Table 1

Significant biological processes that genetically interact with top2-ts in different downregulating regimes

SGA groupaGene OntologybP-valuec
top2-4 – 30° (pos. int.)Carbohydrate biosynthetic process (GO:0016051)0.04323
top2-4 – 37° x 6h (pos. int.)
  • APC-dependent ubiquitin-dependent protein process (GO:0031145)

  • Cell division (GO:0051301)

  • 0.00681

  • 0.00706

top2-4 – 37° x 6h (neg. int.)Macroautophagy (GO:0034262)0.03361
top2-5 – 30° (pos. int.)
  • Macromolecular complex subunit organization (GO:0043933)

  • Organelle assembly (GO:0070925)

  • 0.00115

  • 0.04773

top2-5 – 37° x 6h (pos. int.)
  • Cell division (GO:0051301)

  • Mitotic cell cycle process (GO:1903047)

  • Mitotic cell cycle (GO:0000278)

  • Mitotic nuclear division (GO:0007067)

  • Mitotic cell cycle phase transition (GO:0044772)

  • Cell cycle phase transition (GO:0044770)

  • Cell separation after cytokinesis (GO:0000920)

  • Nuclear division (GO:0000280)

  • Regulation of cell division (GO:0051302)

  • 1.49E-05

  • 0.00017

  • 0.00033

  • 0.00035

  • 0.0006

  • 0.00068

  • 0.02562

  • 0.03884

  • 0.04929

top2-5 – 37° x 6h (neg. int.)
  • Macroautophagy (GO:0034262)

  • Cellular respiration (GO:0045333)

  • Oxidative phosphorylation (GO:0006119)

  • Generation of precursor metabolites and energy (GO:0006091)

  • Phosphorylation (GO:0016310)

  • Autophagy (GO:0006914)

  • Homoserine metabolic process (GO:0009092)

  • Sister chromatid biorientation (GO:0031134)

  • Energy derivation by oxidation of organic compounds (GO:0015980)

  • 0.00048

  • 0.00067

  • 0.00238

  • 0.00301

  • 0.01924

  • 0.02062

  • 0.02391

  • 0.02391

  • 0.04017

  • a The corresponding top2-ts double mutant arrays were grown at 25° x 2 d, 30° x 2 d, and 6 hr x 37° + 25° x 2 d. The genetic positive interactions (pos. int.) and negative interactions (neg. int.) refer to the comparison between the downregulating temperature regimes and steady growth at 25°.

  • b Gene Ontology (GO) enrichment analyses were done using the Generic GO Term Finder (http://go.princeton.edu/cgi-bin/GOTermFinder). GO terms that contained > 1500 genes were discarded, as they are usually too general. Similarly, redundant GO terms with < 10 genes were discarded.

  • c P-values were computed using a hypergeometric distribution, and adjusted with the Bonferroni correction.