Prediction of the Spatial Origin of Puumala Virus Infections Using L Segment Sequences Derived from a Generic Screening PCR

Viruses
Sabrina WeissJorg Hofmann

Abstract

To screen diagnostic specimens for the presence of hantavirus genomes or to identify new hantaviruses in nature, the pan-hanta L-PCR assay, a broadly reactive nested reverse transcription polymerase chain reaction (RT-PCR) assay targeting the L segment, is highly preferred over other assays because of its universality and high sensitivity. In contrast, the geographic allocation of Puumala virus strains to defined outbreak regions in Germany was previously done based on S segment sequences. We show that the routinely generated partial L segment sequences resulting from the pan-hanta L-PCR assay provide sufficient phylogenetic signal to inform the molecular epidemiology of the Puumala virus. Consequently, an additional S segment analysis seems no longer necessary for the identification of the spatial origin of a virus strain.

References

Oct 23, 1997·Journal of Medical Virology·M D BowenN Nowotny
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
May 18, 2006·Emerging Infectious Diseases·Boris KlempaDetlev H Krüger
Apr 29, 2008·Emerging Infectious Diseases·Jörg HofmannDetlev H Kruger
Jul 5, 2012·Reviews in Medical Virology·Antti VaheriOlli Vapalahti
Aug 31, 2012·Emerging Infectious Diseases·Jakob EttingerDetlev H Kruger
Aug 22, 2013·Deutsches Ärzteblatt International·Detlev H KrügerJörg Hofmann
Dec 18, 2013·Viruses·Miša KorvaTatjana Avšič Županc
Dec 24, 2014·Emerging Infectious Diseases·Joerg LatusNiko Braun
Jul 3, 2015·Evolutionary Applications·Vanessa Weber de MeloGerald Heckel
May 5, 2017·Molecular Biology and Evolution·Vincent LefortOlivier Gascuel
Jul 18, 2018·Bioinformatics·Emmanuel Paradis, Klaus Schliep
Aug 15, 2019·Euro Surveillance : Bulletin Européen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin·Mirko FaberSabrina Weiss

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Citations

Oct 1, 2020·BMC Infectious Diseases·Sebastian SchwabPhilipp Lutz

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Methods Mentioned

BETA
PCR

Software Mentioned

RStudio
dendextend
SeaView
PhyML
ape
maps

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