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Table 2 Functional categories of genes that significantly contribute to PC1 and PC2.

From: Transcriptome analysis of parallel-evolved Escherichia coli strains under ethanol stress

Function P value Screened members Total members Gene names
PC 1 top 5%     
Galactitol metabolic process 5.98E-06 4 4 gatB, gatC, gatY, gatZ
Phosphate transport 3.58E-07 6 8 phoB, phoU, pstA, pstB, pstC, pstS
Phosphoenolpyruvate-dependent sugar phosphotransferase system 3.01E-04 6 20 dhaH, gatB, gatC, manX, manY, manZ
Response to stress 9.57E-06 13 64 clpB, degP, dnaK, grpE, hslJ, hslU, htpG, ldhA, pstS, uspG, relB, relE, yfiA
Response to heat 1.16E-05 8 24 dnaK, groL, groS, grpE, hslJ, hslU, htpG, ldhA
Protein folding 1.64E-05 8 25 degP, dnaK, dsbA, groS, groL, grpE, htpG, ppiA
PC 1 bottom 5%     
Cellular amino acid biosynthetic process 3.73E-08 20 100 argF, argI, aroF, aroM, carA, carB, hisA, hisB, hisC, hisD, hisF, hisG, hisH, hisI, leuL, lysC, metH, pheA, thrL, trpL
Histidine biosynthetic process 4.53E-09 8 11 hisA, hisB, hisC, hisD, hisF, hisG, hisH, hisI
Arginine biosynthetic process 3.00E-03 4 13 argF, argI, carA, carB
Tricarboxylic acid cycle 4.05E-04 6 21 fumA, mqo, sdhA, sdhB, sdhC, sdhD
Transport 1.21E-04 33 351 amtB, argT, betT, emrA, entD, fadL, fiu, kgtP, livF, livG, livH, livJ, livK, livM, modA, modB, ompF, oppA, oppB, oppC, oppD, oppF, proP, putP, rbsB, rfbX, sdhA, sdhB, sdhC, sdhD, tsx, uraA, yhbE
Amino acid transport 1.63E-03 8 46 putP, argT, livF, livG, livM, livH, livK, livJ,
Peptide transport 1.91E-03 5 19 oppA, oppB, oppC, oppD, oppF
Flagellum organization 4.72E-04 3 4 flgC, flgD, flhM
PC 2 top 5%     
Cellular amino acid biosynthetic process 1.49E-10 23 100 argH, aroF, carB, hisB, hisC, hisD, hisH, ilvA, ilvB, ilvC, ilvD, ilvE, ilvM, leuA, leuB, leuC, leuD, trpB, trpC, trpD, trpE, trpL, tyrA
Histidine biosynthetic process 1.50E-03 4 11 hisB, hisC, hisD, hisH
Tryptophan biosynthetic process 1.67E-06 5 6 trpB, trpC, trpD, trpE, trpL
Branched-chain family amino acid biosynthetic process 9.76E-10 10 17 ilvA, ilvB, ilvC, ilvD, ilvE, ilvM, leuA, leuB, leuC, leuD
Iron ion transport 5.47E-17 18 30 cirA, entA, entB, entC, entD, entE, entF, fecA, fecB, fecI, fecR, fepA, fepB, fepC, fes, fhuE, fiu, mntH
Enterobactin biosynthetic process 6.62E-10 7 7 entA, entB, entC, entD, entE, entF, ybdB
Iron-sulfur cluster assembly 1.05E-04 5 11 hscA, iscS, sufA, sufB, sufD
PC 2 bottom 5%     
Lipopolysaccharide biosynthetic process 2.70E-06 12 49 eptB, kdtA, htrL, rfaB, rfaC, rfaF, rfaG, rfaI, rfaP, rfaQ, rfaS, rfaY
Dipeptide transport 8.29E-05 4 6 dppB, dppC, dppD, dppF