Whole genome-based synteny
The results that we obtained from whole-genome pairwise alignment ofL. sceleratus against the other four puffers (T. nigroviridis, T. rubripes, T. flavidus and T. bimaculatus ) are summarised in Supplementary Table 2. Comparisons of L. sceleratusagainst T. nigroviridis (Figure 4), T. rubripes, T. flavidus and T. bimaculatus (Figure S9-S11) indicated high collinearity of the studied species’ genome against the rest. In particular, we aligned the 41 largest contigs of L. sceleratusagainst the chromosomes of T. flavidus (~231.3 aligned Mb), T. bimaculatus (~224 aligned Mb),T. rubripes (~227 aligned Mb) and T. nigroviridis (~154.7 aligned Mb).
Whole genome alignments were also carried out between T. nigroviridis and T. flavidus , as well as T. bimaculatusand T. rubripes (Figure S4-S6) revealing highly contiguous matches across all species, with higher collinearity observed betweenT. nigroviridis and T. bimaculatus compared to T. nigroviridis and T. rubripes .