Table 1 Functional descriptions of the validated most light-sensitive gene deletion (Student t test; p < 0.05) mutants in the second confirmation assay. The genes are listed according to the sensitivity ranking indicated in Fig. 2c. The GO slim terms indicated belong to the functional enrichment categories detailed in Fig. 3a, except for VMA9, YDJ1, RPE1, GND1, VPS27, RAV1, ODC2, MRS3, PHO5, ROQ1, GUF1, YLR334C, and RAD30 which GO slim terms were not enriched. Descriptions are modified from SGD
From: Protein kinase A controls yeast growth in visible light
Gene | GO slim | Description |
|---|---|---|
VMA9 | Ion transport (GO:0006811) | Data from mutant ycl007c∆ that is a dubious ORF that overlaps with verified ORF VMA9, which is a vacuolar H+ ATPase subunit of the V-ATPase V0 subcomplex that is essential for vacuolar acidification |
Transmembrane transport (GO:0055085) | ||
YDJ1 | Response to heat (GO:0009408) | Type I HSP40 co-chaperone involved in regulation of the HSP90 and HSP70 functions; involved in protein translocation across membranes; member of the DnaJ family |
Protein targeting (GO:0006605) | ||
HOG1 | Response to osmotic stress (GO:0006970) | Mitogen-activated protein kinase involved in osmoregulation; mediates the recruitment and activation of RNA Pol II at Hot1p-dependent promoters |
Response to oxidative stress (GO:0006979) | ||
Peptidyl-amino acid modification (GO:0018193) | ||
Transcription by RNA polymerase II (GO:0006366) | ||
Histone modification (GO:0016570) | ||
Protein phosphorylation (GO:0006468) | ||
PBS2 | Response to osmotic stress (GO:0006970) | MAP kinase kinase of the HOG signaling pathway involved in osmoregulation; activated under severe osmotic stress; mitophagy-specific regulator |
Peptidyl-amino acid modification (GO:0018193) | ||
Protein phosphorylation (GO:0006468) | ||
RPE1 | Generation of precursor metabolites and energy (GO:0006091) | D-ribulose-5-phosphate 3-epimerase, catalyzes a reaction in the non-oxidative part of the pentose-phosphate pathway. |
GND1 | Response to oxidative stress (GO:0006979) | 6-Phosphogluconate dehydrogenase (decarboxylating), catalyzes an NADPH regenerating reaction in the pentose phosphate pathway |
Carbohydrate metabolic process (GO:0005975) | ||
YAP1 | Response to oxidative stress (GO:0006979) | Basic leucine zipper (bZIP) transcription factor required for oxidative stress tolerance; activated by H2O2 through the multistep formation of disulfide bonds and transit from the cytoplasm to the nucleus |
Transcription by RNA polymerase II (GO:0006366) | ||
VPS27 | Protein targeting (GO:0006605) | Data from mutant ynr005c∆ that is a dubious ORF that overlaps verified ORF VPS27, which is an endosomal protein that is required for sorting of ubiquitinated proteins destined for degradation |
Endosomal transport (GO:0016197) | ||
Ion transport (GO:0006811) | ||
RAV1 | Cellular ion homeostasis (GO:0006873) | Subunit of the RAVE complex, which promotes assembly of the V-ATPase holoenzyme; required for transport between the early and late endosome/PVC |
SSK2 | Response to osmotic stress (GO:0006970) | MAP kinase kinase kinase of the HOG1 mitogen-activated signaling pathway involved in osmoregulation; also mediates actin cytoskeleton recovery from osmotic stress |
Protein phosphorylation (GO:0006468) | ||
CTK1 | Peptidyl-amino acid modification (GO:0018193) | Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p and ribosomal protein Rps2p (the latter to increase translational fidelity). |
Transcription by RNA polymerase II (GO:0006366) | ||
Protein phosphorylation (GO:0006468) | ||
NSR1 | Ribosomal small subunit biogenesis (GO:0042274) | Nucleolar protein that binds nuclear localization sequences, required for pre-rRNA processing and ribosome biogenesis |
rRNA processing (GO:0006364) | ||
ODC2 | Cellular respiration (GO:0045333) | Mitochondrial inner membrane transporter; exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for use in lysine and glutamate biosynthesis |
Transmembrane transport (GO:0055085) | ||
MRS3 | mRNA processing (GO:0006397) | Iron transporter that mediates Fe2+ transport across the inner mitochondrial membrane; active under low-iron conditions |
Transmembrane transport (GO:0055085) | ||
Ion transport (GO:0006811) | ||
RPS21B | Ribosomal small subunit biogenesis (GO:0042274) | Protein component of the small (40S) ribosomal subunit |
Cytoplasmic translation (GO:0002181) | ||
rRNA processing (GO:0006364) | ||
RFX1 | Transcription by RNA polymerase II (GO:0006366) | Major transcriptional repressor of DNA-damage-regulated genes that recruits repressors Tup1p and Cyc8p to their promoters; involved in DNA damage and replication checkpoint pathway |
DPH5 | Cytoplasmic translation (GO:0002181) | Methyltransferase required for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 |
Peptidyl-amino acid modification (GO:0018193) | ||
PHO5 | Response to starvation (GO:0042594) | Repressible acid phosphatase. |
ROQ1 | Response to chemical (GO:0042221) | Ub-ligase substrate-specificity factor part of the stress-induced homeostatically regulated protein degradation (SHRED) pathway. |
Proteolysis involved in cellular protein catabolic process (GO:0051603) | ||
RPN4 | Transcription by RNA polymerase II (GO:0006366) | Transcription factor that stimulates expression of proteasome genes |
GUF1 | Regulation of translation (GO:0006417) | Mitochondrial matrix GTPase that associates with mitochondrial ribosomes; important for translation under temperature and nutrient stress; may have a role in translational fidelity |
DPH2 | Cytoplasmic translation (GO:0002181) | Protein required for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 |
Peptidyl-amino acid modification (GO:0018193) | ||
RPS11B | Ribosomal small subunit biogenesis (GO:0042274) | Protein component of the small (40S) ribosomal subunit |
Cytoplasmic translation (GO:0002181) | ||
rRNA processing (GO:0006364) | ||
DPH7 | Cytoplasmic translation (GO:0002181) | Diphthamide synthetase (standard name RRT2); required for last step of diphthamide biosynthesis, deletion leads to accumulation of diphthine, involved in endosomal recycling |
Peptidyl-amino acid modification (GO:0018193) | ||
YLR334C | Currently unannotated | Dubious open reading frame |
RAD30 | Mitotic cell cycle (GO:0000278) | DNA polymerase; involved in translesion synthesis during post-replication repair |
Chromosome segregation (GO:0007059) | ||
DNA repair (GO:0006281) | ||
DNA replication (GO:0006260) |