Additional file 1 of Spatial transcriptomics reveals the spatiotemporal response of garden asparagus stem cells to Phomopsis asparagi infection

Additional file 1: Figure S1. Confocal laser scanning microscope was applied to verify the fungus infection process in 1 dpi (a) and 3 dpi (b) samples. Figure S2. Overview of the spatial transcriptomics experiment on asparagus stem infected by P. asparagi. Figure S3. The analysis pipeline for the spatial transcriptomic study. Figure S4. Data quality reports of spatial transcriptomics. Figure S5. Spatial expression pattern of selected marker genes in asparagus stems. Figure S6. DEGs and the top 10 upregulated genes across five cell types in response to P. asparagi infection at the distal tissue. Figure S7. Spatial expression pattern of the top 5 upregulated genes across five cell types of S1 in response to P. asparagi infection at the infection site. Figure S8. Spatial expression pattern of the top 5 upregulated genes across five cell types of S3 in response to P. asparagi infection at the infection site. Figure S9. Pseudotime analysis of sclerenchyma cells in Mock1, Mock3, S1, and S3 samples. Figure S10. Pseudotime analysis of vascular bundle cells in Mock1, Mock3, S1, and S3 samples. Figure S11. Pseudotime analysis of cortex cells in Mock1, Mock3, S1, and S3 samples. Figure S12. Pseudotime analysis of pith cells in Mock1, Mock3, S1, and S3 samples. Figure S13. GO enrichment analysis of DEGs across all cell types. Figure S14. Differential-expression plot of DEGs of epidermis and sclerenchyma in S1. Figure S15. Differential-expression plot of DEGs in S3(d).