Pan-yellow fever virus detection and lineage assignment by real-time RT-PCR and amplicon sequencing
JOURNAL OF VIROLOGICAL METHODS(2023)
摘要
Yellow fever disease is a viral zoonosis that may result in a severe hemorrhagic disease. A safe and effective vaccine used in mass immunization campaigns has allowed control and mitigation against explosive outbreaks in endemic areas. Since the 1960 ' s, re-emergent of the yellow fever virus has been observed. The timely imple-mentation of control measures, to avoid or contain an ongoing outbreak requires rapid specific viral detection methods. Here a novel molecular assay, expected to detect all known yellow fever virus strains, is described. The method has demonstrated high sensitivity and specificity in real-time RT-PCR as well as in an endpoint RT-PCR set-up. Sequence alignment and phylogenetic analysis reveal that the amplicon resulting from the novel method covers a genomic region whose mutational profile is completely associated to the yellow fever viral lineages. Therefore, sequencing analysis of this amplicon allows for assignment of the viral lineage.
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关键词
fever,virus,pan-yellow,real-time,rt-pcr
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