Table 1.
Selected differentially expressed defense-related, RNA silencing pathway and microRNA target genes in Sw-7 compared to the S-line after TSWV inoculation.
| S. lycopersicum accession | Annotation | 4 dpi | 7 dpi | 14 dpi | 21 dpi | 35 dpi |
|---|---|---|---|---|---|---|
| DEFENSE-RELATED GENES | ||||||
| NBS-LRR Genes | ||||||
| Solyc08g006970 | LRR, resistance protein | — | — | — | −2.396 | — |
| Solyc01g014840 | TIR-NBS-LRR, resistance protein | — | — | — | −3.474 | — |
| MLO-like Protein | ||||||
| Solyc03g095650 | MLO-like protein | — | — | — | −3.322 | — |
| PATHOGENESIS-RELATED PROTEIN GENES | ||||||
| Solyc07g006710 | Pathogenesis-related-1: PR-1 | — | — | — | 1.546 | — |
| Solyc12g014310 | PR-like protein | — | — | −2.322 | — | — |
| Defensin | ||||||
| Solyc07g007760 | Defensin protein | — | — | — | −4.322 | −2.184 |
| Solyc07g006380 | Defensin-like protein | — | — | — | −2.144 | — |
| Nodulin | ||||||
| Solyc11g012930 | Nodulin family protein | — | 2.336 | — | — | — |
| Solyc05g005870 | Nodulin MtN21 family | — | — | — | 2.124 | — |
| Chitinase | ||||||
| Solyc07g005100 | Chitinase-like protein | — | — | — | −3.474 | — |
| Solyc05g050130 | Acidic chitinase | — | — | — | −4.644 | −2.737 |
| Solyc02g082920 | Endochitinase (Chitinase) | — | — | −3.184 | −5.059 | — |
| Protease | ||||||
| Solyc10g086600 | Subtilisin-like serine protease | — | — | — | — | 4.563 |
| Peroxidase | ||||||
| Solyc06g050440 | Peroxidase | — | — | — | −4.059 | — |
| Solyc01g006300 | Peroxidase | — | — | — | −2.120 | — |
| Osmotin-like protein, PR5 | ||||||
| Solyc08g080670 | Osmotin-like protein | — | — | — | 3.065 | — |
| Protease Inhibitor | ||||||
| Solyc00g071180 | Cysteine proteinase inhibitor | — | — | — | −6.644 | — |
| Solyc03g097270 | Cysteine proteinase inhibitor | — | — | — | −2.120 | — |
| Solyc03g098740 | Kunitz trypsin inhibitor | — | — | — | −3.837 | — |
| Solyc03g098790 | Kunitz-type | −1.889 | — | — | −6.644 | — |
| Solyc03g098780 | Kunitz-type | — | — | — | −2.644 | — |
| Solyc03g098760 | Kunitz-type like protein | — | — | — | −5.644 | — |
| Solyc09g089530 | Proteinase inhibitor I | — | — | — | −4.322 | — |
| Solyc09g089540 | Proteinase inhibitor I | — | — | — | −5.648 | — |
| Solyc09g089520 | Proteinase inhibitor I | −4.644 | — | — | −5.059 | — |
| Solyc09g089510 | Proteinase inhibitor I | — | — | — | −2.556 | — |
| Solyc09g084470 | Proteinase inhibitor I | — | — | — | −4.059 | — |
| Solyc09g084480 | Proteinase inhibitor I | — | — | — | −2.943 | — |
| Solyc09g083440 | Proteinase inhibitor I | — | — | — | −3.474 | — |
| Solyc09g084490 | Proteinase inhibitor I | — | — | — | −4.322 | — |
| OTHER DEFENSE GENES | ||||||
| Glycine-rich protein (Inducer of PR-1) | ||||||
| Solyc06g061200 | Glycine-rich protein TomR2 | — | 1.880 | — | — | — |
| Major latex-like protein | ||||||
| Solyc09g014530 | Major latex-like protein | — | — | — | −4.322 | — |
| Solyc08g023660 | Major latex-like protein | — | −1.889 | — | — | — |
| Solyc05g046150 | Major latex-like protein | −2.737 | — | — | — | — |
| Solyc04g005700 | Major latex-like protein | −1.556 | — | — | — | — |
| Universal stress protein | ||||||
| Solyc09g011660 | Universal stress protein | — | — | — | −2.396 | — |
| Solyc04g014600 | Universal stress protein | — | — | — | −3.059 | — |
| Solyc01g057000 | Universal stress protein | — | — | — | −2.943 | −5.059 |
| TMV response | ||||||
| Solyc04g082960 | TMV response-related | — | — | −3.059 | −2.837 | — |
| Disease resistance | ||||||
| Solyc01g021600 | Disease resistance response | — | — | — | −5.644 | — |
| Calmodulin | ||||||
| Solyc01g010020 | Calmodulin | — | — | — | — | −3.184 |
| Solyc02g091500 | Calmodulin | — | — | — | −2.252 | — |
| Solyc07g040710 | Calmodulin-binding protein | — | — | — | — | — |
| Solyc03g113940 | Calmodulin-binding protein | — | — | — | −5.644 | — |
| Solyc03g119250 | Calmodulin-binding protein | — | — | −2.474 | — | — |
| Solyc02g088090 | Calmodulin-like protein | — | — | −3.322 | — | — |
| Heat Shock Protein | ||||||
| Solyc06g076520 | class I heat shock protein | — | — | — | −2.322 | — |
| Solyc06g076570 | class I heat shock protein | — | — | — | −3.644 | — |
| Solyc06g076560 | class I heat shock protein | — | — | — | −3.059 | — |
| Solyc02g093600 | class I heat shock protein | — | — | — | −5.644 | — |
| Solyc04g014480 | class I heat shock protein 3 | — | — | — | — | −3.059 |
| Solyc08g062450 | class II heat shock protein | — | — | −3.837 | — | — |
| Solyc03g113930 | class IV heat shock protein | — | — | — | — | −3.644 |
| Solyc11g020330 | class IV heat shock protein | — | — | — | −4.644 | −3.644 |
| F-Box Protein | ||||||
| Solyc11g006740 | F-box protein | — | — | — | −4.322 | −3.644 |
| GENE SILENCING PATHWAY GENES | ||||||
| Solyc02g069260 | ARGONAUTE 1 | — | — | — | −3.059 | — |
| Solyc11g008540 | SlDCL2b | — | — | — | −2.737 | — |
| Solyc11g008530 | SlDCL2d | — | — | — | −2.252 | — |
| MICRORNA-TARGET GENES | ||||||
| Solyc03g115850 | miR164-NAC domain | — | — | — | −3.837 | — |
| Solyc06g069710 | miR164-NAC domain | — | — | — | −6.644 | — |
| Solyc06g075510 | miR172-AP2-like ERF | — | — | — | −2.252 | — |
| Solyc10g006710 | miR172-kinase receptor | — | — | — | −4.322 | — |
| Solyc06g007320 | miR396-Ubiquitin-activating enzyme E1 | — | — | — | −2.120 | — |
| Solyc01g005780 | miR6022-LRR -RLP kinase | — | — | — | −5.644 | — |
| Solyc01g006550 | miR6022-LRR- RLP kinase | — | — | — | −4.644 | — |
| Solyc01g009690 | miR6022-LRR- RLP kinase | — | — | −3.837 | −4.059 | — |
| Solyc01g009700 | miR6022-LRR- RLP kinase | — | — | — | −4.322 | — |
| Solyc01g009930a | N/A -LRR- RLP kinase | — | — | — | −3.251 | — |
aN/A referred to be a non-annotated microRNA (It is not registered at the miRBase registry; it can be considered as a new microRNA).