*4.6. Maximum Clade Credibility Tree*

Complete sequences for the E2 gene of 145 CSFV isolates available in the GenBank Database, including complete E2 gene sequences of 8 commercial LOM vaccine strains and 21 Jeju LOM strains, were used to generate a BEAST input file using BEAUti within the BEAST package v1.8.1 [24]. Rates of nucleotide substitution per site and per year, and the most recent common ancestor (tMRCA), were estimated using a Bayesian MCMC approach. Each dataset was simulated with the following options: generation = 100,000,000, burn-in of 10%, and ESSs > 200. The exponential clock and expansion growth population model in the BEAST program was used to obtain the best-fit evolutionary model. The resulting convergence was analyzed using Tracer 1.5 [25]. Trees were summarized as a maximum clade credibility (MCC) tree using TreeAnnotator 1.7.4 [26] and visualized using Figtree 1.4 [27]. For each tree node, estimated divergence times and 95% HPD intervals, which summarize statistical uncertainties, were indicated.
