Table 2.
Transcription of genes involved in oxidation of CH4 in “Ca. M. fumariolicum” strain SolV.
| Enzyme | Gene name | GenBank identifier | Expression level (RPKM) |
||
|---|---|---|---|---|---|
| Cells at μmax | N2 fixing cells | O2 limited cells | |||
| Methane monooxygenase_1 | pmoC1 | Mfum_790003 | 90 | 14764 | 25054 |
| pmoA1 | Mfum_790002 | 37 | 4148 | 11804 | |
| pmoB1 | Mfum_790001 | 181 | 16550 | 20004 | |
| Methane monooxygenase_2 | pmoC2 | Mfum_780001 | 45059 | 1405 | 1087 |
| pmoA2 | Mfum_770004 | 10994 | 454 | 598 | |
| pmoB2 | Mfum_770003 | 10930 | 467 | 712 | |
| Methane monooxygenase_3 | pmoC3 | Mfum_480006 | 253 | 148 | 101 |
| pmoA3 | Mfum_480005 | 45 | 44 | 24 | |
| pmoB3 | Mfum_480007 | 21 | 17 | 15 | |
| Methanol dehydrogenase | mxaF/xoxF | Mfum_190005 | 5945 | 2434 | 7554 |
| Periplasmic binding protein | mxaJ | Mfum_190004 | 941 | 1548 | 629 |
| Cytochrome c family protein | mxaG | Mfum_190003 | 760 | 513 | 522 |
| Coenzyme PQQ synthesis proteins | pqqB | Mfum_80011 | 483 | 288 | 677 |
| pqqC | Mfum_80010 | 589 | 645 | 1243 | |
| pqqD | Mfum_710019 | 32 | 26 | 55 | |
| pqqD | Mfum_80009 | 108 | 118 | 195 | |
| pqqE | Mfum_80008 | 525 | 1078 | 766 | |
| pqqF | Mfum_690050 | 527 | 339 | 737 | |
| NADPH:quinone reductase | qor1 | Mfum_270035 | 330 | 236 | 1092 |
| qor2 | Mfum_300032 | 608 | 690 | 509 | |
| qor3 | Mfum_820025 | 117 | 77 | 128 | |
| Zn-dependent alcohol dehydrogenase | adhP1 | Mfum_310051 | 216 | 397 | 218 |
| adhP2 | Mfum_680019 | 165 | 96 | 196 | |
| Aldehyde dehydrogenase | dhaS1 | Mfum_940074 | 58 | 68 | 73 |
| dhaS2 | Mfum_840001 | 1345 | 1008 | 1337 | |
| 7,8-Dihydropteroate synthase | folP1 | Mfum_690066 | 199 | 162 | 236 |
| folP2 | Mfum_940066 | 163 | 236 | 133 | |
| Formate-tetrahydrofolate ligase | fhs | Mfum_300027 | 286 | 279 | 371 |
| Bifunctional protein | folD | Mfumv1_210029 | 162 | 89 | 112 |
| GTP cyclohydrolase | folE | Mfumv1_990006 | 993 | 501 | 1135 |
| Formate dehydrogenase | fdsA | Mfumv1_80015 | 987 | 645 | 763 |
| fdsB | Mfumv1_80014 | 675 | 905 | 520 | |
| fdsC | Mfumv1_80013 | 298 | 75 | 182 | |
| fdsD | Mfumv1_80016 | 313 | 260 | 62 | |
| Formate dehydrogenase | fdh | Mfumv1_50001 | 233 | 186 | 257 |
| Methylamine dehydrogenase | mauA | Mfumv1_700106 | 45 | 24 | 101 |
| mauB | Mfumv1_700109 | 220 | 199 | 168 | |
The mRNA expression is expressed as RPKM according to Mortazavi et al. (2008). Changes in expression in the chemostat cultures (N2 fixing cells or O2 limited cells) compared to batch culture cells growing at μmax are indicated by shading: up regulation >2 times (dark gray), down regulation <0.5 (light gray).