Use of 16S rRNA Gene for Identification of a Broad Range of Clinically Relevant Bacterial Pathogens
Rattachement africain : us, nz. Niveau de preuve : code pays fourni par la source.
Le résumé fourni par la source
According to World Health Organization statistics of 2011, infectious diseases remain in the top five causes of mortality worldwide. However, despite sophisticated research tools for microbial detection, rapid and accurate molecular diagnostics for identification of infection in humans have not been extensively adopted. Time-consuming culture-based methods remain to the forefront of clinical microbial detection. The 16S rRNA gene, a molecular marker for identification of bacterial species, is ubiquitous to members of this domain and, thanks to ever-expanding databases of sequence information, a useful tool for bacterial identification. In this study, we assembled an extensive repository of clinical isolates (n = 617), representing 30 medically important pathogenic species and originally identified using traditional culture-based or non-16S molecular methods. This strain repository was used to systematically evaluate the ability of 16S rRNA for species level identification. To enable the most accurate species level classification based on the paucity of sequence data accumulated in public databases, we built a Naïve Bayes classifier representing a diverse set of high-quality sequences from medically important bacterial organisms. We show that for species identification, a model-based approach is superior to an alignment based method. Overall, between 16S gene based and clinical identities, our study shows a genus-level concordance rate of 96% and a species-level concordance rate of 87.5%. We point to multiple cases of probable clinical misidentification with traditional culture based identification across a wide range of gram-negative rods and gram-positive cocci as well as common gram-negative cocci.
Ce résumé expose les affirmations des auteurs. BNTIC ne l’interprète pas comme une validation indépendante des résultats.
Le contrôle bibliographique ouvert
DOI retrouvé dans Crossref DOI retrouvé ; titre concordant.
- Titre Crossref
- Use of 16S rRNA Gene for Identification of a Broad Range of Clinically Relevant Bacterial Pathogens
- Date Crossref
- 06/02/2015
- Éditeur
- Public Library of Science (PLoS)
- Type
- journal-article
Ce recoupement confirme des métadonnées liées au DOI. Il ne confirme ni la méthode ni les conclusions de l’étude, et il ne compte pas comme une seconde source scientifique indépendante.
Où se fait cette recherche
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University of California pays non établi dans la noticeUniversité ou école supérieure
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Lawrence Berkeley National Laboratory pays non établi dans la noticeStructure de recherche
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NASA Earth Science pays non établi dans la noticeOrganisme public
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Victoria University of Wellington pays non établi dans la noticeUniversité ou école supérieure
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San Francisco General Hospital pays non établi dans la noticeÉtablissement de santé
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Berry (United States) pays non établi dans la noticeEntreprise
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School of Biological Sciences pays non établi dans la noticeUniversité ou école supérieure
University of California, Lawrence Berkeley National Laboratory et NASA Earth Science, avec 4 autres affiliations.
Une affiliation ne permet pas de déduire la nationalité d’un auteur.