Figure 1.
Incidence (percentage of CTV-infected citrus trees) per year in each of the eight Sicilian provinces from 2002 to 2009.
Figure 2.
Phylogenetic tree inferred for 108 CTV Sicilian isolates using the p20 gene.
The ML tree was constructed using RAxML with the GTR+Γ4 nucleotide substitution model, introducing three partitions (one for each codon position). Support >40% after 1000 bootstrap replicates is given.
Table 1.
Results of statistical tests of different evolutionary and ecological hypotheses that produce alternative tree topologies for the CTV p20 gene.
Figure 3.
Parts of a Bayesian phylogenetic tree indicating the five clades (A, B, C, D, and E) containing CTV isolates from Sicily.
Figure S1 shows all the clades; including also those without the Sicilian isolates. The sequences determined in this work are highlighted in grey background. Node significances are indicated by Bayesian posterior probabilities.
Table 2.
Nucleotide diversity of p20 gene of CTV isolates from Italy corresponding to different introductions.
Figure 4.
Inferred migration graph for the different introductions of CTV in Sicily associated to clades B, C, D and E reconstructed from the MCC tree.
The branches are colored according to the node height values to the colors between the specified maximal (red) and minimal boundary (black). Only introductions associated to clades B, C, D and E are shown since clade A has only a single Sicilian isolate.
Table 3.
Neutrality tests of p20 gene of CTV isolates from Italy corresponding to different introductions.
Table 4.
Fst values and Ks*, Z* and Snn tests between pairs o CTV populations for the p20 gene.