Table 1.
Transcriptome analysis of SepF overexpression.
| gene | YK240/wt | p.val | function |
|---|---|---|---|
| ydcF | 65 | 0.000 | hypothetical protein |
| ydcG | 37 | 0.000 | hypothetical protein |
| ydcH | 36 | 0.000 | hypothetical protein |
| sepF | 11 | 0.000 | cell division protein SepF |
| bmrC | 7 | 0.000 | multidrug ABC transporter |
| bmrD | 6 | 0.000 | multidrug ABC transporter |
| catD | 5 | 0.016 | viability in the presence of catechol |
| catE | 5 | 0.016 | essential for the viability in the presence of catechol |
| srfAC | 4 | 0.016 | surfactin synthesis |
| srfAD | 4 | 0.012 | surfactin synthesis |
| ycxA | 4 | 0.001 | hypothetical protein |
| mtnK | −90 | 0.000 | methionine salvage |
| mtnA | −70 | 0.000 | methionine salvage |
| gsiB* | −16 | 0.023 | general stress protein, response to water deficits |
| gspA* | −12 | 0.031 | general stress protein |
| yflT* | −10 | 0.023 | general stress protein, ethanol stress |
| ydaC* | −10 | 0.007 | hypothetical protein |
| ydaD* | −10 | 0.029 | general stress protein, similar to alcohol dehydrogenase |
| wapA | −10 | 0.000 | contact-dependent growth inhibition protein |
| wapI | −10 | 0.000 | immunity protein against toxic activity of WapA |
| yxzC | −10 | 0.000 | hypothetical protein |
| yxiF | −9 | 0.000 | hypothetical protein |
| rapB* | −9 | 0.035 | response regulator, control of sporulation initiation |
| csbC* | −9 | 0.037 | protection against paraquat stress |
| csbD* | −9 | 0.023 | general stress protein, salt and low temperature stress |
| mtnU | −9 | 0.016 | methionine salvage |
| ywzA* | −9 | 0.040 | general stress protein |
| ydaE* | −9 | 0.023 | general stress protein, ethanol and low temperature stress |
| yhxD* | −9 | 0.022 | general stress protein, salt and ethanol stress |
| yxbG* | −8 | 0.016 | general stress protein, similar to glucose 1-dehydrogenase |
| yxiG | −8 | 0.000 | hypothetical protein |
| yxiH | −8 | 0.000 | hypothetical protein |
| yxiJ | −8 | 0.000 | hypothetical protein |
| ysnF* | −8 | 0.007 | general stress protein, ethanol stress |
| ygxB* | −8 | 0.021 | general stress protein |
| ydaS* | −8 | 0.020 | hypothetical protein |
| ytaB* | −8 | 0.023 | general stress protein, salt and ethanol stress |
| katE* | −8 | 0.043 | general stress protein, catalase |
| yxzG | −7 | 0.000 | hypothetical protein |
| yxzI | −7 | 0.000 | hypothetical protein |
| yxiI | −7 | 0.000 | hypothetical protein |
| yxiK | −7 | 0.000 | hypothetical protein |
| yxiM | −7 | 0.000 | similar to rhamnogalacturonan acetylesterase |
| yjgD* | −7 | 0.046 | general stress protein, ethanol and paraquat stress |
| cypC* | −7 | 0.039 | protection against paraquat stress |
| ywtG* | −7 | 0.015 | general stress protein, similar to metabolite transport protein |
| yybO* | −7 | 0.023 | similar to permease |
| chaA* | −6 | 0.034 | calcium export via proton antiporter |
| ywiE* | −6 | 0.036 | cardiolipin synthesis, protection against paraquat stress |
| ycbP* | −6 | 0.023 | general stress protein |
| yqhB* | −6 | 0.016 | general stress protein, protection against oxidative stress |
| ydaT* | −6 | 0.023 | general stress protein, ethanol and low temperature stress |
| bmrU* | −6 | 0.023 | general stress protein, multidrug resistance protein |
| ohrB* | −6 | 0.036 | general stress protein, organic peroxide resistance |
| katX* | −6 | 0.032 | general stress protein, catalase |
| yerD* | −6 | 0.024 | general stress protein, protection against paraquat stress |
| corA* | −6 | 0.021 | general stress protein, similar to magnesium transporter |
| yfkM* | −5 | 0.038 | general stress protein, detoxification of methylglyoxal |
| ykgA* | −5 | 0.006 | general stress protein, salt and ethanol stress |
| yvbG* | −5 | 0.020 | hypothetical protein |
| ydaG* | −4 | 0.021 | general stress protein, protection against paraquat stress |
| ydaP* | −4 | 0.029 | general stress protein, ethanol stress |
| yfkD* | −4 | 0.018 | hypothetical protein |
| yxzF* | −4 | 0.013 | general stress protein |
| ycdF* | −4 | 0.047 | general stress protein, ethanol and low temperature stress |
Genes are listed based on expression fold difference and selected for >4-fold expression difference between wild type (wt) and strain YK240 (Pxyl-sepF) grown in the presence of 1.5% xylose to induce SepF. Genes with adjusted P-value (p.val) larger than 0.05 were discarded. Genes marked with ‘*’ belong to the SigB regulon.