title: LAMP assay and rapid sample preparation method for on-site detection of flavescence dorée phytoplasma in grapevine.
abstract: In Europe the most devastating phytoplasma associated with grapevine yellows (GY) diseases is a quarantine pest, flavescence dorée (FDp), from the 16SrV taxonomic group. The on-site detection of FDp with an affordable device would contribute to faster and more efficient decisions on the control measures for FDp. Therefore, a real-time isothermal LAMP assay for detection of FDp was validated according to the EPPO standards and MIQE guidelines. The LAMP assay was shown to be specific and extremely sensitive, because it detected FDp in all leaf samples that were determined to be FDp infected using quantitative real-time PCR. The whole procedure of sample preparation and testing was designed and optimized for on-site detection and can be completed in one hour. The homogenization procedure of the grapevine samples (leaf vein, flower or berry) was optimized to allow direct testing of crude homogenates with the LAMP assay, without the need for DNA extraction, and was shown to be extremely sensitive.
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia ; Department of Biology, Biotechnical Faculty, University of Ljubljana Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: P
authors.initials: P
authors.lastname: Kogovšek
authors.affiliation: The Food and Environment Research Agency Sand Hutton, York, YO41 1LZ, UK.
authors.forename: J
authors.initials: J
authors.lastname: Hodgetts
authors.affiliation: The Food and Environment Research Agency Sand Hutton, York, YO41 1LZ, UK.
authors.forename: J
authors.initials: J
authors.lastname: Hall
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: N
authors.initials: N
authors.lastname: Prezelj
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: P
authors.initials: P
authors.lastname: Nikolić
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: N
authors.initials: N
authors.lastname: Mehle
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: R
authors.initials: R
authors.lastname: Lenarčič
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: A
authors.initials: A
authors.lastname: Rotter
authors.affiliation: School of Biosciences, University of Nottingham Sutton Bonington Campus, Loughborough, LE12 5RD, UK.
authors.forename: M
authors.initials: M
authors.lastname: Dickinson
authors.affiliation: The Food and Environment Research Agency Sand Hutton, York, YO41 1LZ, UK.
authors.forename: N
authors.initials: N
authors.lastname: Boonham
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: M
authors.initials: M
authors.lastname: Dermastia
authors.affiliation: Department of Biotechnology and Systems Biology, National Institute of Biology Večna pot 111, 1000, Ljubljana, SIovenia.
authors.forename: M
authors.initials: M
authors.lastname: Ravnikar
keywords: flavescence dorée; homogenization; loop-mediated isothermal amplification; on-site application; validation