Figure 1.

Inferring Reciprocally Retained Genes across the Angiosperm Phylogeny.

(A) The distribution of inferred λ values across 9178 angiosperm core gene families (the x axis is truncated at 2.5 for clarity). The solid blue line depicts the data mean μ = 0.827, and the dotted blue lines are positioned one sd (σ = 0.226) away from the mean. Gene families with a λ value more than one sd below the mean were categorized as top gene families, while gene families with a λ value more than one sd above the mean were categorized as bottom gene families.

(B) Species tree of the 37 angiosperm species used in this study, as inferred by Li et al. (2016), with WGM events indicated by stars. Bootstrap values as obtained by Li et al. (2016) are indicated on the branches. Blue stars correspond to known WGD events, and red stars to known whole-genome triplication events. Purple stars indicate WGDs that were either not recovered directly by our Gaussian mixture modeling-based WGD placement protocol or were assigned to a more ancient branch than reported in the literature (Li et al., 2016). The placement of these WGDs is described in Methods.