File S1 - Importance of Gene Duplication in the Evolution of Genomic Imprinting Revealed by Molecular Evolutionary Analysis of the Type I MADS-Box Gene Family in Arabidopsis Species

Table S1, Figures S1-S2. Table S1. Primer pairs used in this study. Figure S1. Neighbor-joining trees of clades I–VIII. Phylogenetic relationship was estimated with the Jukes and Cantor distance. Bootstrap values (%) were estimated by 500 replications for each clade and shown at corresponding nodes. All trees are shown in a same scale. A distance bar is shown at the bottom. Sequence of each gene excluding alignment gaps or indels was used for estimations. Black circle; A. thaliana, red circle; A. lyrata ssp. lyrata, red triangle; A. lyrata ssp. petraea, green circle; A. halleri ssp. gemmifera, open green circle; A. halleri ssp. halleri, green triangle circle; A. halleri ssp. tatrica, empty diamond; C. wallichii, black diamond; T. glabra. Figure S2. Location of the homologs in the genome of A. lyrata ssp. lyrata. Each line represents large scaffolds covering the majority of each of the 8 chromosomes of A. lyrata. The numbered boxes from L1 to L20 representing homologous sequences are identical with sequences in Figure 4. Tandem duplicated sequences are shown in scaffold 1 and 2. (PPTX)