Additional file 2 of Chromosome-scale assemblies of flowering dogwood cultivars enable identification of candidate genes regulating anthocyanin biosynthesis in leaves and bracts

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Supplementary Material 2: Fig. S1. Image examples for image-based phenotyping. Fig. S2. Hi-C Contact maps for the four assemblies. Fig. S3. Linkage Map vs. Genome assemblies for the four assemblies. Fig. S4. SyRI plots of Hap 1 vs. Hap 2. Fig. S5. Repeat classes masked in assemblies. Fig. S6. PCA of filtered SNPs and kinship matrix of “pseudo-F2”. Fig. S7. Anthocyanin profiling results of ‘Cherokee Brave’. Fig. S8. QTL results. Fig. S9. Expression of genes of interest. Fig. S10. Neighbor-joining phylogenetic tree of MYB transcription factors. Fig. S11. Activated and suppressed enriched GO terms. Fig. S12. Log2fold change of KEGG phenylpropanoid biosynthetic pathway T1. Fig. S13. Log2fold change of KEGG phenylpropanoid biosynthetic pathway T2. Fig. S14. Log2fold change of KEGG flavonoid biosynthetic pathway T1. Fig. S15. Log2fold change of KEGG flavonoid biosynthetic pathway T2. Fig. S16. Log2fold change of KEGG anthocyanin biosynthetic pathway T1. Fig. S17. Log2fold change of KEGG anthocyanin biosynthetic pathway T2. Methods S1. Supplementary methods.