Table 2. Differentially expressed genes identified by transcriptome and proteome analyses.
| Gene ID Annotation | wt::csa3a Vs wt::p | Δcas1::csa3a Vs Δcas1::p | Δcas3cmr2αcmr2β::csa3a Vs Δcas3cmr2αcmr2β::p | |||
|---|---|---|---|---|---|---|
| Transcriptome (log2-fold) | Proteome (fold) | Transcriptome (log2-fold) | Proteome (fold) | Transcriptome (log2-fold) | ||
| Cas | ||||||
| SiRe_0602 | Cmr4β | — | 1.22 | — | 1.24 | — |
| SiRe_0603 | Cmr7 | — | — | — | 1.27 | — |
| SiRe_0760 | Csa1 | 9.84 | 2.66 | 12.18 | 4.97 | 10.10 |
| SiRe_0761 | Cas1 | 7.12 | 2.65 | / | / | 6.80 |
| SiRe_0762 | Cas2 | 6.75 | 2.19 | 11.49 | 1.56 | 8.87 |
| SiRe_0763 | Cas4 | 7.74 | 1.52 | 9.81 | 3.24 | 7.57 |
| SiRe_0764 | Csa3a | 8.05 | 3.15 | 10.15 | 2.67 | 8.58 |
| SiRe_1994 | Cas4 | — | — | — | 1.45 | — |
| DNA repair and replication | ||||||
| SiRe_0014 | NurA | 1.70 | — | — | — | 1.08 |
| SiRe_0016 | chromosome segregation protein (SMC)-like protein | — | — | 1.09 | — | — |
| SiRe_0064 | HerA | — | 1.21 | — | 1.21 | — |
| SiRe_0095 | HerA | — | — | — | 1.21 | — |
| SiRe_0236 | DNA Pol 4 | — | — | — | — | (0.93) |
| SiRe_0459 | DNA polymerase beta domain-containing protein | 1.82 | — | 1.92 | 1.22 | 1.16 |
| SiRe_0614 | DNA Pol 2 amino-end | 2.16 | — | 1.60 | — | (0.96) |
| SiRe_0615 | DNA Pol 2 elongation subunit | 1.61 | — | 1.16 | — | 1.14 |
| SiRe_0649 | Chromosome segregation protein (SMC)-like protein | 2.27 | — | 2.29 | — | 2.74 |
| SiRe_1142 | Chromosome segregation protein (SMC)-like protein | 1.14 | — | 2.00 | — | 2.23 |
| SiRe_1231 | Cdc6–2 | 1.56 | — | — | — | 1.01 |
| SiRe_1857 | HerA | — | 1.29 | — | 1.30 | (0.96) |
| Transcription factors | ||||||
| SiRe_1717 | TFB3 | 1.30 | — | — | 1.45 | — |
| Toxin-antitoxin and IS | ||||||
| SiRe_0743 | VapB-type antitoxin | — | — | 1.24 | 1.22 | 1.46 |
| SiRe_0744 | VapC-type toxin | 1.06 | — | 1.00 | — | — |
| SiRe_0856 | IS110 family transposase | (0.96) | — | 1.33 | 1.34 | — |
| SiRe_2296 | IS607 family transposase | 2.84 | — | 3.85 | — | 3.72 |
| Stress response | ||||||
| SiRe_0453 | Ferritin Dps family protein | 3.52 | — | 1.93 | 1.68 | — |
| SiRe_0370 | Flagellar hook-associated protein 2 C-terminus | 1.14 | — | 1.86 | — | — |
‘/’: gene not present in the genome; ‘—’: no change.