Gene orders and topologies for WGD events

• Arabidposis alpha WGD
• A. thaliana gene order
• A. lyrata gene order
• C. rubella gene order
• A. arabicum gene order
• S. parvula gene order
• E. salsugineum gene order
• Inferred ancestral pillar order
• Assumed phylogenetic topology
• Grass rho WGD
• B. distachyon gene order
• O. thomaeum gene order
• S. italica gene order
• vS. bicolor gene order
• Inferred ancestral pillar order
• Optimal phylogenetic topology
• Yeast WGD
• C. glabrata gene order
• K. africana gene order
• K. naganishii gene order
• N. castellii gene order
• N. dairenensis gene order
• S. cerevisiae gene order
• S. kudriavzevii gene order
• S. uvarum gene order
• T. blattae gene order
• T. phaffii gene order
• V. polyspora gene order
• Optimal Ancestral order
• Assumed phylogenetic topology
• Teleost Genome Duplication (TGD)
• A. mexicanus gene order
• D. rerio gene order
• G. aculeatus gene order
• O. niloticus gene order
• O. latipes gene order
• T. rubripes gene order
• T. nigroviridis gene order
• X. maculatus gene order
• Inferred ancestral pillar order
• Assumed phylogenetic topology
• Root-knot nematode WGT
• M. arenaria gene order
• M. incognita gene order
• M. javanica gene order
• Inferred ancestral pillar order
• Optimal phylogenetic topology

Phylogenetic models for use with POInT

• Base WGD model
• WGD model allowing biased fractionation
• WGD model allowing duplicate fixation
• WGD model allowing duplicate fixation and biased fractionation
• WGT (Triplication model) with one fractionated genome and two less fractionated ones