ArticleJournal of clinical microbiology2004
Development and evaluation of a quality-controlled ribosomal sequence database for 16S ribosomal DNA-based identification of Staphylococcus species.
Article in Journal of clinical microbiology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 67 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
67 citing papers in PubMed, 204 citations in OpenAlex.
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- Characterization of nonencapsulatedJournal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc · 2023Article
- A MALDI-TOF MS library for rapid identification of human commensal gut bacteria from the classFrontiers in microbiology · 2023Article
- Tularemia Presenting Solely with Cervical Lymphadenopathy and Fever.Diagnostics (Basel, Switzerland) · 2022Article
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- The microbiome of common bedding materials before and after use on commercial dairy farms.Animal microbiome · 2022Article
- Evidence-Based Tracking of MDRAntibiotics (Basel, Switzerland) · 2021Article
- Performance and Application of 16S rRNA Gene Cycle Sequencing for Routine Identification of Bacteria in the Clinical Microbiology Laboratory.Clinical microbiology reviews · 2020Review
- Coagulase-negative staphylococci (CoNS) as a significant etiological factor of laryngological infections: a review.Annals of clinical microbiology and antimicrobials · 2020Review
- Characterization ofMicroorganisms · 2020Article
- Response of Tomato Rhizosphere Bacteria to Root-Knot Nematodes, Fenamiphos and Sampling Time Shows Differential Effects on Low Level Taxa.Frontiers in microbiology · 2020Article
- Development and Validation of a Reference Data Set for AssigningFrontiers in cellular and infection microbiology · 2019Article
- Development of a reference data set for assigningAntimicrobial resistance and infection control · 2019Article
- New Microbiological Techniques in the Diagnosis of Bloodstream Infections.Deutsches Arzteblatt international · 2018Review
- Article
- Improved multiplex PCR primers for rapid identification of coagulase-negative staphylococci.Archives of microbiology · 2018Article
- Carriage frequency, phenotypic, and genotypic characteristics of methicillin-resistant Staphylococcus aureus isolated from dental health-care personnel, patients, and environment.Scientific reports · 2017Article
- First description of anNew microbes and new infections · 2017Article
- Species Identification and Strain Typing of Staphylococcus agnetis and Staphylococcus hyicus Isolates from Bovine Milk by Use of a Novel Multiplex PCR Assay and Pulsed-Field Gel Electrophoresis.Journal of clinical microbiology · 2017Article
- Clinical Significance and Pathogenesis of Staphylococcal Small Colony Variants in Persistent Infections.Clinical microbiology reviews · 2016Review
7 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To establish an improved ribosomal gene sequence database as part of the Ribosomal Differentiation of Microorganisms (RIDOM) project and to overcome the drawbacks of phenotypic identification systems and publicly accessible sequence databases, both strands of the 5' end of the 16S ribosomal DNA (rDNA) of 81 type and reference strains comprising all validly described staphylococcal (sub)species were sequenced. Assuming a normal distribution for pairwise distances of all unique staphylococcal sequences and choosing a reporting criterion of > or =98.7% similarity for a "distinct species," a statistical error probability of 1.0% was calculated. To evaluate this database, a 16S rDNA fragment (corresponding to Escherichia coli positions 54 to 510) of 55 clinical Staphylococcus isolates (including those of the small-colony variant phenotype) were sequenced and analyzed by the RIDOM approach. Of these isolates, 54 (98.2%) had a similarity score above the proposed threshold using RIDOM; 48 (87.3%) of the sequences gave a perfect match, whereas 83.6% were found by searching National Center for Biotechnology Information (NCBI) database entries. In contrast to RIDOM, which showed four ambiguities at the species level (mainly concerning Staphylococcus intermedius versus Staphylococcus delphini), the NCBI database search yielded 18 taxon-related ambiguities and showed numerous matches exhibiting redundant or unspecified entries. Comparing molecular results with those of biochemical procedures, ID 32 Staph (bioMerieux, Marcy I'Etoile, France) and VITEK 2 (bioMerieux) failed to identify 13 (23.6%) and 19 (34.5%) isolates, respectively, due to incorrect identification and/or categorization below acceptable values. In contrast to phenotypic methods and the NCBI database, the novel high-quality RIDOM sequence database provides excellent identification of staphylococci, including rarely isolated species and phenotypic variants.
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