Additional file 1 of Global phylodynamics of two relevant aphid-transmitted viruses in cucurbit crops: cucurbit aphid-borne yellows virus and watermelon mosaic virus

Additional file 1: Figure S1. Principal component analysis (PCA) of CABYV and WMV populations. a The CABYV population is represented by geographical location, countries or regions: SP (Spain), FR (France), IND (Indonesia), IN (India), TW (Taiwan of China), PG (Papua New Guinea), CH (China), SK (South Korea), JP (Japan), and USA (United States of America). PCAs were performed in Rstudio with ade4 based on SNP difference among Asian, Mediterranean, and Recombinant groups. b The WMV population is also represented by the following countries or regions: SP, ARG (Argentina), IND, USA, SK, FR, IT (Italy), CH, VZ (Venezuela), CHIL (Chile), PK (Pakistan), IR (Iran), and TK (Turkey). PCAs were performed in Rstudio with ade4 based on SNP difference among classic and emergent WMV groups. Figure S2. a Discriminant principal components analysis (DAPC) cluster of CABYV isolates based on their geographical origin. Eigenvalues retained for principal component and discriminant functions in the analysis are displayed in inset. DAPC is represented the CABYV population by geographical location, countries or regions: SP (Spain), FR (France), IND (Indonesia), IN (India), TW (Taiwan of China), PG (Papua New Guinea), CH (China), SK (South Korea), JP (Japan), and USA (United States of America). b Minimum spanning network (MSN) of the CABYV genotype variants based on their geographical origin. Each node represents a distinct genetic variant, with the size of the node indicating the number variant. The color of the node indicates the geographic population in which the variant is prevalent. The thickness of the edges connecting the nodes indicates the genetic distance between the variants, with thicker edges representing greater relatedness. The scale for genetic distance is shown in the insets. The CABYV population is represented by geographical location, countries, or regions: SP (Spain), FR (France), IND (Indonesia), IN (India), TW (Taiwan of China), PG (Papua New Guinea), CH (China), SK (South Korea), JP (Japan), and USA (United States of America).