Circos
plot displaying centromere positions, Tcl-Mariner abundance, density of
annotated protein coding genes, male and female Lake Trout
(Salvelinus namaycush ) linkage maps and relationships between
homeologs resulting from Ss4R. (A) Black boxes in the outside ring
display the mean mapping positions (+/- 5 MB) for centromere associated
RAD loci from Smith et al. (2020). (B) The second ring displays
Z-transformed Tcl-Mariner repeat abundance in 5 megabase sliding windows
with an offset of 100 kilobases. (C) The third ring displays the density
of annotated genes in 5 megabase sliding windows with an offset of 100
kilobases. The fourth ring displays map distance (centimorgans) for male
(red) and female (blue) linkage maps (y-axis) versus physical distance
(x-axis) for each of the 42 chromosomes. Connections are drawn between
syntenic blocks identified by SyMap v5 putatively resulting from the
Salmonid specific autotetraploid event.
XIC. FIGURE 3 – BUSCO
SCORES
Comparison of BUSCO scores across multiple chromosome-level salmonid
assemblies. Scores for the pre-duplication outgroup species (Northern
Pike; Esox lucius ) are also included for comparison. Assemblies
are listed top-to-bottom according to the total percentage of complete
BUSCOs. Complete single-copy, complete duplicated, fragmented, and
missing BUSCO percentages are delineated with green, blue, yellow, and
red bars, respectively.