KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Secondary Goat Anti-Mouse Immunoglobulins/HRP, 1:5000 | Dako | P0447; RRID:AB_2617137 |
| Goat Anti-Rabbit Immunoglobulins/HRP, WB:1:5000 | Dako | P0448;: RRID:AB_2617138 |
| Anti-HA (anti-HA.11 Epitope Tag Antibody clone 16B12), WB:1:2000‘ | BioLegend | 901502, lot B276381 or B242905; RRID:AB_2565006 |
| Anti-Pgk1 antibody [22C5D8], WB:1:3000 | Abcam | ab113687, GR3195775-3; RRID:AB_10861977 |
| Anti-Rad53 (monoclonal, K-medium), WB:1:100 | Gift from Maksym Shyian (D. Shore laboratory) | Mab clone EL7.E1 |
| Anti-Flag M2, WB:1:5000 | Sigma | F3165, lot SLBQ7119V or SLCC4005: RRID:AB259529 |
| Anti-Myc, WB: 1:5000 | Abcam | Ab32; lot GR310953-2 or GR3232358-2; RRID:AB_303599 |
| Anti-Ubiquitin FK2 | Calbiochem | ST1200-100UG, lots 31671118, 3291266, 3443858; RRID:AB_2043482 |
| Anti-SUMO (polyclonal), WB: 1:10000 | Helle Ulrich laboratory: (Papouli et al., 2005) | N/A |
| Anti-PCNA (polyclonal), WB: 1:2500 | Helle Ulrich laboratory: (Papouli et al., 2005) | N/A |
| Bacterial and virus strains | ||
| E. coli DH5α | N/A | N/A |
| Chemicals, peptides, and recombinant proteins | ||
| D(+)-Glucose | Carl Roth | Art.-Nr. HN063 |
| D(+)-Raffinose pentahydrate | Carl Roth | Art.-Nr. 5241.3 |
| D(+)-Galactose | USBiological | G1030 |
| Yeast Nitrogen Base | Qbiogene | 4027-532 |
| Bacto Peptone | BD Biosciences | Ref. 211677 |
| Yeast Extract | BD Biosciences | Ref. 212750 |
| Ammonium Sulfate | Carl Roth | Art.-Nr. 3746.1 |
| 5-Fluoroorotic Acid | Toronto Research Chemicals | F595000 |
| RNase A, PureLink, (20 mg/mL) | Invitrogen | 12091-021 |
| DpnII | NEB | R0543L |
| NlaIII | NEB | R0125L |
| T4 Ligase | Thermo Scientific | EL0011 |
| Linear Acrylamide | Ambion | AM9520 |
| Taq polymerase | NEB | M0267L |
| Salmon sperm ssDNA | Sigma-Aldrich | D1626 |
| PEG4000 | Carl Roth | Art.-Nr. 0156.1 |
| Zymolyase - 20T | Amsbio | 120491-1 |
| Phusion High-Fidelity DNA Polymerase | Thermo Scientific | F530L |
| Auxin (3-indoleacetic acid) | Sigma-Aldrich | I2886 |
| Camptothecin (CPT) | Lucerna-Chem | Cat. 0215973225 |
| WesternBright ECL HRP substrate | Advansta | K-12045 |
| WesternBright Sirius HRP substrate | Advansta | K-12043 |
| cOmplete, Mini, EDTA-free Protease Inhibitor Cocktail | Roche | 4693159001 |
| NEM (N-Ethylmaleimide) | Sigma-Aldrich | E1271 |
| Dynabeads Protein G for Immunoprecipitation | Invitrogen | 10009D |
| Dynabeads Pan Mouse IgG | Invitrogen | 11041 |
| Alpha Factor | PRIMM | 201307-00007 |
| Trypsin | Promega | V5113 |
| Propidium Iodide | Sigma | P4170 |
| Proteinase K | Carl Roth | 7528.3 |
| Ni-NTA agarose | QIAGEN | 30210 |
| Critical commercial assays | ||
| The Bio-Rad protein assay | Bio-Rad | 500-0006 |
| Phire Green Hot Start II PCR Master Mix | Thermo Scientific | F126L |
| NEBuilder® HiFi DNA Assembly Cloning Kit | NEB | E5520 |
| NucleoSpin® Gel and PCR Clean-up | Macherey-Nagel | Ref. 740609.250 |
| MiSeq Reagent Kit v3 | Illumina | MS-102 |
| SYBR Select Master Mix for CFX | Applied biosystems | 4472942 |
| MinElute PCR Purification Kit | QIAGEN | 28006 |
| Deposited data | ||
| Sequencing data of the tdp1Δ wss1Δ siz2Δ transposon screen | This Manuscript | ENA: PRJEB47156 |
| Sequencing data of “wss1D Tdp1-AID*-6HA TIR1 + auxin” transposon screen | Serbyn et al. (2020), Mol.Cell | ENA: PRJEB31382 |
| The SUMO mass spectrometry proteomics data | This Manuscript | MassIVE: MSV000088129 |
| Unprocessed imaging (immunoblots, spot assays, tetrad analyses) and FACS data | This Manuscript | Mendeley Data: https://data.mendeley.com/datasets/h7bxnynd7s/1 |
| Experimental models: Organisms/strains | ||
| S. cerevisiae: Strain background: W303 | EUROSCARF | BMA64 |
| S. cerevisiae: Strain background: BY4741 | EUROSCARF | Y00000 |
| Oligonucleotides | ||
| See Table S3 for the list of oligonucleotides | This Manuscript | N/A |
| Recombinant DNA | ||
| See Table S3 for full list of plasmids | This Manuscript | N/A |
| Software and algorithms | ||
| Prism 9.1.2 | GraphPad Software, Inc | RRID:SCR_002798 |
| RStudio Version 1.1.456 | RStudio, Inc | RRID:SCR_000432 |
| Fiji | ImageJ | RRID:SCR_002285 |
| SnapGene 3.2.1 | GSL Biotech LLC | RRID:SCR_015052 |
| Kaluza | Beckman Coulter | RRID:SCR_016182 |
| Other | ||
| 0.5 mm Glass Beads | BioSpec Products | Cat. No 11079105 |
| MagNA Lyser Instrument | Roche | 03358976001 |
| Bioruptor Twin | Diagenode | UCD-400 |
| Gallios 8 colors 2 Lasers flow cytometer | Beckman Coulter | B43619 |