Monitoring Tomato Brown Rugose Fruit Virus: Insights from the Nextstrain Build and Candidate Resistance-Breaking Mutations
The first detection of tomato brown rugose fruit virus (ToBRFV) in tomato crops in the Netherlands was in 2019. Since then, the National Plant Protection Organization of the Netherlands (NPPO-NL) has conducted surveys to trace and monitor this virus as part of the EU emergency measures up to the end of 2024. An interactive and publicly available ToBRFV Nextstrain build was developed to enable international data sharing and to support outbreak investigations. This report announces the addition of 83 (near) complete ToBRFV genome sequences in the fifth version of the ToBRFV Nextstrain build (available at https://nextstrain.nrcnvwa.nl/ToBRFV/ ). This announcement highlights the new features of version five, namely support values for the phylogenetic clustering and display options at municipality level and compatibility with Nextclade. Furthermore, it demonstrates how genomic data shared within the (international) community supports the reconstruction of introduction pathways, the monitoring of local spread, and the detection of candidate resistance-breaking genotypes.
Authors
- A. Skelton (ORCID: https://orcid.org/0000-0002-5418-1930)
- Bas Berbers
- Pier P. M. de Koning
- Jerom van Gemert
- Sam McGreig (ORCID: https://orcid.org/0000-0003-4310-569X)
- Despoina Beris (ORCID: https://orcid.org/0000-0003-3308-8742)
- A. Fowkes (ORCID: https://orcid.org/0000-0001-7918-441X)
- Zafeiro Zisi (ORCID: https://orcid.org/0000-0003-2016-9930)
- Lucas van der Gouw
- Bart van de Vossenberg (ORCID: https://orcid.org/0000-0003-1205-6119)
- Annelies Haegeman (ORCID: https://orcid.org/0000-0002-8192-5368)
- Marcel Westenberg (ORCID: https://orcid.org/0000-0002-6458-9809)
- Kris de Jonghe
- C. Varveri (ORCID: https://orcid.org/0000-0001-6317-0734)
- Naomi te Braak
- Carla Oplaat
- Adrian Fox (ORCID: https://orcid.org/0000-0003-1280-1836)
- J. W. Roenhorst
- Marleen Botermans (ORCID: https://orcid.org/0000-0002-7761-3855)
- G.A. Hiddink
- Martijn Schenk
- Ian P. Adams (ORCID: https://orcid.org/0000-0002-5589-6460)
- Sergio de la Fuente van Betem
- Christel de Krom
Institutions
- Fera Science (United Kingdom) (GB)
- Environment Agency (GB)
- Institute of Plant Protection (CN)
- Laboratoire National de Référence (MA)
- Benaki Phytopathological Institute (GR)
- Netherlands Food and Consumer Product Safety Authority (NL)
- Instituut voor Landbouw en Visserijonderzoek (BE)
- Enza Zaden (Netherlands) (NL)
Publication Details
- Journal
- PhytoFrontiers™
- Published
- 2026-08-18
- DOI
- https://doi.org/10.1094/phytofr-05-26-0061-a
- Primary Topic
- Plant Virus Research Studies
- Type
- article
- Field-Weighted Citation Impact
- 0.00