FIG 3.

(A) Phylogenetic relationships of the beny-like viruses identified in this study. ML phylogenetic tree based on the RNA-1 replicase protein shows the topological position of virus-like sequences discovered in this study (black circles) in the context of their closest relatives. Branches are highlighted to represent host clade (land plants = green, lower plants = orange, invertebrates = red, vertebrates = pink, algae = blue, fungi = purple, environmental = yellow, chromista = light blue, rhodophytes = dark green). Here, “land plants” encompasses both angiosperms and gymnosperms, while “lower plants” includes the bryophytes, lycophytes, and ferns. All branches are scaled to the number of amino acid substitutions per site, and trees were midpoint rooted for clarity only. An asterisk indicates node support of >70% bootstrap support. Tip labels are bolded when the genome structure is shown on the right. (B) Genomic organization of the beny-like virus sequences identified in this study and representative species used in the phylogeny. Beet soilborne mosaic virus RNA 3and 4 are not pictured here. The data underlying this figure and definitions of acronyms used are presented in Table S5.