Different retention rates of dispersed duplicates during the evolution of core eudicots.

<p>(A) Phylogenetic relationships between <i>Arabidopsis thaliana</i> and its outgroups used for estimating the epochs (ages) of dispersed duplicates according to colinearity conservation. (B) Retention rates of <i>Arabidopsis thaliana</i> dispersed duplicates in different epochs. Abbreviations: At: <i>Arabidopsis thaliana</i>; Al: <i>Arabidopsis lyrata</i>; Br: <i>Brassica rapa</i>; Cp: <i>Carica papaya</i>; Tc: <i>Theobroma cacao</i>; Pt: <i>Populus trichocarpa</i>; Vv: <i>Vitis vinifera</i>; St: <i>Solanum tuberosum</i>; Os: <i>Oryza sativa</i>. Dispersed duplicates created after At-Br divergence were named transposed duplicates, while those created between At-Pt and At-St divergence were named relocated γ duplicates. (C) Phylogenetic relationships between <i>Lotus japonicus</i> and its outgroups used for estimating the epochs (ages) of dispersed duplicates according to colinearity conservation. (D) Retention rates of <i>Lotus japonicus</i> dispersed duplicates in different epochs. Abbreviations: Lj: <i>Lotus japonicas</i>; Mt: <i>Medicago truncatula</i>; Gm: <i>Glycine max</i>; Md: <i>Malus x domestica</i>; Pt: <i>Populus trichocarpa</i>; At: <i>Arabidopsis thaliana</i>; Vv: <i>Vitis vinifera</i>; St: <i>Solanum tuberosum</i>; Os: <i>Oryza sativa</i>.