Genomic surveillance reveals transmission pathways and resistance-breaking mutations in tomato brown rugose fruit virus, highlighting the utility of open phylogenetic data sharing.
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.
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Oplaat et al. (2026) studied this question.
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