Microarray results for genes whose mRNA accumulation is affected at least 1.8-fold (P<0.05, corrected z test) in deps-1 germ lines
| Genes downregulated in deps-1 relative to wild type | ||||||
| WormBase ID (gene name) | Gene family* | Primer pair | wt/deps-1 ratio | Chr | rde-3regulation†(wt/rde-3 ratio) | |
| F54H12.6 | F54H12.6 | 10.7 | III | |||
| Y65B4BL.2 (deps-1) | Y65B4B_13.B | 6.5 | I | |||
| T21G5.3 (glh-1) | 1 | T21G5.3 | 3.3 | I | ||
| T20G5.11 (rde-4) | T20G5.11 | 3.2 | III | |||
| Y19D10A.12 | 2 | Y19D10A.L | 2.7 | V | ||
| F54H12.1 (aco-2) | F54H12.1 | 2.5 | III | |||
| Y19D10A.4 | 3 | Y19D10A.D | 2.4 | V | ||
| Y19D10A.16 | 4 | Y19D10A.N | 2.2 | V | ||
| C01B4.6 | 4 | C01B4.6 | 2.0 | V | ||
| C01B4.7 | 3 | C01B4.7 | 2.0 | V | Down(2.5)‡ | |
| F55G1.8 (plk-3) | F55G1.8 | 1.9 | IV | |||
| T20G5.2 (cts-1) | T20G5.2 | 1.9 | III | |||
| Y116A8C.30 | Y116A8C.30 | 1.9 | IV | |||
| Genes upregulated in deps-1 relative to wild type | ||||||
| WormBase ID (gene name) | Gene family* | Primer pair | deps-1/wt ratio | Chr | rde-3regulation†(rde-3/wt ratio) | |
| W09B7.2 | 5 | W09B7.B | 11.6 | V | Up(39.1)‡ | |
| Y43F4A.3 | Y43F4A.3 | 8.4 | III | |||
| F11A6.2 | F11A6.2 | 6.5 | I | |||
| C38D9.2 | 6 | C38D9.2 | 5.7 | V | Up (45.6) | |
| C07G3.9 (ugt-64) | C07G3.9 | 4.7 | V | |||
| W09B7.1 | 7 | W09B7.C | 4.4 | V | ||
| W03G1.3 | 8 | W03G1.3 | 4.1 | IV | ||
| C40A11.8 | C40A11.8 | 3.3 | II | |||
| K02B7.2 | 8 | K02B7.2 | 3.2 | II | Up (9.2)‡ | |
| K02B7.1§ | 9 | K02B7.1 | 3.2 | II | ||
| C18D4.6 | C18D4.6 | 3.1 | V | |||
| K02E7.2 | 8 | K02E7.2 | 2.9 | II | ||
| F41G4.7 | 10 | F41G4.6¶ | 2.6 | X | Up (3.9)¶ | |
| T23G5.6 | T23G5.6 | 2.6 | III | Up (2.2) | ||
| F15D4.5 | 6 | F15D4.5 | 2.4 | II | Up (50.9) | |
| K07E8.10 | 8 | K07E8.10 | 2.3 | II | ||
| C04C3.5 (dyf-3) | C04C3.5 | 2.3 | IV | |||
| ZC15.3 | 10 | ZC15.3 | 2.2 | V | ||
| K08D10.5 | K08D10.5 | 2.1 | IV | |||
| C33H5.4 (klp-10) | 11 | C33H5.4 | 2.0 | IV | ||
| D2045.2 | 12 | D2045.2 | 2.0 | III | ||
| T24B8.7 | F37B12.4 | 2.0 | II | |||
| H04D03.3 | 12 | H04D03.3 | 1.9 | III | ||
| R03G8.2** | R03G8.2 | 1.9 | X | |||
| Y39A3CL.6 (pvf-1) | Y39A3C_84.B | 1.9 | II | |||
| C13B9.1 | C13B9.1 | 1.8 | III | |||
| C04F12.9 (rnh-1.3) | C04F12.9 | 1.8 | I | Up (17.2) | ||
| F30B5.4 | F30B5.4 | 1.8 | IV | |||
| Y55H10B.1** | 13 | Y55H10B.D | 1.8 | IV | Up (5.2)‡ | |
| F57G4.3** | 13 | F57G4.3 | 1.8 | V | Up (5.0)‡ | |
| T03D3.5 | T03D3.5 | 1.8 | V | |||
| B0511.11 | B0511.11 | 1.8 | I | |||
| Genes downregulated in deps-1 relative to wild type | ||||||
| WormBase ID (gene name) | Gene family* | Primer pair | wt/deps-1 ratio | Chr | rde-3regulation†(wt/rde-3 ratio) | |
| F54H12.6 | F54H12.6 | 10.7 | III | |||
| Y65B4BL.2 (deps-1) | Y65B4B_13.B | 6.5 | I | |||
| T21G5.3 (glh-1) | 1 | T21G5.3 | 3.3 | I | ||
| T20G5.11 (rde-4) | T20G5.11 | 3.2 | III | |||
| Y19D10A.12 | 2 | Y19D10A.L | 2.7 | V | ||
| F54H12.1 (aco-2) | F54H12.1 | 2.5 | III | |||
| Y19D10A.4 | 3 | Y19D10A.D | 2.4 | V | ||
| Y19D10A.16 | 4 | Y19D10A.N | 2.2 | V | ||
| C01B4.6 | 4 | C01B4.6 | 2.0 | V | ||
| C01B4.7 | 3 | C01B4.7 | 2.0 | V | Down(2.5)‡ | |
| F55G1.8 (plk-3) | F55G1.8 | 1.9 | IV | |||
| T20G5.2 (cts-1) | T20G5.2 | 1.9 | III | |||
| Y116A8C.30 | Y116A8C.30 | 1.9 | IV | |||
| Genes upregulated in deps-1 relative to wild type | ||||||
| WormBase ID (gene name) | Gene family* | Primer pair | deps-1/wt ratio | Chr | rde-3regulation†(rde-3/wt ratio) | |
| W09B7.2 | 5 | W09B7.B | 11.6 | V | Up(39.1)‡ | |
| Y43F4A.3 | Y43F4A.3 | 8.4 | III | |||
| F11A6.2 | F11A6.2 | 6.5 | I | |||
| C38D9.2 | 6 | C38D9.2 | 5.7 | V | Up (45.6) | |
| C07G3.9 (ugt-64) | C07G3.9 | 4.7 | V | |||
| W09B7.1 | 7 | W09B7.C | 4.4 | V | ||
| W03G1.3 | 8 | W03G1.3 | 4.1 | IV | ||
| C40A11.8 | C40A11.8 | 3.3 | II | |||
| K02B7.2 | 8 | K02B7.2 | 3.2 | II | Up (9.2)‡ | |
| K02B7.1§ | 9 | K02B7.1 | 3.2 | II | ||
| C18D4.6 | C18D4.6 | 3.1 | V | |||
| K02E7.2 | 8 | K02E7.2 | 2.9 | II | ||
| F41G4.7 | 10 | F41G4.6¶ | 2.6 | X | Up (3.9)¶ | |
| T23G5.6 | T23G5.6 | 2.6 | III | Up (2.2) | ||
| F15D4.5 | 6 | F15D4.5 | 2.4 | II | Up (50.9) | |
| K07E8.10 | 8 | K07E8.10 | 2.3 | II | ||
| C04C3.5 (dyf-3) | C04C3.5 | 2.3 | IV | |||
| ZC15.3 | 10 | ZC15.3 | 2.2 | V | ||
| K08D10.5 | K08D10.5 | 2.1 | IV | |||
| C33H5.4 (klp-10) | 11 | C33H5.4 | 2.0 | IV | ||
| D2045.2 | 12 | D2045.2 | 2.0 | III | ||
| T24B8.7 | F37B12.4 | 2.0 | II | |||
| H04D03.3 | 12 | H04D03.3 | 1.9 | III | ||
| R03G8.2** | R03G8.2 | 1.9 | X | |||
| Y39A3CL.6 (pvf-1) | Y39A3C_84.B | 1.9 | II | |||
| C13B9.1 | C13B9.1 | 1.8 | III | |||
| C04F12.9 (rnh-1.3) | C04F12.9 | 1.8 | I | Up (17.2) | ||
| F30B5.4 | F30B5.4 | 1.8 | IV | |||
| Y55H10B.1** | 13 | Y55H10B.D | 1.8 | IV | Up (5.2)‡ | |
| F57G4.3** | 13 | F57G4.3 | 1.8 | V | Up (5.0)‡ | |
| T03D3.5 | T03D3.5 | 1.8 | V | |||
| B0511.11 | B0511.11 | 1.8 | I | |||
Numbers indicate different gene families. Members of each family are listed in Table 3.
All rde-3(ne298) regulation data are from Table S1 in Lee et al.(Lee et al., 2006).
Oligos on rde-3 arrays are not specific for this gene family member; some or all detect multiple gene family members.
99% identical to R09E12.6, which is upregulated 20.88-fold in rde-3(ne298) mutants.
F41G4.6 is upregulated; F41G4.6 was recently merged into F41G4.7.
Possible transposon (WormBase release WS172).