two unknown strains, WAL 1855CT and WAL 2038E, are genotypically homogeneous and constitute a novel lineage within Clostridium cluster XIII. There was 13–14 % 16S rRNA gene sequence divergence between the novel strains and the most closely related species, Parvimonas micra, Finegoldia magna and species of Helcococcus. Based on the phenotypic and phylogenetic findings, a novel genus and species, Murdochiella asaccharolytica gen. nov., sp. nov., are proposed. Strain WAL 1855CT (=ATCC BAA-1631T =CCUG 55976T) is the type strain of Murdochiella asaccharolytica.

scholarly journals Streptococcus marimammalium sp. nov., isolated from seals

2005 ◽  
Vol 55 (1) ◽  
pp. 271-274 ◽  
Author(s):  
Paul A. Lawson ◽  
Geoffrey Foster ◽  
Enevold Falsen ◽  
Matthew D. Collins
Keyword(s):  
Novel Species ◽  
Molecular Genetic ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Sequencing Studies ◽  
Streptococcal Species ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing ◽  
Molecular Genetic Evidence

Two strains of an unidentified, Gram-positive, catalase-negative, chain-forming, coccus-shaped organism recovered from seals were characterized using phenotypic and molecular taxonomic methods. Based on morphological and biochemical criteria the strains were tentatively identified as streptococci but they did not appear to correspond to any recognized species of the genus Streptococcus. Comparative 16S rRNA gene sequencing studies showed that the strains were closely related to each other and confirmed their placement in the genus Streptococcus. Sequence divergence values of >5 % with reference streptococcal species demonstrated the organisms from seals represent a novel species. SDS-PAGE analysis of whole-cell proteins confirmed that the two organisms were closely related to each other but were different from all currently defined streptococcal species. Based on biochemical criteria, molecular chemical and molecular genetic evidence, it is proposed that the unknown isolates from seals be assigned to a novel species of the genus Streptococcus, Streptococcus marimammalium sp. nov. The type strain is M54/01/1T (=CCUG 48494T=CIP 108309T).

scholarly journals Arsenicicoccus bolidensis gen. nov., sp. nov., a novel actinomycete isolated from contaminated lake sediment

2004 ◽  
Vol 54 (2) ◽  
pp. 605-608 ◽  
Author(s):  
Matthew D. Collins ◽  
Joyanto Routh ◽  
Ambujom Saraswathy ◽  
Paul A. Lawson ◽  
Peter Schumann ◽  
...  
Keyword(s):  
Lake Sediment ◽  
Complex Mixture ◽  
16S Rrna Gene Sequencing ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Acid Type ◽  
Molecular Phylogenetic ◽  
Chemical Studies ◽  
A Cell ◽  
Rrna Gene Sequencing

An unknown Gram-positive, catalase-positive, facultatively anaerobic, non-spore-forming, coccus-shaped bacterium originating from sediment was characterized using phenotypic, molecular chemical and molecular phylogenetic methods. Chemical studies revealed the presence of a cell-wall murein based on ll-diaminopimelic acid (type ll-Dpm-glycine1), a complex mixture of saturated, monounsaturated and iso- and anteiso-methyl-branched, non-hydroxylated, long-chain cellular fatty acids and tetrahydrogenated menaquinones with eight isoprene units [MK-8(H4)] as the major respiratory lipoquinone. This combination of characteristics somewhat resembled members of the suborder Micrococcineae, but did not correspond to any currently described species. Comparative 16S rRNA gene sequencing confirmed that the unidentified coccus-shaped organism is a member of the Actinobacteria and represents a hitherto-unknown subline related to, albeit different from, a number of taxa including Intrasporangium, Janibacter, Terrabacter, Terracoccus and Ornithinicoccus. Based on phenotypic and phylogenetic considerations, it is proposed that the unknown bacterium originating from lake sediment be classified as a new genus and species, Arsenicicoccus bolidensis gen. nov., sp. nov. (type strain CCUG 47306T=DSM 15745T).

scholarly journals Gemella asaccharolytica sp. nov., isolated from human clinical specimens

2010 ◽  
Vol 60 (5) ◽  
pp. 1023-1026 ◽  
Author(s):  
Nurver Ulger-Toprak ◽  
Paula H. Summanen ◽  
Chengxu Liu ◽  
Marie-Claire Rowlinson ◽  
Sydney M. Finegold
Keyword(s):  
Type Strain ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Gram Stain ◽  
Biochemical Tests ◽  
Clinical Specimens ◽  
Sequencing Studies ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

Three strains of an unidentified Gram-stain-variable, fastidious, catalase-negative, capnophilic, non-spore-forming, coccus-shaped bacterium from human wound specimens were characterized by phenotypic and molecular taxonomic methods. Initially, these strains were anaerobic; with repeated culture, they became aerotolerant. Comparative 16S rRNA gene sequencing studies demonstrated that the unknown strains were genealogically homogeneous and constituted a novel subline within the genus Gemella. The unknown bacterium was readily distinguished from other Gemella species by biochemical tests. On the basis of both phylogenetic and phenotypic evidence, it is proposed that the unknown bacterium from clinical specimens be classified as Gemella asaccharolytica sp. nov. The type strain is WAL 1945JT (=ATCC BAA-1630T =CCUG 57045T).

scholarly journals Description of Gemella sanguinis sp. nov., Isolated from Human Clinical Specimens

1998 ◽  
Vol 36 (10) ◽  
pp. 3090-3093 ◽  
Author(s):  
Matthew D. Collins ◽  
Roger A. Hutson ◽  
Enevold Falsen ◽  
Berit Sjöden ◽  
Richard R. Facklam
Keyword(s):  
Type Strain ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Electrophoretic Analysis ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Clinical Specimens ◽  
Sequencing Studies ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

Six strains of a hitherto undescribed gram-positive, catalase-negative, facultatively anaerobic coccus isolated from human sources were characterized by phenotypic and molecular taxonomic methods. Comparative 16S rRNA gene sequencing studies demonstrated that the unknown strains were genealogically identical and constitute a new subline within the genus Gemella. The unknown bacterium was readily distinguished from Gemella haemolysans,Gemella bergeriae, and Gemella morbillorum by biochemical tests and electrophoretic analysis of whole-cell proteins. Based on phylogenetic and phenotypic evidence, it is proposed that the unknown bacterium be classified as Gemella sanguinis sp. nov. The type strain is CCUG 37820T.

scholarly journals Helcococcus sueciensis sp. nov., isolated from a human wound

2004 ◽  
Vol 54 (5) ◽  
pp. 1557-1560 ◽  
Author(s):  
Matthew D. Collins ◽  
Enevold Falsen ◽  
Kit Brownlee ◽  
Paul A. Lawson
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Taxonomic Study ◽  
Sequencing Studies ◽  
Molecular Phylogenetic ◽  
Rrna Gene Sequencing ◽  
Biochemical Testing

A previously undescribed, Gram-positive, catalase-negative, coccus-shaped organism that originated from a human wound was subjected to taxonomic study. On the basis of its cellular morphology and the results of biochemical testing, the unknown organism was identified tentatively as a member of the genus Helcococcus, but it did not correspond to either of the two recognized species of this genus. Comparative 16S rRNA gene sequencing studies confirmed that the bacterium was associated phylogenetically with the genus Helcococcus, with the unidentified organism forming a hitherto unknown subline within the genus. On the basis of biochemical, molecular chemical and molecular phylogenetic evidence, it is proposed that the unknown organism that was recovered from a human wound should be classified as a novel species of the genus Helcococcus, namely Helcococcus sueciensis sp. nov. The type strain is CCUG 47334T (=CIP 108183T).

Corynebacterium ureicelerivorans sp. nov., a lipophilic bacterium isolated from blood culture

2007 ◽  
Vol 57 (6) ◽  
pp. 1200-1203 ◽  
Author(s):  
A. F. Yassin
Keyword(s):  
Blood Culture ◽  
Novel Species ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Differences ◽  
Mycolic Acids ◽  
Urease Test ◽  
Taxonomic Methods ◽  
Rrna Gene Sequencing

A lipophilic coryneform bacterium isolated from a blood culture from a patient with signs of septicaemia was characterized by means of phenotypic and molecular taxonomic methods. Chemotaxonomic investigations revealed the presence of cell-wall chemotype IV and short-chain mycolic acids, which are consistent with the genus Corynebacterium. The isolate was characterized biochemically by the very rapid (approx. 60 s) positive result that was obtained in a urease test in the API Coryne system. Comparative 16S rRNA gene sequencing demonstrated that the isolate belonged phylogenetically to the genus Corynebacterium. The values for sequence divergence (⩾1.4 %) with respect to known Corynebacterium species, together with phenotypic differences, show that the unidentified bacterium represents a novel member of this genus. On the basis of both the phenotypic and phylogenetic data, this isolate should be classified within a novel species of the genus Corynebacterium, for which the name Corynebacterium ureicelerivorans sp. nov. is proposed. The type strain is IMMIB RIV-2301T (=DSM 45051T=CCUG 53377T).

scholarly journals Bacteroides coprosuis sp. nov., isolated from swine-manure storage pits

2005 ◽  
Vol 55 (6) ◽  
pp. 2515-2518 ◽  
Author(s):  
Terence R. Whitehead ◽  
Michael A. Cotta ◽  
Matthew D. Collins ◽  
Enevold Falsen ◽  
Paul A. Lawson
Keyword(s):  
Novel Species ◽  
Molecular Genetic ◽  
Swine Manure ◽  
Sequence Divergence ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Sequencing Studies ◽  
Manure Storage ◽  
Rrna Gene Sequencing ◽  
Molecular Genetic Evidence

Two Gram-negative, anaerobic, non-spore-forming, rod-shaped organisms were isolated from a swine-manure storage pit. Based on morphological and biochemical criteria, the strains were tentatively identified as belonging to the genus Bacteroides but they did not appear to correspond to any recognized species of the genus. Comparative 16S rRNA gene sequencing studies showed that the strains were related closely to each other and confirmed their placement in the genus Bacteroides, but sequence divergence values of >10 % from reference Bacteroides species demonstrated that the organisms from manure represent a novel species. Based on biochemical criteria and molecular genetic evidence, it is proposed that the unknown isolates from manure be assigned to a novel species of the genus Bacteroides, as Bacteroides coprosuis sp. nov. The type strain is PC139T (=CCUG 50528T=NRRL B-41113T).

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