a tool for in-silico evaluation of molecular assays
Cesare E. M. Gruber (Avtor), Barbara Bartolini (Avtor), Concetta Castilletti (Avtor), Ali Mirazimi (Avtor), Roger Hewson (Avtor), Iva Christova (Avtor), Tatjana Avšič-Županc (Avtor), Roland Grunow (Avtor), Anna Papa (Avtor)

Povzetek

The Crimean-Congo hemorrhagic fever virus (CCHFV) is considered to be a major emerging infectious threat, according to the WHO R&D blueprint. A wide range of CCHFV molecular assays have been developed, employing varied primer/probe combinations. The high genetic variability of CCHFV often hampers the efficacy of available molecular tests and can affect their diagnostic potential. Recently, increasing numbers of complete CCHFV genomic sequences have become available, allowing a better appreciation of the genomic evolution of this virus. We summarized the current knowledge on molecular methods and developed a new bioinformatics tool to evaluate the existing assays for CCHFV detection, with a special focus on strains circulating in different geographical areas. Twenty-two molecular methods and 181 sequences of CCHFV were collected, respectively, from PubMed and GenBank databases. Up to 28 mismatches between primers and probes of each assay and CCHFV strains were detected through in-silico PCR analysis. Combinations of up to three molecular methods markedly decreased the number of mismatches within most geographic areas. These results supported the good practice of CCHFV detection of performing more than one assay, aimed for different sequence targets. The choice of the most appropriate tests must take into account patient's travel history and geographic distribution of the different CCHFV strains.

Ključne besede

Crimean-Congo hemorrhagic fever;molecular detection;arthropodborne virus;

Podatki

Jezik: Angleški jezik
Leto izida:
Tipologija: 1.01 - Izvirni znanstveni članek
Organizacija: UL MF - Medicinska fakulteta
UDK: 616.9
COBISS: 34533081 Povezava se bo odprla v novem oknu
ISSN: 1999-4915
Št. ogledov: 185
Št. prenosov: 64
Ocena: 0 (0 glasov)
Metapodatki: JSON JSON-RDF JSON-LD TURTLE N-TRIPLES XML RDFA MICRODATA DC-XML DC-RDF RDF

Ostali podatki

Sekundarni jezik: Slovenski jezik
Sekundarne ključne besede: krimsko-kongoška hemoragična mrzlica;molekularno odkrivanje;arbovirus;
Vrsta dela (COBISS): Članek v reviji
Strani: str. 1-13
Letnik: ǂVol. ǂ11
Zvezek: ǂiss. ǂ10
Čas izdaje: 2019
DOI: 10.3390/v11100953
ID: 13925515