Table 1.
Genes with synthetic slow growth or synthetic lethal interactions with tra1SRR3413
| GENE1 | Orf | SSL2 | GO3 | Location, component4 | phenotype5 | stress6 | #7 |
| MCK1 | YNL307C | SL | 1, 3 | cytoplasm, nucleus | X | 28 | |
| CDC73 | YLR418C | s | 1, 3, 10 | Cdc73/Paf complex, nucleus | T, R | X | 159 |
| CSE2 | YNR010W | S | 1, 3, 10 | mediator complex | R | X | 19 |
| HTZ1 | YOL012C | S | 1, 3, 10 | nucleus | 186 | ||
| LEO1 | YOR123C | s | 1, 3, 10 | Cdc73/Paf complex, nucleus | T | 39 | |
| RAD52 | YML032C | s | 1, 3, 10 | nucleus | X | 196 | |
| SPT8 | YLR055C | s | 1, 3, 10 | SAGA complex, nucleus | 62 | ||
| SRB2 | YHR041C | s | 1, 3, 10 | Srb-mediator complex | T, E | 34 | |
| SWR1 | YDR334W | s | 1, 3, 10 | SWR1 complex, nucleus | R | 112 | |
| VPS71 | YML041C | s | 1, 3, 10, 9 | SWR1 complex, nucleus | E | 97 | |
| VPS72 | YDR485C | s | 1, 3, 10, 9 | SWR1 complex, nucleus | E | 87 | |
| KAR3 | YPR141C | s | 1, 3, 7 | microtubule, spindle pole body | E | 131 | |
| UBI4 | YLL039C | s | 1, 3, 8, 9 | cytoplasm | X | 7 | |
| UBP15 | YMR304W | s | 1, 3, 8, 9 | cytoplasm | 0 | ||
| SWC3 | YAL011W | s | 1, 3, 9, 10 | SWR1 complex, nucleus, mitochondrion | 85 | ||
| DOA1 | YKL213C | s | 1, 9, 8 | cytoplasm, nucleus | X | 26 | |
| TOR1 | YJR066W | S | 1,2,3,4,5,6,7,8,9,10 | cellular membranes | R | X | 27 |
| CKB2 | YOR039W | s | 1,2,3,4,5,7,8,9,10 | protein kinase CK2, CURI complex | X | 14 | |
| SNF1 | YDR477W | s | 1,3,4,5,6,7,8,9,10 | cytoplasm, nucleus, nuclear evelope, mitochondrion, vacuole | R | X | 18 |
| SNF4 | YGL115W | S | 1,3,4,5,6,7,8,9,10 | cytoplasm, nucleus, nuclear envelope, PM | 7 | ||
| CNB1 | YKL190W | s | 1,3,4,5,7,9,10 | calcineurin complex | X | 48 | |
| EOS1 | YNL080C | S | 1,3,4,7 | ER membrane | X | 4 | |
| SIS2 | YKR072C | s | 1,3,5,10 | cytoplasm, nucleus | X | 10 | |
| NUM1 | YDR150W | s | 1,3,7,9 | cell cortex, cellular bud tip, mitochondrion | 57 | ||
| SWI4 | YER111C | s | 1, 3, 7, 10 | nucleus | CW | 69 | |
| UBP6 | YFR010W | S | 1,3,8,9,10 | proteosome | X | 28 | |
| MSC1 | YML128C | s | 1,3,9,6 | ER, mitochondrion | R | 14 | |
| ARP6 | YLR085C | s | 10, 1, 2 | SWR1 complex, cytoplasm | R | 149 | |
| CAF40 | YNL288W | s | 2, 10 | CCR4-NOT complex | R | 8 | |
| NST1 | YNL091W | s | 2, 10 | cytoplasm | X | 2 | |
| PUB1 | YNL016W | s | 2, 10 | cytoplasm, nucleus, hnRNP complex | X | 5 | |
| PIH1 | YHR034C | s | 2, 3, 8, 10 | cytoplasm, nucleus, snRNP complex | 2 | ||
| HMT1 | YBR034C | s | 2, 4 10 | nucleus | 4 | ||
| PML39 | YML107C | SL | 2, 4, 10 | nuclear pore, ribosome | 4 | ||
| HCR1 | YLR192C | s | 2, 8 | translation IF3 complex | T | X | 5 |
| PPQ1 | YPL179W | S | 2, 8 | cytoplasm | 0 | ||
| TMA23 | YMR269W | s | 2, 8 | nucleolus, ribosome | 5 | ||
| RRP6 | YOR001W | SL | 2, 8, 10 | nuclear exosome (RNase complex) | 16 | ||
| SKY1 | YMR216C | s | 2,3,4,8,10 | cytoplasm | 5 | ||
| STP1 | YDR463W | s | 2,4,7,8,10 | nucleus | 2 | ||
| KNS1 | YLL019C | SL | 3 | X | 0 | ||
| BIM1 | YER016W | s | 3, 1, 7 | cytoplasm, microtubule, kinetochore, spindle pole body | 282 | ||
| NBP2 | YDR162C | s | 3, 7 | cytoplasm, nucleus | CW, R | X | 49 |
| PRB1 | YEL060C | s | 3, 8, 9 | vacuole | X | 3 | |
| SEL1 | YML013W | s | 3, 8, 9 | ubiquitin ligase complex, ER, mitochondrion | 3 | ||
| TPS2 | YDR074W | s | 3,5,7,8,10 | mitochondrion | X | 4 | |
| ITR1 | YDR497C | s | 4, 5, 7, 9 | plasma membrane | X | 9 | |
| NEW1 | YPL226W | s | 4, 5, 9, 8 | cytoplasm, mitochondrion | 8 | ||
| AQR2 | YBR043C | s | 4, 7 | plasma membrane | 1 | ||
| GTR1 | YML121W | s | 4, 9 | cytoplasm, endosome, nucleus, vacuole | T, E, R | 5 | |
| VAM10 | YOR068C | SL | 4, 9 | vacuolar membrane | 11 | ||
| SER1 | YOR184W | s | 5 | cytoplasm | 1 | ||
| SER2 | YGR208W | s | 5 | cytoplasm, nucleus | 5 | ||
| GCR2 | YNL199C | SL | 5, 10, 3 | nucleus | E | 30 | |
| ARO1 | YDR127W | SL | 5, 6 | cytoplasm | E | 0 | |
| ARO2 | YGL148W | SL | 5, 6 | cytoplasm | 1 | ||
| ETR1 | YBR026C | s | 5, 6 | mitochondrion | 0 | ||
| LIP2 | YLR239C | s | 5, 6 | mitochondrion | 7 | ||
| LIP5 | YOR196C | S | 5, 6 | mitochondrion | 2 | ||
| OAR1 | YKL055C | s | 5, 6 | mitochondrion | 0 | ||
| ERG3 | YLR056W | s | 5, 9 | ER | 19 | ||
| MDM34 | YGL219C | S | 6 | mitochondrial outer membrane | E, R | 10 | |
| KGD2 | YDR148C | S | 6, 5 | mitochondrion | 0 | ||
| MDM10 | YAL010C | s | 6, 9 | Mdm10/Mdm12/Mmm1 complex, mitochondrial outer membrane | T, E | 11 | |
| BEM1 | YBR200W | S | 7, 3, 1 | bud neck | E | 33 | |
| BEM4 | YPL161C | s | 7, 3, 1 | cytoplasm, nucleus | T, E | X | 29 |
| Smi1 | YGR229C | s | 7, 3, 1 | bud tip, nucleus | T, E, CW, R | 111 | |
| ROM2 | YLR371W | SL | 7, 3, 9 | bud tip | X | 16 | |
| CSF1 | YLR087C | s | 7, 5, 6 | mitochondrion | CW | 24 | |
| ECM30 | YLR436C | s | 7, 9 | cytoplasm | CW | 1 | |
| KRE1 | YNL322C | s | 7, 9 | cell wall | 64 | ||
| VIP1 | YLR410W | S | 7, 9 | cytoplasm | 15 | ||
| TPM1 | YNL079C | S | 7,9,3 | actin cable | E, CW, R | 21 | |
| RPS27B | YHR021C | S | 8 | ribosome | T | 1 | |
| RPN4 | YDL020C | S | 8, 10, 1, 3 | nucleus, proteasome | T, E | X | 242 |
| YDJ1 | YNL064C | S | 8, 9, 6 | cytosol, microsome | R | X | 27 |
| CCZ1 | YBR131W | s | 9 | late endosome, membrane | E, R | X | 6 |
| MON1 | YGL124C | s | 9 | cytosol, vacuolar membrane | 12 | ||
| VAM3 | YOR106W | s | 9 | vacuolar membrane | R | 9 | |
| VAM7 | YGL212W | s | 9 | vacuolar membrane | T, E, CW, R | 8 | |
| PIB2 | YGL023C | s | 9, 1, 7 | late endosome, mitochondrion | R | 0 | |
| GSG1 | YDR108W | s | 9, 3 | TRAPP complex | X | 11 | |
| YDR049W | s | 9, 3, 8 | cytoplasm, mitochondrion | E, R | |||
| MEH1 | YKR007W | S | 9, 4, 5 | cytosol, vacuolar membrane | X | 2 | |
| PMR1 | YGL167C | s | 9, 4, 7 | Golgi membrane | E | 41 | |
| AUT7 | YBL078C | s | 9, 5 | autophagic vacuole, cytosol | X | 2 | |
| CCW12 | YLR110C | s | 9, 7 | cell wall | CW | 13 | |
| COG5 | YNL051W | S | 9, 7 | Golgi | 14 | ||
| COG6 | YNL041C | S | 9, 7 | Golgi | 17 | ||
| COG7 | YGL005C | S | 9, 7 | Golgi | 12 | ||
| COG8 | YML071C | S | 9, 7 | Golgi | 17 | ||
| DID2 | YKR035W | s | 9, 7 | cytoplasm, late endosome | 2 | ||
| GYP1 | YOR070C | S | 9, 7 | Golgi, mitochondrion | R | 48 | |
| MNN10 | YDR245W | s | 9, 7 | α-1,6-mannosyltransferase complex | E, R, CW | 19 | |
| MON2 | YNL297C | s | 9, 7 | cytosol, endosome | R | 40 | |
| RIC1 | YLR039C | S | 9, 7 | Golgi, nucleus | E | 159 | |
| RUD3 | YOR216C | s | 9, 7 | Golgi | 26 | ||
| SEC22 | YLR268W | s | 9, 7 | ER, Golgi | CW | 44 | |
| TLG2 | YOL018C | s | 9, 7 | early endosome, trans Golgi | R | 12 | |
| VPS1 | YKR001C | S | 9, 7 | cytoplasm, membrane fraction | 28 | ||
| VPS17 | YOR132W | s | 9, 7 | endosome, retromer complex | 11 | ||
| VPS38 | YLR360W | s | 9, 7 | Vps34 complex | R | 12 | |
| VPS41 | YDR080W | s | 9, 7 | HOPS complex, vacuolar membrane, endosome | R | 7 | |
| VPS53 | YJL029C | SL | 9, 7 | GARP complex, Golgi, cytoplasm | T, R | 10 | |
| YPT6 | YLR262C | s | 9, 7 | Golgi | E, R | 181 | |
| YPT7 | YML001W | s | 9, 7 | vacuole, mitochondrion | T, R | 6 | |
| YLR111W | s | 9, 7 | CW | 0 | |||
| GET1 | YGL020C | S | 9, 8 | GET complex, ER, mitochondrion | R | X | 284 |
| SSE1 | YPL106C | SL | 9, 8 | cytoplasm | T | 15 | |
| BTS1 | YPL069C | S | 9,5,6 | mitochondrion | CW | 16 | |
| UBP3 | YER151C | s | 9,7,10,1,3 | cytoplasm | R | 32 | |
| YDL180W | s | vacuole | 0 | ||||
| YEL033W | s | T | 0 | ||||
| YOR235W | s | 0 | |||||
1 Genes are placed according to related GO terms with relevant groupings separated by lines.
2 Phenotype of double mutants. SL, synthetic lethal; S, severe slow growth; s, slow growth (in SC media at 33.5°C). For those underlined the phenotype is most easily detected on YPD at 30C as the single mutant shows reduced growth on SC media
3 Gene ontology: (1) DNA replication/repair and chromosome stability, (2) RNA processing, (3) cell cycle/microtubule, (4) general transport, (5) metabolism, (6) mitochondria, (7) polarity/cell wall, (8) protein/ribosome biosynthesis, (9) secretion/protein trafficking, (10) transcription, (11) unknown
4 Cellular compartments and/or components as indicated in the Saccharomyces Genome Database
5 Relevant phenotypes of single mutants as described in the Saccharomyces Genome Database. E, sensitivity to ethanol; CW, sensitivity to calcofluor white; T, shortened telomeres; R, sensitivity to rapamycin
6 Annotated in the Saccharomyces Genome Database as involved in stress response or autophagy
7 Number of previously identified SSL interactions in the Saccharomyces Genome Database