Supplementary Tables (1-9 and 11-23)

Supplementary tables (1-9 & 11-23) for Communications Biology manuscript entitled: The genome of a dipterocarp Shorea leprosula highlights the ecological relevance of drought in aseasonal tropical rainforests.Supplementary Table 1. Features of the Illumina libraries and read mapping to the genome assembly.Supplementary Table 2. RNA-Seq data of multiple organs of Shorea leprosula sequenced on an Illumina instrument used for genome quality assessment, gene prediction and gene annotation.Supplementary Table 3. Repeat and TE content of the Shorea leprosula genome, determined with RepeatMasker using RepeatModeler library.Supplementary Table 4. Summary of the predicted S. leprosula genes.Supplementary Table 5. Criteria for determining the reliability of gene models.Supplementary Table 6. Details of the S. leprosula individuals sequenced on an Illumina instrument in a 2 x 101 bp module used for whole-genome resequencing study.Supplementary Table 7. Details of the other dipterocarp species sequenced on an Illumina instrument in a 2 x 101 bp module used for whole-genome resequencing and the mapping ratio.Supplementary Table 8. Nucleotide diversity (p), Watterson's theta (qW) and Tajima's D of the conserved genes.Supplementary Table 9. The order and the directions of the S. leprosula scaffolds used for the dotplot.Supplementary Table 11. RNA-Seq data for ten other dipterocarp species.Supplementary Table 12. List of the Shorea leprosula gene IDs, the posterior median age estimates of WGD, and their 95% high posterior densities of each family under the 2 different settings.Supplementary Table 13. Calibration settings for phylogenetic dating.Supplementary Table 14. The gene ontology (GO) enrichment test reveals that a large number of drought related genes retained their paralogous pairs after the duplication event.Supplementary Table 15. Shorea leprosula duplicated pairs conserved in all four Dipterocarpaceae (S. leprosula, S. platycarpa, Dryobalanops aromatica, and Neobalanocarpus heimii). Each row contains the S. leprosula WGD-derived paralogs.Supplementary Table 16. The gene ontology (GO) enrichment test using the conserved gene set among the resequenced S. leprosula, S. platycarpa, Dryobalanops aromatica and N. heimii.Supplementary Table 17. The gene ontology (GO) enrichment test using the tandemly duplicated gene set in S. leprosula.Supplementary Table 18. RNA-Seq data for S. leprosula drought experiment. Three leaf samples were collected for each treatment (before and after "no-irrigation" stress) and sequenced on an Illumina instrument in a 2 x 125 bp module.Supplementary Table 19. List of differentially expressed genes (up-regulated). Expression values of each replicates in control and drought condition (columns F to Q).Supplementary Table 20. List of differentially expressed genes (down-regulated). Expression values of each replicates in control and drought condition (columns F to Q).Supplementary Table 21. Up-regulated GO terms involved in drought experiment conducted on S. leprosula seedlings.Supplementary Table 22. Down-regulated GO terms involved in drought experiment conducted on S. leprosula seedlings.Supplementary Table 23. Comparisons between the tandemly duplicated genes and the differentially expressed genes under the drought condition.