Identification of Mycobacterium species by using amplified ribosomal DNA restriction analysis

Vaneechoutte, Mario; Beenhouwer, H. De; Claeys, Geert; Verschraegen, Gerda; Rouck, Ann De; Paepe, Noella; Elaichouni, Abdeslam; Portaels, F.

doi:10.1128/jcm.31.8.2061-2065.1993

Cited by 131 publications

(64 citation statements)

References 24 publications

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“…ARDRA was previously shown to be useful for typing (10,26). However, our study revealed a low DI (0.743) when this technique was applied to the 16S-23S rRNA spacer region of gonococci.…”

Section: Discussioncontrasting

confidence: 56%

Evaluation of the Discriminatory Power of Typing Methods forNeisseria gonorrhoeae

et al. 1999

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A panel of 18 strains of Neisseria gonorrhoeae, known to be temporally and geographically diverse, was used to evaluate a number of typing systems, including conventional auxotyping and serotyping and the molecular methods of arbitrarily primed PCR (AP-PCR), amplified ribosomal-DNA restriction analysis (ARDRA), opa typing, and pulsed-field gel electrophoresis (PFGE). The discriminatory power of the different typing methods were determined with a collection of 87 clinical isolates from commercial sex workers in Indonesia, and Simpson's index of diversity was calculated. Of the two traditional techniques, auxotyping and serotyping, the latter gives the highest discriminatory index (DI) (DI, 0.846). The combination of auxotyping and serotyping yields a high DI (DI, 0.928). D11344-and D8635-primed PCR showed low DIs of 0.608 and 0.622, respectively, but a combination of the two primers had a DI of 0.849. The combination of serotyping with D11344-primed or D8635-primed PCR resulted in DIs of 0.936 and 0.937, respectively. ARDRA revealed a low DI of 0.743 alone but a DI of 0.955 in combination with serotyping. PFGE using the restriction enzyme BglII and opa typing produced the highest discrimination (DIs, 0.997 and 0.996, respectively) for isolates of N. gonorrhoeae.

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“…ARDRA was previously shown to be useful for typing (10,26). However, our study revealed a low DI (0.743) when this technique was applied to the 16S-23S rRNA spacer region of gonococci.…”

Section: Discussioncontrasting

confidence: 56%

Evaluation of the Discriminatory Power of Typing Methods forNeisseria gonorrhoeae

et al. 1999

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“…We did set up efficient bacterial genomic DNA extraction techniques from stools to amplify 16S rDNA from all samples using selected universal primers. We initially used ten different restriction enzymes that were indicated as diagnostic [21,22] to digest one sample of amplification pool of bacterial 16S rDNA according to the method of Vaneechoutte et al [23]. The pools of digested DNA were analyzed and, based on the results, we selected four 4 bp restriction enzymes (HaeIII, AluI, MspI, RsaI-Fermentas, Cornaredo, Milan, Italy) that generated more diagnostic restriction profiles, producing the greatest number of restriction fragments in our samples ( Fig.…”

Section: Ardra Techniquementioning

confidence: 99%

Genomics approach to the analysis of bacterial communities dynamics in Hirschsprung’s disease-associated enterocolitis: a pilot study

et al. 2010

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This approach proved to be effective, useful and powerful in assessing microflora dynamics and indicated that the differences in microflora associated with acute HAEC or remission are likely to result from a combination of disease activity and different antibiotic therapies. ARDRA proved to be useful in discriminating disease versus remission. Our findings indicated that HAEC results from a change in the equilibrium between bacterial species or from altered discrimination of harmless from harmful microorganisms, challenging the definition of pathogenic and non-pathogenic species. Based on these results, we propose ARDRA as a rapid inexpensive tool to assess microflora dynamics during HAEC episodes.

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“…Until now, the presence of one copy of the 16S rRNA gene has been described only for slow-growing mycobacteria [31]. Rapid identification of mycobacterial species has been developed using restriction enzyme analysis of PCR-amplified fragments of highly 23 conserved genes [33,34], but both studies have been mainly applied to slow-growing mycobacterial species.…”

Section: Kbpmentioning

confidence: 99%

Restriction fragment length polymorphisms of 16S rRNA genes in the differentiation of fast-growing mycobacterial species

Domenech

1994

FEMS Microbiology Letters

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DNA from several species of fast growing mycobacteria displayed a characteristic restriction fragment length polymorphism (RFLP) pattern when hybridizated to a Mycobacterium fortuitum 16S rRNA gene fragment. The resulting patterns were identical when comparing different strains belonging to the same species. The RFLP results were consistent with those obtained by DNA-DNA hybridization studies. Using this approach, we have been able to identify the number of copies for 16S rRNA genes in several fast-growing mycobacteria.

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Identification of Mycobacterium species by using amplified ribosomal DNA restriction analysis

Cited by 131 publications

References 24 publications

Evaluation of the Discriminatory Power of Typing Methods forNeisseria gonorrhoeae

Evaluation of the Discriminatory Power of Typing Methods forNeisseria gonorrhoeae

Genomics approach to the analysis of bacterial communities dynamics in Hirschsprung’s disease-associated enterocolitis: a pilot study

Restriction fragment length polymorphisms of 16S rRNA genes in the differentiation of fast-growing mycobacterial species

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