TABLE 2.
CPT-up-regulated A. nidulans genes revealed by transcript profiling in the wild-type strain
| Functional category and ORF | Homologue (NCBI protein accession no.) | BLAST results (species and E value/ % identity/% similarity) | Induction time(s) (min) |
|---|---|---|---|
| Chromatin/chromosome | |||
| AN1286.2 | Putative hira protein; histone transcription regulator (NP596575) | Schizosaccharomyces pombe e−156/34/51 | 60, 120 |
| AN2770.2 | Putative histone promoter control protein (NP595268) | S. pombe 1e−18/37/51 | 120 |
| AN2765.2 | Histone H1(AAF16011) | Ascobolus immersus 4e−17/55/76 | 60 |
| AN0734.2 | Histone H4 (XP_328073) | Neurospora crassa 6e−44/100/100 | 30, 60, 120 |
| AN3468.2 | Histone H2A (CAA75581) | Aspergillus niger 3e−48/75/76 | 30, 60 |
| AN8039.2 | Histone H2A variant (NP595630) | S. pombe 7e−43/83/90 | 30 |
| AN3469.2 | Histone H2B (AAP69672) | Actinobacillus capsulatus 3e−42/98/98 | 60 |
| AN3071.2 | Histone acetyltransferase (AAF72665) | Homo sapiens 3e−/42/60 | 120 |
| AN8863.2 | Probable nucleosome assembly protein I (CAD70974) | N. crassa e−124/59/66 | 30, 120 |
| AN8851.2 | Centromere/microtubule binding protein CBF5 (NP013276) | S. cerevisiae 1e−71/70/80 | 30, 60 |
| AN0253.2 | Topoisomerase I (AAB39507) | Candida albicans 0.0/50/65 | 30 |
| AN2751.2 | Topoisomerase II-associated protein PAT1 homolog (NP595976) | S. pombe 3e−90/29/45 | 30 |
| AN6364.2 | Putative chromosome-associated protein (NP593260) | S. pombe 0.0/46/64 | 30, 60 |
| AN1698.2 | Putative involvement in chromatin structure (NP593191) | S. pombe e−180/43/59 | 30 |
| AN8742.2 | Structural maintenance of chromosome protein (AAL82734) | A. fumigatus 0.0/57/71 | 30 |
| DNA repair | |||
| AN3129.2 | Related to NAD+ ADP-ribosyltransferase (PARP) (CAD21266) | N. crassa 1e−127/43/67 | 30, 60, 120 |
| AN7309.2 | Postreplication repair protein uvs-2 (P33288) | N. crassa 1e−75/42/56 | 120 |
| AN0076.2 | Putative excision-repair protein (NP593167) | S. pombe 1e−38/25/44 | 60 |
| AN5344.2 | DNA repair protein mus-8 (P52493) | N. crassa 3e−63/79/83 | 30 |
| AN7103.2 | Similar to excision repair protein ERCC-6 (Cockayne syndrome protein CSB) (XP224627) | Rattus norvegicus e−124/51/65 | 30, 120 |
| AN1708.2 | MutS family DNA mismatch repair protein Msh6 (NP588344) | S. pombe 0.0/50/69 | 30 |
| AN2764.2 | DNA repair protein Rad2 (NP594972) | S. pombe e−124/60/75 | 120 |
| AN4407.2 | DNA repair and recombination protein Rad22 (RadC A. nidulans) (NP593207) | S. pombe 2e−53/33/45 | 60 |
| AN4365.2 | Related to DNA mismatch repair homologue (HPMS2) (XP_325240) | N. crassa 4e−86/31/46 | 120 |
| AN1237.2 | UvsC (Rad51 homologue) (EAL90369.1) | A. fumigatus 0.0/98/100 | 30, 60, 120 |
| DNA metabolism | |||
| AN6303.2 | Related to replication factor C protein (RP-C) (CAB91757) | N. crassa 0.0/46/59 | 60, 120 |
| AN7423.2 | Replication protein A (RP-A) (NP595092) | S. pombe e−150 46/63 | 60 |
| AN0415.2 | Proliferating cell nuclear antigen (PCNA) (NP596504) | S. pombe 1e−92/64/82 | 120 |
| AN8201.2 | DNA helicase, homologue of human XPBC (NP012123) | S. cerevisiae 0.0/64/75 | 30, 60, 120 |
| AN0067.2 | Ribonucleotide reductase small subunit (BAB13815) | Lentinula edodes 1e−138/61/71 | 30, 60 |
| AN4380.2 | Ribonucleotide-diphosphate reductase large chain (XP322797) | N. crassa 0.0/80/87 | 60, 120 |
| AN0687.2 | Spermidine synthase (XP327013) | N. crassa e−131/76/85 | 30, 60, 120 |
| AN8216.2 | Nucleoside diphosphate kinase (AAP85295) | A. fumigatus 1e−67/79/90 | 30 |
| AN0271.2 | Deoxyuridine-5′-triphosphate nucleotide (NP593873) | S. pombe 4e−46/69/78 | 30, 120 |
| AN8185.2 | Exonuclease II (NP593482) | S. pombe 0.0/48/64 | 30, 120 |
| AN2868.2 | Small fragment nuclease (NP077195) | Mus musculus 4e−37/48/65 | 30, 120 |
| AN5932.2 | DNA-directed DNA polymerase (CAB57881) | S. pombe 0.0/43/60 | 30 |
| AN2285.2 | DNA helicase (NP594979) | S. pombe e−159/39/52 | 120 |
| AN2739.2 | DNA polymerase theta isoform 2 (NP955452) | H. sapiens e−101/31/48 | 60, 120 |
| Protein degradation | |||
| AN2761.2 | Ubiquitin-conjugating enzyme E2, 16 kDa (ubiquitin-protein ligase) | Glomerella cingulata 6e−82/95/96 | 30, 120 |
| AN3716.2 | 19S proteasome regulatory subunit (NP593594) | S. pombe 9e−91/46/66 | 30 |
| AN7422.2 | Ubiquitin carboxyl-terminal hydrolase (NP596085) | S. pombe e−130/37/53 | 120 |
| AN6354.2 | Ubiquitin carboxyl-terminal hydrolase (NP588530) | S. pombe e−118/35/53 | 30, 120 |
| AN4236.2 | Probable 26S proteasome subunit and member of the CDC48/PAS1/SEC18 family of ATPases (NP014760) | S. cerevisiae e−168/73/85 | 60, 120 |
| AN0909.2 | Hypothetical protein (ubiquitin domain profile) (EAA65938) | A. nidulans 0.0/92/92 | 30, 120 |
| AN5981.2 | Hypothetical protein (ubiquitin domain profile) (EAA57730) | A. nidulans 0.0/77/77 | 60, 120 |
| AN2085.2 | Putative proteasome subunit PUP1 (NP014800) | S. cerevisiae 7e−93/66/79 | 60, 120 |
| AN4225.2 | 26S proteasome regulatory subunit (NP593111) | S. pombe e−108/50/68 | 120 |
| AN2000.2 | Polyubiquitin (AAK19308) | Tuber borchii e−166/98/100 | 30, 60, 120 |
| AN7254.2 | Cdc48 (AAM08677) | A. fumigatus 0.0/90/93 | 30, 60, 120 |
| AN4236.2 | Probable 26S protease subunit and member of the CDC48/PAS1/SEC18 family of ATPases (NP014760) | S. cerevisiae e−168/73/85 | 60, 120 |
| AN2212.2 | Ubiquitin-conjugating enzyme (NP596239) | S. pombe 1e−34/49/65 | 30, 120 |
| AN5793.2 | 20S proteasome beta-type subunit (NP015007) | S. cerevisiae 1e−75/59/69 | 30, 60, 120 |
| AN4869.2 | 20S proteasome component (NP036098) | M. musculus 7e−79/57/75 | 60, 120 |
| AN2416.2 | Ubiquitin-activating enzyme E1C isoform 1; Nedd8-activating enzyme (NP003959) | H. sapiens 4e−81/38/56 | 120 |
| AN5705.2 | Ubiquitin carboxyl terminus (T38954) | S. pombe 1e−90/62/90 | 60, 120 |
| AN1700.2 | 26S proteasome regulatory subunit (NP596381) | S. pombe 0.0/43/62 | 60 |
| AN4872.2 | Monoubiquitin/carboxy extension protein fusion (AAC24705) | Botryotinia fuckeliana 6e−60/73/79 | 30 |
| AN4016.2 | Ubiquitin fusion protein (CAB50892) | Kluyveromyces lactis 8e−66/96/100 | 30, 60, 120 |
| AN2174.2 | Ubiquitin-activating enzyme E1 (O94609) | S. pombe 0.0/58/72 | 30, 60, 120 |
| AN5783.2 | 20S proteasome component (beta 7) (NP595308) | S. pombe 9e−66/51/69 | 120 |
| AN6988.2 | Probable 26S proteasome subunit protein 8 homolog (NP595870) | S. pombe e−165/77/86 | 120 |
| AN2416.2 | Ubiquitin-activating enzyme E1C isoform 1; Nedd8-activating enzyme (NP003959) | H. sapiens 4e−81/38/56 | 120 |
| AN1191.2 | Ubiquitin-like modifier (NP596035) | S. pombe 8e−20/50/64 | 120 |
| Signal transduction, cell cycle | |||
| AN1019.2 | Putative Scf complex protein (CAD28438) | A. fumigatus 0.0/79/85 | 30, 60, 120 |
| AN6044.2 | Similar to cell division cycle 2 homologue protein kinase (NPKA) (XP235722) | S. pombe 2e−77/58/80 | 60 |
| AN2412.2 | Ca/CaM-dependent kinase-1 (AAL14118) | N. crassa 1e−152/71/81 | 60, 120 |
| AN6508.2 | Protein kinase Skp1 (NP593134) | S. pombe e−154/70/84 | 120 |
| AN4182.2 | Cell division control protein 2 CDC2 (cyclin-dependent protein kinase) (XP330428) | N. crassa 1e−140/79/85 | 30, 120 |
| AN5100.2 | Similar to yeast Cdc50 (NP595126) | S. pombe 9e−82/44/61 | 30, 60 |
| AN5102.2 | Cell division control protein 68 CDC68 gene product (Q00976) | K. lactis 0.0/42/60 | 30, 60, 120 |
| AN5744.2 | 14-3-3-like protein (AAP22960) | Paracoccidioides brasiliensis e−124/92/97 | 30, 120 |
| AN1560.2 | Polo-like kinase (BAB18588) | Hemicentrotus pulcherrimus 1e−59/42/61 | 30, 120 |
| AN2047.2 | Calmodulin (AAC96324) | Magnaporthe grisea 1e−76/97/100 | 120 |
| AN4583.2 | Peptidylprolyl isomerase D (cyclophilin D) (NP080628) | M. musculus 1e−86/48/59 | 60, 120 |
| Miscellaneous | |||
| AN6073.2 | Putative prohibitin (NP588144) | S. pombe 4e−88/68/78 | 30, 60, 120 |
| AN2893.2 | Smad nuclear interacting protein (35.8 kDa) (NP451217) | Caenorhabditis elegans 3e−29/43/63 | 120 |
| AN7374.2 | Hypothetical protein (EAA61745) | A. nidulans e−119/100/100 | 30, 60, 120 |
| AN3617.2 | Tetratrico peptide repeat (ZP00109827) | Nostoc punctiforme 3e−2/43/64 | 30, 60, 120 |
| AN8562.2 | Hypothetical protein (ankirin repeats) (EAA66987) | A. nidulans 0.0/95/95 | 60, 120 |
| AN1556.2 | WD-40 repeat protein family (NP564469) | Arabidopsis thaliana 4e−39/29/48 | 120 |
| AN7170.2 | Hypothetical protein (Myc type, helix-loop-helix) (EAA61422) | A. nidulans e−101/70/70 | 30, 60, 120 |
| AN4119.2 | Major facilitator superfamily (AAO49453) | Leptosphaeria maculans e−133/48/64 | 120 |
| AN8489.2 | ABC transporter PMR5 (BAB59028) | Penicillium digitatum 0.0/71/83 | 120 |
| AN2210.2 | Probable ABC-transporter (NP200887) | A. thaliana e−170/55/72 | 30, 60, 120 |
| AN8746.2 | Transcription factor Bft3 homologue (NP594757) | S. pombe 4e−37/52/68 | 60, 120 |
| AN1217.2 | LIM/homeobox transcription factor (Q25132) | Halocynthia roretzi 3e−07/38/58 | 30, 60, 120 |
| AN2919.2 | Zinc finger transcription factor ACE I (AAL69549) | Talaromyces emersonii e−131/43/56 | 30, 60, 120 |
| AN0273.2 | Transcription factor that activates expression of early G1-specific genes (NP013232) | S. cerevisiae 5e−11/28/42 | 30, 60, 120 |