Table 1.
Selected list of S. sclerotiorum target genes for RNA interference testing in liquid culture, and infection assays on B. napus and A. thaliana.
| Source | Gene | FPKM in vitro | FPKM Westar 24 dpi | FPKM ZY821 24 hpi | Process |
|---|---|---|---|---|---|
| Literature1 | SS1G_08218 | 7913.2 | 5211.0 | 6743.8 | Oxaloacetate acetylhydrolase |
| Essential Genes2 | SS1G_05899 | 268.7 | 259.1 | 244.4 | Thioredoxin reductase |
| Essential genes2 | SS1G_06487 | 87.3 | 82.0 | 114.3 | TIM44 |
| Essential genes2 | SS1G_07873 | 47.1 | 41.5 | 47.8 | pre-40S ribosomal particle |
| Low expression values | SS1G_00509 | 1.8 | 6.6 | 3.2 | Hydrolase activity, carbohydrate metabolic process |
| Low expression values | SS1G_06055 | 0.0 | 0.8 | 2.0 | Prenyltransferase activity |
| Low expression values | SS1G_13720 | 0.0 | 1.4 | 0.5 | MFS sugar transporter |
| Low expression values | SS1G_13982 | 0.1 | 0.2 | 2.0 | Triacylglycerol lipase |
| Moderate expression values | SS1G_09261 | 14.20 | 22.56 | 22.80 | Bub1-Bub3 complex localization to kinetochore |
| High accumulation values | SS1G_10167 | 14126.6 | 19992.7 | 24179.3 | Endo-polygalacturonase |
| Positive expression fold change3 | SS1G_02791 | 2.0 | 19.1 | 23.8 | Transcription factor activity |
| Positive expression fold change3 | SS1G_04551 | 1.9 | 12.6 | 16.4 | Pectinesterase |
| Positive expression fold change3 | SS1G_14298 | 17.9 | 31.6 | 23.0 | bHLH transcription factor |
| TIP4 | SS1G_01703 | 45.1 | 307.0 | 164.7 | Aminoacyl-tRNA ligase activity/alfatoxin biosynthesis |
| TIP4 | SS1G_02495 | 61.2 | 336.1 | 353.7 | Peroxidase activity |
| TIP4 | SS1G_03208 | 11.5 | 51.4 | 48.3 | Pre-mRNA splicing factor 8 |
| TIP4 | SS1G_03991 | 16.7 | 39.5 | 39.4 | Srb8 component of mediator complex |
| TIP4 | SS1G_04966 | 30.6 | 64.3 | 59.5 | Histone modification |
| TIP4 | SS1G_06830 | 13.7 | 101.8 | 71.3 | Aminoacyl permease |
| TIP4 | SS1G_09680 | 50.8 | 61.2 | 70.3 | 60 S ribosome biogenesis |
| TIP4 | SS1G_09897 | 28.53 | 61.36 | 59.24 | Cdc25 |
| TIP4 | SS1G_11912 | 24.5 | 551.2 | 359.3 | Necrosis/ethylene inducing peptide 2 |
| TIP4 | SS1G_12021 | 149.3 | 397.4 | 363.8 | 1,3 glucan synthase |
| TIP4 | SS1G_12640 | 53.1 | 114.2 | 130.1 | Protein disulphide oxidoreductase process |
| TIP4 | SS1G_12992 | 13.5 | 57.5 | 39.0 | Transglutaminase protein modification in ER |
| TIP4 | SS1G_13702 | 127.1 | 98.2 | 101.9 | TIM23 |
| TIP4 | SS1G_13746 | 15.1 | 33.7 | 32.5 | Peroxisome |
(1) Liang et al.29; (2) Database of Essential Genes (www.essentialgene.org)45; (3) Positive fold change in response to in planta growth (4) TIP = Target identification pipeline (Table S2).