Table 3. DNA damage response genes induced or repressed in yw (±1.5-fold or greater change, p<0.005).
| other information (Flybase) | gene | fold change(p) | ||||
| y2− vs y2+ | y18− vs y18+ | p2− vs p2+ | p18− vs p18+ | |||
| INDUCED at 2 or 18 hr or both | ||||||
| 1 | DNA repair | agt(O-6-alkylguanine-DNA alkyltransferase) | 3.8(0) | 3.6(1.1e-016) | 1.2(4.9e-007) | 2.0(3.7e-010) |
| 2 | RNA-dependent DNA polymerase (predicted) | CHKov1(CHKov1) | 3.2(2.0e-010) | 5.5(2.9e-013) | – | – |
| 3 | DNA repair | Ku80(Ku80) | 2.9(1.1e-016) | 2.0(7.5e-012) | 1.2(0.000009) | 1.1(6.1e-007) |
| 4 | associate with Ku70/80 complex | Irbp(Yolk protein factor 1b) | 2.6(8.9e-015) | 2.1(1.2e-012) | 1.1(0.000012) | 1.0(0.000048) |
| 5 | translesion synthesis | mus205(mutagen-sensitive 205) | 2.6(4.4e-016) | 1.7(1.8e-011) | 0.4(0.014217) | 0.8(0.000004) |
| 6 | DNA repair | Lig4(ligase4) | 2.6(3.5e-013) | 1.9(4.2e-007) | 1.0(0.008889) | 0.6(0.029897) |
| 7 | DNA repair, replication | lig3(DNA ligase III) | 2.4(1.8e-013) | 0.7(0.001965) | – | 0.6(0.001044) |
| 8 | DNA damage signaling | rad50(rad50) | 2.3(1.1e-014) | 2.0(5.8e-013) | 0.5(0.001039) | 0.6(0.000013) |
| 9 | CG6171(Anon-becker2) | 2.1(1.1e-014) | 1.7(6.2e-011) | 0.7(0.000172) | 0.6(0.000004) | |
| 10 | DNA binding (ecdyson biosynthesis) | kay(shroud) | 1.9(1.5e-013) | 0.7(0.000316) | −0.5(0.002455) | 0.3(0.029236) |
| 11 | Jun-related antigen, JNK signaling | Jra(Jun oncogene) | 1.8(7.9e-012) | 0.7(0.000021) | – | – |
| 12 | DNA repair | mus210(xeroderma pigmentosum group C complementing factor) | 1.8(3.7e-014) | 0.9(6.3e-009) | – | 0.3(0.006671) |
| 13 | translesion synthesis | DNApol-eta(DNApol-eta) | 1.7(4.0e-012) | 0.9(0.000008) | – | – |
| 14 | DNA damage signaling | mre11(meiotic recombination 11) | 1.7(3.6e-014) | 1.3(5.8e-012) | 0.6(0.000151) | 0.9(0.000003) |
| 15 | DNA repair | mei-9(meiotic 9) | 1.7(1.4e-009) | 0.9(0.000079) | 0.5(0.044112) | 0.5(0.019780) |
| 16 | DNA replication, repair | RpA-70(Drosophila Replication Protein A) | 1.5(4.0e-014) | 1.4(6.9e-010) | – | 0.5(0.000022) |
| 17 | development, signaling | Btk29A(Btk family kinase at 29A) | 1.5(2.0e-012) | 0.8(0.000007) | −0.3(0.046417) | – |
| 18 | Elongation Factor 2 kinase | PEK(PEK) | 1.4(2.6e-013) | 1.0(3.5e-008) | – | 0.4(0.002521) |
| 19 | DNA repair | XRCC1(XRCC1) | 1.3(4.2e-008) | 1.5(4.9e-007) | – | – |
| 20 | exonuclease (predicted) | CG12877(–) | 1.2(8.9e-009) | – | 0.4(0.015037) | 0.4(0.044350) |
| 21 | multiple roles including DNA repair | UbcD6(Ubiquitin conjugating enzyme) | 1.2(1.6e-010) | 1.3(5.8e-010) | 0.5(0.030280) | 0.2(0.044904) |
| 22 | predicted hydrolase, cell polarity | gkt(glaikit) | 1.0(0.001345) | 1.4(0.000006) | – | – |
| 23 | translesion synthesis | DNApol-iota(DNApol-iota) | 1.0(0.000418) | 0.9(0.006934) | – | – |
| 24 | DNA replication and repair | RnrL(ribonucleoside-diphosphate reductase large subunit) | 0.96(2.4e-012) | 0.75(4.1e-08) | −0.07(0.58986) | 0.58(0.000003) |
| 25 | DNA repair (predicted) | CG5524(–) | 0.9(0.000012) | – | – | – |
| 26 | checkpoint | pic(piccolo) | 0.8(6.0e-009) | 0.8(2.5e-008) | – | – |
| 27 | DNA repair | spn-A(Spindle-A) | 0.8(0.000072) | 0.6(0.000648) | – | – |
| 28 | Src kinase homolog | Src42A(Suppressor of pole hole) | 0.7(3.1e-008) | 0.5(0.000314) | – | – |
| 29 | chromatin regulation | Ssrp(structure-specific recognition protein) | 0.7(2.4e-007) | 0.8(1.4e-007) | – | – |
| 30 | guanylate kinase (predicted) | pyd(tamou) | 0.7(0.000003) | – | – | – |
| 31 | checkpoint | RfC4(Replication factor C subunit 4) | 0.6(1.2e-008) | 0.7(1.2e-007) | – | 0.5(0.000363) |
| 32 | recombination | c(3)G(crossover suppressor on 3 of Gowan) | 0.6(0.022482) | 0.8(0.001269) | – | – |
| 33 | DNA replication | EndoG(CG8862) | 0.6(0.000367) | 0.4(0.044169) | – | – |
| 34 | cell cycle regulation | Rbf(Retinoblastoma-family protein) | 0.6(0.000064) | – | – | – |
| 35 | DNA repair | Ercc1(Ercc1) | 0.4(0.001146) | 0.6(0.000128) | – | – |
| 36 | DNA replication (predicted) | CG15220(–) | 0.3(0.001870) | 1.0(2.3e-009) | – | 0.5(0.000034) |
| 37 | DNA metabolism | Top1(topoisomerase I) | – | 0.6(0.000572) | – | – |
| REPRESSED at 2 or 18 hr or both | ||||||
| 1 | replication fork protection (predicted) | CG10336(–) | −2.0(1.6e-008) | −0.6(0.000565) | – | – |
| 2 | Rnase H (predicted) | CG13690(–) | −1.9(8.0e-008) | −0.8(0.001579) | −0.5(0.004728) | 0.3(0.026737) |
| 3 | DNA replication | Orc6(Origin recognition complex subunit 6) | −1.8(8.1e-009) | −1.0(0.000011) | – | 0.4(0.006813) |
| 4 | DNA replication | DNApol-alpha60(“DNA polymerase alpha 58,000 beta subunit”) | −1.8(2.0e-008) | −0.5(0.020794) | −0.5(0.019469) | 0.3(0.035621) |
| 5 | DNA replication | Pole2(Pole2) | −1.7(4.1e-008) | −0.6(0.001494) | −0.5(0.005458) | 0.4(0.005395) |
| 6 | Hsp70Bc(heat shock 70) | −1.7(0.034517) | −0.8(0.223137) | 0.9(0.382707) | −2.1(0.000112) | |
| 7 | DNA replication | dup(Double-parked) | −1.5(2.1e-010) | – | −0.5(0.007475) | 0.6(0.000013) |
| 8 | DNA repair | RecQ4(RecQ4) | −1.5(0.000284) | −0.6(0.032397) | – | 0.5(0.019571) |
| 9 | DNA replication | RfC3(Drosophila replication factor C) | −1.4(7.5e-009) | −0.3(0.020703) | −0.5(0.005448) | 0.6(0.000044) |
| 10 | DNA replication | Cdc6(Cdc6) | −1.4(0.000006) | – | – | – |
| 11 | DNA replication | DNApol-alpha73(DNA polymerase 73K) | −1.4(0.000002) | – | – | 0.4(0.022580) |
| 12 | helicase (predicted) | CG5924(d-mtDNA helicase) | −1.2(0.000194) | – | – | – |
| 13 | DNA amplification | hd(humpty dumpty) | −1.2(0.000022) | −0.4(0.022023) | −0.6(0.007042) | – |
| 14 | DNA replication | DNApol-epsilon(DNA polymerase epsilon) | −1.2(0.000019) | – | – | – |
| 15 | cutlet(gilead) | −1.1(0.000017) | −0.7(0.006384) | – | – | |
| 16 | chromatin silencing, DNA replication | Mcm10(Sensitized chromosome inheritance modifier 19) | −1.1(0.000004) | – | −0.5(0.004123) | 0.4(0.004897) |
| 17 | DNA replication | Mcm3(Minichromosome maintenance 3) | −1.0(2.2e-010) | −0.5(0.000038) | −0.3(0.010981) | 0.3(0.034050) |
| 18 | DNA replication | DNApol-alpha180(DNA polymerase 180K) | −1.0(0.000363) | – | – | 0.4(0.013874) |
| 19 | Src kinase homolog | Src64B(Src oncogene at 64B) | −1.0(0.000013) | −1.0(0.000508) | – | – |
| 20 | 3′-5′ exonuclease (predicted) | WRNexo(CG7670) | −0.9(3.0e-008) | −0.8(0.000117) | −0.3(0.021623) | – |
| 21 | DNA replication | Mcm5(Minichromosome maintenance 5) | −0.9(1.3e-009) | −0.5(0.000126) | – | 0.3(0.014684) |
| 22 | nuclease (predicted) | mms4(CG12936) | −0.9(0.000052) | −0.6(0.008131) | – | 0.4(0.032641) |
| 23 | helicase, DNA replication | Psf2(Psf2) | −0.9(0.000008) | – | – | – |
| 24 | DNA replication | CDC45L(Transcription unit D) | −0.8(2.6e-007) | −0.4(0.009211) | −0.3(0.038574) | 0.4(0.005622) |
| 25 | microtubule binding, chromosome segregation | Klp3A(Kinesin-Like-Protein-at-3A) | −0.8(2.6e-007) | −0.5(0.000180) | −0.3(0.047748) | – |
| 26 | meiotic recombination | trem(CG4413) | −0.8(0.000137) | – | – | – |
| 27 | DNA repair | mu2(mutator 2) | −0.8(0.000018) | −0.6(0.000528) | – | 0.4(0.012942) |
| 28 | mitotic spindle, transcription | mip130(Myb-interacting protein 130) | −0.8(0.000015) | – | – | −0.3(0.019180) |
| 29 | cell cycle regulation, cell death, transcription | E2f2(E2F transcription factor 2) | −0.8(0.000006) | −0.5(0.000132) | – | – |
| 30 | Ubiquitin ligase (predicted) | ago(archipelago) | −0.7(8.1e-007) | −0.5(0.000194) | −0.2(0.045051) | – |
| 31 | checkpoint | grp(grapes) | −0.7(2.7e-007) | −0.5(0.000245) | −0.7(0.046548) | – |
| 32 | DNA replication | geminin(geminin) | −0.7(2.1e-007) | −0.5(0.000010) | – | – |
| 33 | cell cycle regulation | pim(pimples) | −0.7(1.1e-007) | −0.7(0.000002) | – | – |
| 34 | DNA mismatch repair | Mlh1(Mlh1) | −0.7(0.001590) | −0.4(0.033836) | – | – |
| 35 | DNA repair (predicted) | Fen1(Flap endonuclease 1) | −0.7(0.000075) | −0.3(0.021554) | – | – |
| 36 | DNA replication | Orc5(lethal(2)34Df) | −0.7(0.000057) | −0.4(0.029409) | – | – |
| 37 | DNA replication | Gnf1(germline transcription factor) | −0.7(0.000003) | −0.3(0.023688) | – | 0.2(0.048634) |
| 38 | DNA replication | Mcm6(Minichromosome maintenance 6) | −0.7(0.000001) | −0.5(0.000029) | – | – |
| 39 | DNA replication | mus209(proliferating cell nuclear antigen) | −0.6(9.9e-007) | – | – | 0.5(0.000024) |
| 40 | DNA binding, segment specification | crm(swollen-antenna) | −0.6(0.013153) | −0.9(0.000257) | – | – |
| 41 | DNA transposition (predicted) | CG4570(–) | −0.6(0.002225) | – | – | – |
| 42 | transcription regulation | mip120(Myb-interacting protein 120) | −0.6(0.000151) | −0.8(0.000041) | – | −0.3(0.009726) |
| 43 | DNA repair | Mms19(Mms19) | −0.6(0.000027) | – | – | – |
| 44 | microtubule organization | CG8142(–) | −0.6(0.000023) | – | – | 0.3(0.001450) |
| 45 | microtubule binding, chromosome segregation | nod(no distributive disjunction) | −0.5(0.000143) | −0.6(0.000073) | – | – |
| 46 | DNA replication | Mcm7(Minichromosome maintenance 7) | −0.5(0.000040) | −0.7(0.000002) | – | – |
| 47 | transcription regulation | woc(without children) | −0.4(0.000022) | −0.6(0.000006) | – | – |
| 48 | post-embryonic development | vg(vestigial) | −0.3(0.013039) | −1.0(7.9e-009) | – | – |
| 49 | chorion gene amplification | chif(chiffon) | −0.2(0.022017) | −0.8(6.1e-008) | – | – |
| 50 | DNA replication and repair | RnrS(ribonucleoside-diphosphate reductase small subunit) | −1.0(1.00e-10) | −0.8(1.2e-08) | −0.6(0.000188) | 0.4(0.000186) |
| 51 | response to hydrogen peroxide | Cat(catalase) | – | −0.7(0.000090) | – | −0.3(0.029640) |
| 52 | transcription initiation | Ssl1(Ssl1) | – | −0.8(7.8e-007) | – | – |
The values shown are log2. The cut-off values were 1.5 fold or more (log2 of 0.585 or greater) with p<0.005 compared to un-irradiated controls, at 2 hr or 18 hr after irradiation or both. ‘–’ = the gene was not significantly induced with respect to neither p-value or fold change. p-value of 0 means p<1e-10. y = yw control; p = p53 mutants, ‘−’ = −IR (0 R); ‘+’ = +IR (4000 R); 2 = 2 hr after irradiation, 18 = 18 hr after irradiation. If there is data for more than one probe set is available for a gene, the set with the best p value was considered.