Table 1.
Differentially expressed genes involved in general cell machinery slowdown
| Name | Locus taga | Description | Categoryb |
P value |
Fold change (log2) for CIRM-BIA strainc: |
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Time | Strain | Time × strain | 118 | 122 | 123 | 1 | 472 | 482 | 9 | ||||
| cstA | PFREUD_16500 | Carbon starvation protein | A | <0.01 | <0.01 | <0.01 | −1.0 | −1.2 | −3.4 | −1.5 | −2.0 | −3.7 | −2.9 |
| ftsX | PFREUD_09600 | Cell division protein | CD | <0.01 | <0.01 | <0.01 | −2.1 | −1.7 | −2.4 | −4.7 | −1.7 | −3.8 | −4.3 |
| icd | PFREUD_06870 | Putative isocitrate/isopropylmalate dehydrogenase | CH | <0.01 | <0.01 | 0.05 | −1.0 | −3.3 | −2.0 | −3.0 | −3.4 | −3.3 | −3.0 |
| pccB | PFREUD_07170 | Propionyl-coenzyme A carboxylase beta chain | CH | <0.01 | 0.01 | <0.01 | −1.2 | −1.6 | −0.4 | −1.8 | −1.8 | −1.5 | −1.2 |
| aceE | PFREUD_09470 | Pyruvate dehydrogenase E1 component | CH | <0.01 | <0.01 | 0.14 | −1.5 | −1.9 | −1.5 | −1.9 | −2.8 | −2.1 | −1.9 |
| lpd | PFREUD_10890 | Dihydrolipoyl dehydrogenase | CH | <0.01 | 0.28 | 0.44 | −0.5 | −0.9 | −0.7 | −1.5 | −2.2 | −0.8 | −1.1 |
| acn | PFREUD_12590 | Aconitase | CH | <0.01 | <0.01 | 0.47 | −0.7 | −0.8 | −1.0 | −1.0 | −1.5 | −0.8 | −1.0 |
| cydA | PFREUD_01720 | Cytochrome d ubiquinol oxidase, subunit I | E | <0.01 | <0.01 | 0.02 | −0.8 | −1.4 | −1.6 | −1.6 | −1.5 | −2.0 | −3.4 |
| cydB | PFREUD_01730 | Cytochrome d ubiquinol oxidase, subunit II | E | <0.01 | <0.01 | 0.03 | −1.0 | −1.3 | −1.3 | −1.1 | −0.7 | −0.9 | −2.2 |
| nuoA | PFREUD_05160 | NADH-quinone oxidoreductase chain A | E | <0.01 | <0.01 | 0.02 | −1.4 | −1.2 | −0.5 | −2.0 | −1.3 | −2.2 | −2.0 |
| nuoB | PFREUD_05170 | NADH-quinone oxidoreductase chain B | E | <0.01 | <0.01 | <0.01 | −1.9 | −1.8 | −1.0 | −2.3 | −1.4 | −3.3 | −2.3 |
| nuoC | PFREUD_05180 | NADH-quinone oxidoreductase chain C | E | <0.01 | <0.01 | <0.01 | −1.9 | −1.7 | −1.3 | −3.8 | −2.3 | −3.7 | −3.4 |
| nuoD | PFREUD_05190 | NADH-quinone oxidoreductase chain D | E | <0.01 | <0.01 | <0.01 | −2.0 | −1.9 | −1.6 | −3.8 | −2.7 | −4.9 | −5.2 |
| nuoE | PFREUD_05200 | NADH-quinone oxidoreductase chain E | E | <0.01 | <0.01 | <0.01 | −2.0 | −1.9 | −1.9 | −2.9 | −2.5 | −4.0 | −3.3 |
| nuoF | PFREUD_05210 | NADH-quinone oxidoreductase chain F | E | <0.01 | <0.01 | 0.08 | −2.2 | −2.0 | −1.9 | −2.7 | −2.4 | −3.4 | −2.9 |
| nuoG | PFREUD_05220 | NADH-quinone oxidoreductase chain G | E | <0.01 | <0.01 | 0.08 | −2.0 | −1.5 | −1.9 | −1.9 | −2.2 | −2.8 | −3.1 |
| nuoH | PFREUD_05230 | NADH-quinone oxidoreductase chain H | E | <0.01 | <0.01 | 0.01 | −1.8 | −1.0 | −1.6 | −0.9 | −1.6 | −2.4 | −1.7 |
| nuoI | PFREUD_05240 | NADH-quinone oxidoreductase chain I | E | <0.01 | <0.01 | 0.09 | −2.5 | −1.0 | −1.6 | −1.4 | −2.3 | −3.0 | −2.9 |
| nuoJ | PFREUD_05250 | NADH-quinone oxidoreductase chain J | E | <0.01 | <0.01 | 0.02 | −2.1 | −1.1 | −1.7 | −1.5 | −2.0 | −3.3 | −2.1 |
| nuoK | PFREUD_05260 | NADH dehydrogenase I chain K | E | <0.01 | <0.01 | 0.01 | −2.3 | −1.2 | −1.5 | −2.2 | −2.1 | −3.4 | −2.6 |
| nuoL | PFREUD_05270 | NADH dehydrogenase | E | <0.01 | <0.01 | 0.01 | −2.5 | −1.5 | −2.1 | −1.9 | −2.5 | −3.7 | −2.9 |
| nuoM | PFREUD_05280 | NADH dehydrogenase I chain M | E | <0.01 | <0.01 | 0.01 | −2.3 | −1.1 | −1.7 | −1.3 | −2.4 | −3.2 | −2.9 |
| nuoN | PFREUD_05290 | NADH dehydrogenase I chain N | E | <0.01 | <0.01 | 0.05 | −2.8 | −1.6 | −2.1 | −1.2 | −2.3 | −2.8 | −2.3 |
| sdhC1 | PFREUD_09240 | Succinate dehydrogenase, subunit C | E | <0.01 | <0.01 | <0.01 | −1.3 | −0.8 | 1.2 | −2.1 | −2.2 | −2.1 | −2.2 |
| sdhA | PFREUD_09250 | Succinate dehydrogenase, subunit A | E | <0.01 | <0.01 | <0.01 | −2.1 | −1.2 | 0.5 | −2.7 | −2.9 | −3.2 | −3.4 |
| sdhB | PFREUD_09260 | Succinate dehydrogenase, subunit B | E | <0.01 | <0.01 | 0.09 | −1.2 | −0.9 | 0.3 | −0.9 | −1.0 | −0.7 | −1.1 |
| atpB | PFREUD_10430 | ATP synthase A chain | E | <0.01 | <0.01 | 0.03 | −2.0 | −1.6 | −1.5 | −2.8 | −2.6 | −3.3 | −2.5 |
| atpE | PFREUD_10440 | ATP synthase C chain | E | <0.01 | <0.01 | 0.22 | −2.8 | −2.7 | −1.9 | −3.1 | −3.1 | −2.8 | −3.2 |
| atpF | PFREUD_10450 | ATP synthase B chain | E | <0.01 | <0.01 | 0.30 | −2.9 | −3.0 | −2.1 | −2.3 | −2.7 | −2.7 | −2.6 |
| atpH | PFREUD_10460 | ATP synthase delta chain | E | <0.01 | 0.25 | 0.06 | −2.8 | −2.8 | −2.4 | −3.4 | −3.5 | −3.0 | −3.6 |
| atpA | PFREUD_10470 | ATP synthase subunit alpha | E | <0.01 | 0.34 | 0.21 | −3.0 | −2.6 | −2.5 | −3.6 | −3.6 | −3.7 | −3.5 |
| atpG | PFREUD_10480 | ATP synthase gamma chain | E | <0.01 | <0.01 | 0.20 | −3.1 | −2.6 | −2.4 | −3.7 | −4.2 | −3.9 | −3.5 |
| atpD | PFREUD_10490 | ATP synthase subunit beta | E | <0.01 | 0.05 | 0.38 | −2.9 | −2.3 | −2.2 | −3.0 | −3.2 | −3.1 | −3.2 |
| atpC | PFREUD_10500 | ATP synthase epsilon chain | E | <0.01 | 0.12 | 0.23 | −3.8 | −2.5 | −2.4 | −3.0 | −3.6 | −3.2 | −3.8 |
| sdhB3 | PFREUD_14300 | Succinate dehydrogenase | E | <0.01 | <0.01 | 0.02 | −2.8 | −2.6 | −0.6 | −2.4 | −2.4 | −2.7 | −4.2 |
| sdhA3 | PFREUD_14310 | Succinate dehydrogenase flavoprotein subunit | E | <0.01 | <0.01 | <0.01 | −2.5 | −2.5 | −0.3 | −3.0 | −2.2 | −2.6 | −4.3 |
| sdhC2 | PFREUD_14320 | Succinate dehydrogenase cytochrome B-558 subunit | E | <0.01 | <0.01 | <0.01 | −2.4 | −2.2 | 0.3 | −2.3 | −1.5 | −2.3 | −2.8 |
a
Locus tag for CIRM-BIA1T.
b
A, adaptation to atypical conditions; CD, cell division; CH, transport and metabolism of carbohydrates; E, energy metabolism.
c
Values of |fold change (log2)| >1 are in boldface.