Fig. 2

Connectivity and overlaps of viruses detected in different sample types. a Bipartite network showing detection of viruses in composite symptomatic and asymptomatic tomato samples from the present study. The node represents the viruses, in which outline thickness is weighted based on the number of composite samples where the virus was detected by HTS. Nodes are also color coded based on whether they are first detections in both tomatoes and in Slovenia (red) or first detections in Slovenia only (blue). The lines connect viruses with a sample type in which they were detected. Virus names are color coded according to classification status: known viruses are either under recognized ICTV species (black font), or viruses that are deposited and classified in GenBank, but not ICTV-recognized (purple). Novel viruses from this study that are classified up to the species level are in blue font, while putative viruses without any official classification yet are in red font. b Venn diagram showing the number of viruses exclusively detected in composite samples of asymptomatic tomatoes and symptomatic tomatoes, or in both sample types. c Plant-virus-sample pool tripartite network, showing the connectivity of the subset of viruses detected in weeds with associated hosts. Shown in the network is the subset of novel viruses detected in weeds by HTS, which were further associated with specific host species (NCBI taxonomy IDs are shown) using RT-PCR assays. Virus names in blue font are those detected in both tomato and weed samples by HTS and RT-PCR. Credit: Images and icons used in the figure were from www.freesvg.com, and are under Public Domain (CC0 license, https://creativecommons.org/licenses/publicdomain/)