TABLE S1.
Description of the mRNA and small RNA datasets used in this study.
| Description | Library | Read depth | SRA Run | SRA Experiment |
| sRNA datasets | ||||
| B.cinerea‐tomato 12 h | I12As | 76.4M | SRR8074941 | SRX4902789 |
| I12Bs | 80.0M | SRR8074948 | SRX4902782 | |
| I12Cs | 28.5M | SRR8074949 | SRX4902781 | |
| B.cinerea‐tomato 16 h | I16As | 85.7M | SRR8074939 | SRX4902791 |
| I16Bs | 80.7M | SRR8074938 | SRX4902792 | |
| I16Cs | 31.4M | SRR8074937 | SRX4902793 | |
| B.cinerea‐tomato 24 h | I24Bs | 57.8M | SRR8074936 | SRX4902794 |
| I24Ds | 90.7M | SRR8074935 | SRX4902795 | |
| Mock tomato 12 h | M12As | 23M | SRR8074934 | SRX4902796 |
| M12Bs | 15.2M | SRR19164837 | SRX15231189 | |
| Mock tomato 16 h | M16As | 41.6M | SRR8074933 | SRX4902797 |
| M16Bs | 21.1M | SRR19164836 | SRX15231190 | |
| Mock tomato 24 h | M24As | 21.7M | SRR8074932 | SRX4902798 |
| M24Ds | 18.7M | SRR23048732 | SRX19002251 | |
| B.cinerea liquid 16 h | B16As | 72.1M | SRR8074931 | SRX4902799 |
| B16Bs | 43.6M | SRR8074930 | SRX4902800 | |
| B.cinerea ΔKu70 | Ku70‐1s | 18.4M | SRR19161653 | SRX15228005 |
| Ku70‐2s | 23.8M | SRR19161652 | SRX15228006 | |
| Ku70‐3s | 15.3M | SRR19161651 | SRX15228007 | |
| B.cinerea ΔKu70 ΔDcl1/ΔDcl2 | Dcl1dcl2‐1‐26s | 18.2M | SRR19161650 | SRX15228008 |
| Dcl1dcl2‐1‐29s | 22.6M | SRR19161649 | SRX15228009 | |
| Dcl1dcl2‐1‐30s | 17.2M | SRR19161648 | SRX15228010 | |
| mRNA datasets | ||||
| B.cinerea‐tomato 12 h | I12Am | 52.3M | SRR8074958 | SRX4902772 |
| I12Bm | 52.4M | SRR8074959 | SRX4902771 | |
| I12Cm | 24.9M | SRR8074956 | SRX4902774 | |
| B.cinerea‐tomato 16 h | I16Am | 52.5M | SRR8074957 | SRX4902773 |
| I16Bm | 53M | SRR8074954 | SRX4902776 | |
| I16Cm | 25.8M | SRR8074955 | SRX4902775 | |
| B.cinerea‐tomato 24 h | I24Bm | 54.6M | SRR8074952 | SRX4902778 |
| I24Cm | 26.1M | SRR8074950 | SRX4902780 | |
| I24Dm | 53.9M | SRR8074953 | SRX4902777 | |
| Mock tomato 12 h | M12Am | 13.7M | SRR8074951 | SRX4902779 |
| M12Bm | 4.3M | SRR8074946 | SRX4902784 | |
| M12Bm | 22.4M | SRR19164834 | SRX15231192 | |
| Mock tomato 16 h | M16Am | 23.5M | SRR8074947 | SRX4902783 |
| M16Bm | 4.7M | SRR8074944 | SRX4902786 | |
| M16Bm | 19.8M | SRR19164833 | SRX15231193 | |
| Mock tomato 24 h | M24Am | 18.3M | SRR8074945 | SRX4902785 |
| M24Dm | 22.9M | SRR23048700 | SRX19002219 | |
| B.cinerea liquid 16 h | B16Am | 22.1M | SRR8074943 | SRX4902787 |
| B16Bm | 22.2M | SRR8074940 | SRX4902790 | |
| Tissue type = tomato | I, inoculated tomato leaves; M, mock‐treated tomato leaves |
| Tissue type = fungal mycelium | B, B. cinerea liquid culture |
| Time point of sampling | 12, 16, 24 = time point of sampling after inoculation (hours) |
| Biological replicate | A, B, C, D = code of biological replicate (4 samples were taken, 2 or 3 sequenced) |
| Type of RNA sample sequenced | s, small RNA fraction; m, mRNA fraction |