8 Identification of Microorganisms by Rapid DNA-DNA Hybridization

Tourova, T. P.; Antonov, A. S.

doi:10.1016/s0580-9517(08)70414-8

Cited by 167 publications

(130 citation statements)

References 51 publications

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“…Furthermore, the topology of the tree was similar to the one reported previously (Evtushenko et al, 2000). However, although strains CMS 76r T and CMS 81y T show 97?5 % relatedness at the 16S rRNA gene level, they probably represent two distinct species, since the overall genome relatedness between the two, based on DNA-DNA hybridization performed using the membrane filter method of Tourova & Antonov (1987) as described previously (Reddy et al, 2002a), was only 30 %.…”

Section: Phylogenetic Analysismentioning

confidence: 91%

Leifsonia rubra sp. nov. and Leifsonia aurea sp. nov., psychrophiles from a pond in Antarctica

Reddy

Prakash

Srinivas

et al. 2003

International Journal of Systematic and Evolutionary Microbiology

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Two unique psychrophilic strains (CMS 76r T and CMS 81y T ) were isolated from a cyanobacterial mat sample from a pond in Wright Valley, McMurdo, Antarctica. Both isolates were assigned to the genus Leifsonia, since they were Gram-positive, curved rods, non-motile, catalase-positive, contained DL-2,4-diaminobutyric acid, menaquinone MK-11, phosphatidylglycerol and diphosphatidylglycerol, had a high content of anteiso-and iso-branched fatty acids and had a DNA G+C content of 64-66 mol%. In addition, both isolates were related to the five reported species of Leifsonia at a level of about 95-96 % 16S rDNA sequence similarity and differed from one another by 2?5 %. Strains CMS 76r T and CMS 81y T also differed from one another in many other phenotypic characteristics and exhibited only 30 % relatedness at the DNA-DNA level, thus indicating that they represent two different species. Furthermore, these two isolates also showed many distinct differences with respect to the reported species of Leifsonia in terms of their phenotypic characteristics, biochemical properties, chemotaxonomic features, sensitivity to various antibiotics and 16S rDNA similarity, clearly indicating that strains CMS 76r T (=MTCC 4210 T =DSM 15304 T =CIP 107783 T ) and CMS 81y T (=MTCC 4657 T =DSM 15303 T =CIP 107785 T ) represent the type strains of two novel species of Leifsonia, for which the names Leifsonia rubra sp. nov. and Leifsonia aurea sp. nov. are proposed.

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Section: Phylogenetic Analysismentioning

confidence: 91%

Leifsonia rubra sp. nov. and Leifsonia aurea sp. nov., psychrophiles from a pond in Antarctica

Reddy

Prakash

Srinivas

et al. 2003

International Journal of Systematic and Evolutionary Microbiology

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“…The specific activities of the labeled DNAs were between 1.2 x lo7 and 1.4 x lo7 cpmlpg of DNA. DNA-DNA hybridization experiments were carried out by using a membrane filter method (10,23). Sheared and denatured DNAs were fixed on a nitrocellulose membrane filter (9 by 12 cm) by aspirating preparations through wells of a microfiltration apparatus (Bio-Rad Laboratories).…”

Section: Methodsmentioning

confidence: 99%

Campylobacter showae sp. nov., Isolated from the Human Oral Cavity

Etoh

Dewhirst

Paster

et al. 1993

International Journal of Systematic Bacteriology

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Nine Campylobacter-like strains were isolated from human gingival crevices and characterized. These strains were gram-negative, straight rods that were motile by means of multiple unipolar flagella. They were asaccharolytic and preferred an anaerobic atmosphere rather than a microaerophilic atmosphere for growth, and their growth was stimulated by formate and fumarate. These strains were biochemically similar to Campylobacter curvus and Campylobacter rectus, but were clearly distinguishable from these organisms by the number of flagella (two to five flagella at one end of the cell), by being catalase positive, by their whole-cell protein profiles, by their Western blot (immunoblot) patterns, and on the basis of DNA-DNA homology data. They could also be differentiated from the other species of the genus CampyZobacter. The nine Campylohcterlike strains were compared with two strains (FDC 286 and VPI 10279) representing a previously described but unnamed WolinelZu sp, The nine isolates and strains FDC 286 and VPI 10279 were found to be members of a single species. The 16s rRNA sequences of two strains of the newly identified species were compared with the rRNA sequences of 21 reference Campylobacter, Wolinelh, and Helicobacter species in order to generate a phylogenetic tree. We propose the name Campylobacter showae for the newly identified strains; strain SU A4 (= ATCC 51146) is the type strain of this new species.Previously, we isolated several Wolinella-like strains from human subgingival dental plaque (16) and subsequently proposed Wolinella cuwa subsp. intemedius as a new subspecies for two of the isolates (SU A4T [T = type strain] and SU A5) (4). These organisms could be differentiated at least at the subspecies level by morphological, biochemical, antigenic, and DNA-DNA homology methods from the other human oral Wolinella species, W. cuwa and Wolinella recta, which recently have been transferred to the genus Campylobacter as Campylobacter cuwus and Campylobacter rectus, respectively, by Vandamme et al. (24,25). In order to more fully describe the status of a new species in the genus Campylobacter, seven additional strains were isolated; thus, a total of nine strains, including SU A4T and SU A5, were characterized. These nine isolates were compared with Wolinella sp. strains FDC 286 (22) and VPI 10279 (14) and strains of other Campylobacter species (19,20,24,25). A 16s rRNA sequence analysis was used to determine the phylogenetic position of strains SU A4T and VPI 10279. The nine isolates and strains FDC 286 and VPI 10279 are members of a new species, for which we propose the name Campylobacter showae . MATERIALS AND METHODSBacterial strains and characterization. The sources and accession numbers of the isolates and reference strains examined in this study are shown in Table 1. The nine Camwlobacter-like strains were isolated from the dental plaque of gingival crevices of nine apparently healthy adults on plates containing modified CBRCA (26), which is a selective medium for Campylobacter, Fusobactenum, Bacte...

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“…Escherichia coli DNA was used as a standard in determining the DNA G+C content. DNA-DNA hybridization was performed by the membrane filter method (Tourova & Antonov, 1988) as described previously (Shivaji et al, 1992;Reddy et al, 2000).…”

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confidence: 99%

Lacinutrix himadriensis sp. nov., a psychrophilic bacterium isolated from a marine sediment, and emended description of the genus Lacinutrix

Srinivas

Prasad

Manasa

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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Lacinutrix himadriensis sp. nov., a psychrophilic bacterium isolated from a marine sediment, and emended description of the genus Lacinutrix T. N. R. Srinivas, S. Prasad, P. Manasa, B. Sailaja, Z. Begum and S. Shivaji Correspondence S. Shivaji shivas@ccmb.res.inCentre for Cellular and Molecular Biology, Uppal Road, Hyderabad -500 007, India A novel Gram-negative, rod-shaped, non-motile, psychrophilic bacterium, designated strain E4-9a T , was isolated from a marine sediment sample collected at a depth of 276 m from Kongsfjorden, Svalbard, in the Arctic Ocean. The colony colour was golden yellow. Strain E4-9a T was positive for amylase activity at 5 6C. The predominant fatty acids were iso-C 15 : 1 G (21.8 %), anteiso-C 15 : 0 (19.1 %), anteiso-C 15 : 1 A (18.6 %), iso-C 15 : 0 (13.8 %) and iso-C 16 : 1 H (6.4 %). Strain E4-9a T contained MK-6 as the major respiratory quinone. The polar lipids consisted of phosphatidylethanolamine, three unidentified aminolipids (AL1, AL4 and AL5), an unidentified phospholipid and four unidentified lipids (L1, L4 to L6). Based on 16S rRNA gene sequence similarity, it was ascertained that the closest related species to E4-9a T were Lacinutrix copepodicola, L. algicola and L. mariniflava, with sequence similarity to the respective type strains of 98.5, 96.5 and 95.8 %. Phylogenetic analysis showed that strain E4-9a T clustered with the type strain of L. copepodicola and with those of L. algicola and L. mariniflava at distances of 1.5 and 4.8 % (98.5 and 95.2 % similarity), respectively. However, DNA-DNA hybridization with L. copepodicola DJ3 T showed 59 % relatedness with respect to strain E4-9a T . The DNA G+C content of strain E4-9a T was 29 mol%. Based on the results of DNA-DNA hybridization and phenotypic data, it appears that strain E4-9a T represents a novel species of the genus Lacinutrix, for which the name Lacinutrix himadriensis sp. nov. is proposed. The type strain is E4-9a T (5CIP 110310 T 5KCTC 23612 T ).

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8 Identification of Microorganisms by Rapid DNA-DNA Hybridization

Cited by 167 publications

References 51 publications

Leifsonia rubra sp. nov. and Leifsonia aurea sp. nov., psychrophiles from a pond in Antarctica

Leifsonia rubra sp. nov. and Leifsonia aurea sp. nov., psychrophiles from a pond in Antarctica

Campylobacter showae sp. nov., Isolated from the Human Oral Cavity

Lacinutrix himadriensis sp. nov., a psychrophilic bacterium isolated from a marine sediment, and emended description of the genus Lacinutrix

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