Investigating Clinical Issues by Genotyping of Medically Important Fungi: Why and How?
| Autor: | Stéphane Bretagne, Alexandre Alanio, Dea Garcia-Hermoso, Marie Desnos-Ollivier |
|---|---|
| Přispěvatelé: | Centre National de Référence des Mycoses invasives et antifongiques - Mycologie moléculaire (CNRMA), Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Hôpital Saint-Louis, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Université Paris Diderot - Paris 7 (UPD7), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Université Paris Diderot - Paris 7 (UPD7)-Assistance publique - Hôpitaux de Paris (AP-HP) (APHP) |
| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Microbiology (medical) MESH: Fungi Genotype Epidemiology short tandem repeat 030106 microbiology yeasts multilocus sequence typing Review endemic mycoses Biology MESH: Epidemiologic Methods MESH: Genotype 03 medical and health sciences molds MESH: Mycoses microsatellite length polymorphism Humans Coding region Pneumocystis jirovecii Scedosporium spp Typing Genotyping Candida spp [SDV.MP.MYC]Life Sciences [q-bio]/Microbiology and Parasitology/Mycology Genetics Cross Infection MESH: Humans General Immunology and Microbiology Fungi Public Health Environmental and Occupational Health Reproducibility of Results Outbreak MESH: Cross Infection Fusarium spp biology.organism_classification Housekeeping gene Aspergillus spp MESH: Reproducibility of Results Infectious Diseases MESH: Multilocus Sequence Typing Mycoses genotyping Cryptococcus neoformans Multilocus sequence typing Microsatellite Epidemiologic Methods |
| Zdroj: | Clinical Microbiology Reviews Clinical Microbiology Reviews, 2017, 30 (3), pp.671-707. ⟨10.1128/CMR.00043-16⟩ Clinical Microbiology Reviews, American Society for Microbiology, 2017, 30 (3), pp.671-707. ⟨10.1128/CMR.00043-16⟩ |
| ISSN: | 0893-8512 |
| Popis: | SUMMARY Genotyping studies of medically important fungi have addressed elucidation of outbreaks, nosocomial transmissions, infection routes, and genotype-phenotype correlations, of which secondary resistance has been most intensively investigated. Two methods have emerged because of their high discriminatory power and reproducibility: multilocus sequence typing (MLST) and microsatellite length polymorphism (MLP) using short tandem repeat (STR) markers. MLST relies on single-nucleotide polymorphisms within the coding regions of housekeeping genes. STR polymorphisms are based on the number of repeats of short DNA fragments, mostly outside coding regions, and thus are expected to be more polymorphic and more rapidly evolving than MLST markers. There is no consensus on a universal typing system. Either one or both of these approaches are now available for Candida spp., Aspergillus spp., Fusarium spp., Scedosporium spp., Cryptococcus neoformans , Pneumocystis jirovecii , and endemic mycoses. The choice of the method and the number of loci to be tested depend on the clinical question being addressed. Next-generation sequencing is becoming the most appropriate method for fungi with no MLP or MLST typing available. Whatever the molecular tool used, collection of clinical data (e.g., time of hospitalization and sharing of similar rooms) is mandatory for investigating outbreaks and nosocomial transmission. |
| Databáze: | OpenAIRE |
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