Table 4. Some of the significantly downregulated genes critical for chromosomal integrity.
| Genes | |
|---|---|
| Chromosome organization and function | |
| DNA packaging, nucleosome organization, chromatin assembly or dissassembly, nucleosome and chromatin remodeling, chromatin organization and modification | ACS2 2.8, HST3 2.3, HHF1 2.2, HTZ1 2.2, HHO1 2.1, NHP6A 2.1, HTB1 2.0, HTB2 2.0 |
| DNA repair: double-strand break repair, mismatch repair, postreplication repair | RAD59 2.4, MCK1 2.3, NHP6A 2.1, HTB1 2.0, PSY3 1.8, MEC3 1.6, DUN1 1.5 |
| Mitotic DNA recombination, telomere arrangement and maintenance | RAD59 2.4, HHO1 2.1, YRF1-3 2.0, YRF1-6 2.0, PSY3 1.8, MEC3 1.6 |
| Regulation and progression of cell cycle, cyclin-dependent protein kinase activity | CLB2 3.3, PCL9 3.2, SIC1 2.6, CLB1 2.0, MEC3 1.6 |
| G1/S transition of mitotic cell cycle | PCL9 3.2, SIC1 2.6 |
| Mitotic spindle assembly and chromosome segregation | CIN8 2.4 |
| Spindle pole body separation, microtubule cytoskeleton organization, G2/M transition | CLB2 3.3, CLB1 2.0, HSL1 1.9 |
| Chromatin silencing and negative regulation of gene expression, epigenetic | HTZ1 2.2, MEC3 1.6 |
| Meiotic DNA replication, meiotic DNA recombination | RIM4 2.2, MUM2 2.1 |
| Checkpoints | |
| Genome integrity, DNA damage sensor | MEC1 1.6, MEC3 1.6, SGS1 1.6, DUN1 1.5 |
| DNA replication, gap repair of damaged DNA | TOF1 1.5 |
| Septin | HSL1 1.9, GIN4 1.7 |
| Spindle checkpoint activation, protects sister chromatid cohesion in mitosis | PHB2 1.6 |
| Meiotic recombination | FPR3 1.7 |
| Cytokinesis | |
| Cytokinesis, cell division | DSE2 5.4, SUN4 5.3, DSE1 4.6, CTS1 4.1, SCW11 3.7, CHS2 3.5, BUD9 3.2, EGT2 2.8, HOF1 2.5, MYO1 2.3, RAX1 2.3, IQG1 2.2, HSL1 1.9 |
| Transcription factors | |
| G1 cell-cycle progression, cyclin-dependant kinase target | SFG1 3.6 |
| Activates expression of early G1-specific genes | ACE2 2.6 |
| Activates transcription of genes expressed at M/G1 and G1, activates cyclin Pcl9 | SWI5 2.5 |
| Response to DNA damage stimulus, expression highest in G1 | TOS4 1.8 |
| Response to DNA damage stimulus, progression from G1 to S and G2 to M | CKA2 1.6 |
| Involved in directing transcription of genes by RNA polymerases, I, II, and III | SPT15 1.5 |
| RNA polymerase II initiation and elongation | TFG2 1.5 |
| Calcineurin B; calcineurin regulates stress-response transcription factor Crz1; human protein participates in apoptosis and other signaling pathways | CNB1 1.5 |
Genes are listed in each subgroup or group in order of their fold decreased expression. Essential genes are underlined. Yeast genes in bold have the following human homologs: ACS (ACS2), ATR (MEC1), BLM and WRN (SGS1), BRSK2 (HSL1), CCNB1 (CLB1), CCNB2 (CLB2), CHEK2 (DUN1), CSNK2A1 (CKA2), FPR3 (FPR3), GSK3 family (MCK1), H1F0 (HHO1), H2AFV, (HTZ1), HIST1H2BH (HTB1), HIST1H2BO (HTB2), HIST1H4N (HHF1), HMGB1/HMG1 (NHP6A), Hus1 (MEC3), IQGAP1 (IQG1), Kip1 (SIC1), and MYH11 (MYO1), PHB2 (PHB2), PPP3R2 (CNB1), RAP30 (TFG2), TBP (SPT15).