TY - JOUR
T1 - Tomato brown rugose fruit virus Nextstrain build version 3: rise of a novel clade
AU - Botermans, Marleen
AU - de Koning, Pier P.M.
AU - Oplaat, Carla
AU - Fowkes, Aimee
AU - McGreig, Sam
AU - Skelton, Anna
AU - Adams, Ian
AU - Fox, Adrian
AU - De Jonghe, Kris
AU - Demers, Jill
AU - Roenhorst, Johanna W
AU - Westenberg, Marcel
AU - van de Vossenberg, Bart T.L.H.
PY - 2023/2/6
Y1 - 2023/2/6
N2 - In the Netherlands, tomato brown rugose fruit virus (ToBRFV; genus Tobamovirus) was first identified in tomato crops in 2019. Since then, the National Plant Protection Organization (NPPO-NL) has performed surveys to track and trace this regulated virus aiming for its eradication. To gain more insight in the epidemiology of ToBRFV, genomes were assembled from Illumina sequence data. Whole-genome phylogenetics was integrated with epidemiological metadata in a Nextstrain build. Two new clades were defined, one of which displayed a rapid increase in comparison to the previous version of the Nextstrain build. This rapid increase could be attributed to the unauthorized application of an isolate of ToBRFV as a cross-protection product. Further analysis of the test results of positive samples from tomato production sites suggests that both deliberate application and accidental introduction had occurred. This report introduces the inclusion of 61 new (near) complete ToBRFV genomes in version three of the Nextstrain build, available from
https://nextstrain.nrcnvwa.nl/ToBRFV/20220412.
AB - In the Netherlands, tomato brown rugose fruit virus (ToBRFV; genus Tobamovirus) was first identified in tomato crops in 2019. Since then, the National Plant Protection Organization (NPPO-NL) has performed surveys to track and trace this regulated virus aiming for its eradication. To gain more insight in the epidemiology of ToBRFV, genomes were assembled from Illumina sequence data. Whole-genome phylogenetics was integrated with epidemiological metadata in a Nextstrain build. Two new clades were defined, one of which displayed a rapid increase in comparison to the previous version of the Nextstrain build. This rapid increase could be attributed to the unauthorized application of an isolate of ToBRFV as a cross-protection product. Further analysis of the test results of positive samples from tomato production sites suggests that both deliberate application and accidental introduction had occurred. This report introduces the inclusion of 61 new (near) complete ToBRFV genomes in version three of the Nextstrain build, available from
https://nextstrain.nrcnvwa.nl/ToBRFV/20220412.
UR - https://www.mendeley.com/catalogue/a521c22d-17f7-3bbd-8f6c-f3b381dcf119/
U2 - 10.1094/PHYTOFR-09-22-0090-A
DO - 10.1094/PHYTOFR-09-22-0090-A
M3 - A1: Web of Science-article
SN - 2690-5442
VL - 3
SP - 442
EP - 446
JO - Phytofrontiers
JF - Phytofrontiers
IS - 2
ER -