Hybridization and polyploidy enable genomic plasticity without sex in the most devastating plant-parasitic nematodes
Fig 3
Example of structural and evolutionary relationship between pairs of duplicated regions.
A. Circos [31] plot showing the collinear gene pairs (forming homologous regions) that were used for phylogenetic analyses (units = kb). All curves show the connections between the collinear gene pairs used by MCScanX to define segmental duplications. In each Circos plot, color codes are as follows. Collinear orthologs between M. hapla and any of the three asexuals species are in grey. Collinear ‘homoeologs’ within asexual species are in purple. Collinear orthologs between M. arenaria and M. javanica are in green. Collinear orthologs between M. arenaria and M. incognita are in yellow. Collinear orthologs between M. incognita and M. javanica are in red. The outer blue lines represent the gene density on the scaffolds. B. Maximum-likelihood phylogeny of concatenated alignments of collinear protein-coding genes used to form blocks with SH-like branch support. Topologies identical to the mitochondrial phylogeny were considered to represent the maternal contribution to the nuclear genome. The other topologies were considered as representative of paternal contributions.