DOI: 10.6084/m9.figshare.26987944
title: Additional file 2 of The Sapria himalayana genome provides new insights into the lifestyle of endoparasitic plants

description: Additional file 2: Table S1. Statistics and characteristics of the Sapria himalayana genome. Table S2. Validation of genome assembly using BUSCO. Table S3. The statistics and characteristics of RNA-seq and Iso-seq. Table S4. Statistics of predicted protein-coding genes in related species. Table S5. Functional annotation of Sapria himalayana protein-coding genes. Table S6. Statistics of different kinds of repeat types. Table S7. Annotation of conserved non-coding RNA genes in the Sapria himalayana genome. Table S8. Orthogroups comprising genes from Arabidopsis thaliana, Cuscuta australis, Manihot esculenta, Populus trichocarpa, Sapria himalayana and Vitis vinifera. Table S9. MapMan categories of lost genes in Sapria himalayana. Table S10. MapMan categories of duplicated genes in Sapria himalayana. Table S11. MapMan categories of species-specific genes in Sapria himalayana. Table S12. Presence and absence of genes involved in leaf and root development. Table S13. Presence and absence of genes involved in nutrient uptake and transport. Table S14. Genes and corresponding GeneBank accession numbers. Table S15. Number of genes related to cell proliferation and cell expansion in petals. Table S16. Presence and absence of genes involved in the regulation of flowering time. Table S17. The full name of genes related to fatty acid and amino acid. Table S18. HGT candidates in Sapria himalayana. Table S19. Overview of intron sequence in HGT sequences in Sapria himalayana. Table S20. Transcript levels of HGTs with- or without introns in flower buds of Sapria himalayana. Table S21. MapMan categories of horizontal gene transfersin the nuclear genome of Sapria himalayana. Table S22. Presence and absence of genes involved in salicylic acid biosynthesis. Table S23. Information of some HGT orthogroups including tree_id, HGT genes, corresponding native genes, intron, expression, selective constraint, and annotation. Table S24. PAML analyses with the branch test of HGT orthogroups, testing mode of selection in HGT sequencescompared to the background. Table S25. RELAX analyses of HGT orthogroups testing intensified selection or relaxed constraint in HGT sequences compared to the background. Table S26. The transcript levels of HGTs in the flower tissues of Sapria himalayana. Table S27. Positions, sizes and strand orientation of mitochondrial genes of Sapria himalayana. Table S28. Intron length of genes with the highest expression level in the top 1000 in Sapria himalayana flower buds. Table S29. Intron length of genes were responsible for floral development, hormones, flowering, haustorium, and fatty acid, sugar and amino acid biosynthesis and transport in Sapria himalayana. Table S30. Heatmap showing the log2-tranformed expression profile of HGT genes shared HGT functions among Sapria himalayana, Cuscuta and Orobanchaceae. Table S31. Summary of the selected genomes used in this study. Table S32. Orthogroup classification for the identification of HGTs among 14 representative species. Table S33. NCBI accession number of mitogenomes. Table S34. NCBI accession number of sequencing, assembly, and annotation data.