Table 3. The set of genes in the M. huakuii 7653R subnetwork of nitrogen fixation.
| ID | Name | Function | Fold change |
| MCHK_8175 | nifD | nitrogenase molybdenum-iron protein alpha chain | 228.1625 |
| MCHK_8172 | nifE | nitrogenase MoFe cofactor biosynthesis protein NifE | 272.4621 |
| MCHK_8188 | nifQ | nifQ family protein | 36.087 |
| MCHK_1835 | nifS | aminotransferase class-V family protein | 11.1585 |
| MCHK_8164 | nifT | putative nitrogen fixation protein FixU | 2.7712 |
| MCHK_8219 | fixC | FAD dependent oxidoreductase family protein | 153.2337 |
| MCHK_2178 | ntrX | response regulator | 0.9891 |
| MCHK_5476 | glnZ | PII-like protein Pz | 43.3614 |
| MCHK_2333 | gltA | citrate (Si)-synthase | 6.0617 |
| MCHK_8190 | rpoN | sigma-54 factor, core binding domain protein | 28.7755 |
| MCHK_7137 | rpoN | RNA polymerase sigma-54 factor | 40.125 |
| MCHK_5199 | rpoH | RNA polymerase sigma-32 factor | 5.7607 |
| MCHK_2096 | rpsN | 30S ribosomal protein S14 | 0.5787 |
| MCHK_1837 | sufC | feS assembly ATPase SufC | 6.589 |
| MCHK_1838 | sufD | feS assembly protein SufD | 7.4377 |
| MCHK_1111 | sufE | fe-S metabolism associated domain protein | 0.5652 |
| MCHK_1839 | sufS | cysteine desulfurase, SufS subfamily protein | 9.8869 |
| MCHK_2452 | urtB | urea ABC transporter, permease protein UrtB | 16.8354 |
| MCHK_2450 | urtD | urea ABC transporter, ATP-binding protein UrtD | 9.3897 |
| MCHK_2449 | urtE | urea ABC transporter, ATP-binding protein UrtE | 5.1336 |
| MCHK_8359 | hybC | nickel-dependent hydrogenase family protein | 52.028 |
| MCHK_8347 | hypD | hydrogenase expression/formation protein HypD | 5.6356 |
| MCHK_8345 | hypE | hydrogenase expression/formation protein HypE | 5.6193 |
| MCHK_5539 | acnA | aconitate hydratase 1 | 9.0088 |
| MCHK_0267 | aldH | aldehyde dehydrogenase family protein | 0 |
| MCHK_1080 | betC | choline-sulfatase | 5.9333 |
| MCHK_1499 | betI | transcriptional repressor BetI | 5.379 |
| MCHK_1081 | betI | transcriptional repressor BetI | 7.0643 |
| MCHK_5793 | cysK | cysteine synthase A | 0 |
| MCHK_6087 | degPch1 | protease Do family protein | 12.494 |
| MCHK_1148 | degPch2 | protease Do family protein | 22.5974 |
| MCHK_5827 | dnaJ | chaperone protein DnaJ | 0.6215 |
| MCHK_5828 | dnaK | chaperone protein DnaK | 1.7466 |
| MCHK_1003 | dsbA | DSBA-like thioredoxin domain protein | 0.6718 |
| MCHK_0964 | dxs | 1-deoxy-D-xylulose-5-phosphate synthase | 5.6548 |
| MCHK_1205 | era | GTP-binding protein Era | 6.0056 |
| MCHK_3376 | exsG | putative two-component sensor histidine kinase protein | 6.334 |
| MCHK_8419 | folD1 | tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain protein | 8.8978 |
| MCHK_1496 | fumC | fumarate hydratase, class II | 7.3542 |
| MCHK_2080 | fusA | translation elongation factor G | 0.9551 |
| MCHK_0391 | galE5 | short chain dehydrogenase family protein | 0.9348 |
| MCHK_4109 | gatB | yqey-like family protein | 14.0403 |
| MCHK_7093 | glmS | glutamine-fructose-6-phosphate transaminase | 8.8581 |
| MCHK_4716 | grpE | grpE family protein | 1.1287 |
| MCHK_5101 | grx | redoxin family protein | 34.8731 |
| MCHK_1705 | hemB | delta-aminolevulinic acid dehydratase | 1.0837 |
| MCHK_6079 | hisB | imidazoleglycerol-phosphate dehydratase family protein | 6.858 |
| MCHK_5153 | hisP | ABC transporter family protein | 5.6978 |
| MCHK_3552 | htpG | histidine kinase-, DNA gyrase B-, and HSP90-like ATPase family protein | 0.3735 |
| MCHK_3523 | kamA | kamA family protein | 1.2954 |
| MCHK_6499 | kdsB | 3-deoxy-D-manno-octulosonate cytidylyltransferase | 0.8333 |
| MCHK_1589 | kdtA | 3-Deoxy-D-manno-octulosonic-acid transferase family protein | 5.6107 |
| MCHK_5594 | leuD | 3-isopropylmalate dehydratase, small subunit | 5.2354 |
| MCHK_3575 | llpU | short chain dehydrogenase family protein | 5.5047 |
| MCHK_2788 | maiA | maleylacetoacetate isomerase | 1.0738 |
| MCHK_4398 | mdtA | efflux transporter, RND family, MFP subunit | 5.1515 |
| MCHK_6536 | metK | methionine adenosyltransferase | 0.9219 |
| MCHK_5860 | metQ | conserved hypothetical protein | 5.4162 |
| MCHK_0867 | mexF | RND transporter, hydrophobe/amphiphile efflux-1 family protein | 58.6485 |
| MCHK_2510 | mfd | transcription-repair coupling factor | 1.5562 |
| MCHK_4118 | mntH | metal ion transporter, metal ion family protein | 14.1307 |
| MCHK_5902 | msrB | methionine-R-sulfoxide reductase | 10.4404 |
| MCHK_1856 | murI | glutamate racemase | 7.7059 |
| MCHK_1985 | panB | 3-methyl-2-oxobutanoate hydroxymethyltransferase | 6.6055 |
| MCHK_1984 | panC | pantoate—beta-alanine ligase | 6.8577 |
| MCHK_6052 | phnN | phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN | 2.4099 |
| MCHK_6535 | phrR | helix-turn-helix family protein | 10.2277 |
| MCHK_1763 | potA | ABC transporter family protein | 23.1647 |
| MCHK_0211 | potF | bacterial extracellular solute-binding family protein | 0.3783 |
| MCHK_5082 | pstB | phosphate ABC transporter, ATP-binding protein | 2.405 |
| MCHK_5085 | pstS | phosphate ABC transporter, phosphate-binding protein PstS | 6.2484 |
| MCHK_2812 | putA | delta-1-pyrroline-5-carboxylate dehydrogenase | 0.2091 |
| MCHK_2418 | queA | S-adenosylmethionine:tRNA ribosyltransferase-isomerase | 0 |
| MCHK_6121 | rplT | ribosomal protein L20 | 5.046 |
| MCHK_5489 | sdhA | succinate dehydrogenase, flavoprotein subunit | 5.6783 |
| MCHK_6358 | sdhB | universal stress family protein | 1.4018 |
| MCHK_2704 | tig | trigger factor | 1.6301 |
| MCHK_5374 | typA | GTP-binding protein TypA/BipA | 3.7535 |
| MCHK_3307 | ugpC | ABC transporter family protein | 6.1079 |
| MCHK_0451 | uxuA | mannonate dehydratase | 16.059 |
| MCHK_3900 | xfp | D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase family protein | 0.2442 |
| MCHK_8196 | xylB | aryl-alcohol dehydrogenase | 5.2102 |
| MCHK_8197 | xylC | benzaldehyde dehydrogenase NAD+ | 19.882 |
| MCHK_2864 | yfbK | von Willebrand factor type A domain protein | 13.9193 |
| MCHK_0866 | mhl0866 | efflux transporter, RND family, MFP subunit | 40.6938 |
| MCHK_2865 | mhl2865 | RNA polymerase sigma factor, sigma-70 family protein | 15.6472 |
| MCHK_4854 | mhl4854 | luciferase-like monooxygenase family protein | 7.7335 |
| MCHK_4912 | mhl4912 | bacterial regulatory helix-turn-helix, lysR family protein | 12.7467 |
| MCHK_5957 | mhl5957 | branched-chain amino acid transport system/permease component family protein | 6.4752 |
| MCHK_8229 | mhl8229 | sensory box protein | 8.4814 |
| MCHK_0275 | mhr0275 | tetratricopeptide repeat family protein | 0.4469 |
| MCHK_0381 | mhr0381 | chain length determinant family protein | 1.1847 |
| MCHK_0693 | mhr0693 | bacterial regulatory s, gntR family protein | 10.9707 |
| MCHK_1555 | mhr1555 | marR family protein | 0.8471 |
| MCHK_5071 | mhr5071 | HWE histidine kinase family protein | 5.2004 |
| MCHK_5151 | mhr5151 | amino ABC transporter, permease, 3-TM region, His/Glu/Gln/Arg/opine family domain protein | 7.8098 |
| MCHK_4160a | gmhB | mll2559 protein | 1.3228 |
| MCHK_0168a | mhl0168 | mll6478 protein | 5.9853 |
| MCHK_6013a | mhl6013 | mll4959 protein | 6.0062 |
| MCHK_0893a | mhr0893 | putative uncharacterized protein | 1.5161 |
| MCHK_2058a | mhl2058 | conserved hypothetical protein | 0.4313 |
| MCHK_2321a | mhl2321 | putative esterase/lipase/thioesterase | 0.8216 |
| MCHK_5691a | mhl5691 | putative uncharacterized domain protein | 8.5342 |
| MCHK_3151a | mhl3151 | ykud domain protein | 8.1921 |
| MCHK_1970a | mhr1970 | bacterial transferase hexapeptide family protein | 8.2936 |
| MCHK_3571a | mhl3571 | ABC transporter family protein | 12.0058 |
| MCHK_4853a | mhl4853 | flavin reductase like domain protein | 5.2647 |
| MCHK_5785a | mhl5785 | FMN-binding domain protein | 6.9947 |
| MCHK_6017a | mhl6017 | bacterial regulatory s, lacI family protein | 5.7227 |
| MCHK_0963a | mhr0963 | pirin C-terminal cupin domain protein | 5.4469 |
| MCHK_3741a | mhr3741 | periplasmic binding s and sugar binding domain of the LacI family protein | 6.9341 |
| MCHK_5181a | mhr5181 | bacterial regulatory s, tetR family protein | 7.5806 |
| MCHK_7135a | mhr7135 | putative peroxiredoxin sll1621 | 14.553 |
a
: The unknown function genes.