TABLE 3.
Genes differentially regulated after heat stress in C. coli RM2228 only.
| Category | Up-regulated | Down-regulated |
| Energy production and conversion | aspA, cydA, hydA2, ldh, CCO0259, CCO0482, CCO1660 | fliI |
| Amino acid transport and metabolism | bisZ, dapA, glnA, hisH, potA, proB, serB, CCO1002, CCO1668 | ilvE, proC, CCO0338, CCO0845, CCO0846, CCO1354, glnQ |
| Nucleotide transport and metabolism | carA, nrdA, panC, prsA, purC | surE |
| Carbohydrate transport and metabolism | fucP, pgk, CCO0581 + CCO0582 | CCO1026 |
| Coenzyme transport and metabolism | folC, hemH, moeA-3, panB, pdxJ, thiL, CCO1477 | mobB, CCO1284 |
| Lipid transport and metabolism | – | CCO1644 |
| Translation, ribosomal structure, and biogenesis | cca, gatC, infC, rplS, rpsU, CCO0741 | ksgA, prfA, rimM, rpsL, CCO0191, CCO0716 |
| Transcription | cmeR, furR1, rnr, CCO0384, CCO1673 | nusA, CCO0483, CCO0137 |
| Replication, recombination, and repair | dnaB, dnaE, recA, topA, ung, CCO1639 | dnaQ, dprA, recG, rnhB, CCO0288 |
| Cell wall/membrane/envelope biogenesis | lepA, lgt, murF, prc, pseF, pseG, rfaF, waaV, CCO0689, CCO0691 | murB2, pbpB, CCO1291 |
| Cell motility | flaA, flaC, cheW, CCO0943 | flgG_1, fliR |
| Posttranslational modification, protein turnover, chaperones | htrA, hypC, CCO0150, CCO1189 | msrA |
| Inorganic ion transport and metabolism | cmeB, pstC, pstS, CCO0076, CCO0087, CCO0127 + 28, CCO1232 | cysQ, feoB |
| Secondary metabolites biosynthesis, transport, and catabolism | CCO0052, CCO1043 | – |
| Signal transduction mechanism | amt, arsC, cheV, dccS, rrp-2, CCO1327, CCO1600 | CCO1314 |
| Intracellular trafficking, secretion, and vesicular transport | CCO1188 | – |
| Defense mechanisms | cmeA, hsdR, ybjZ | CCO0655 |
Summary of genes with up- or down-regulated expression level after heat stress and assignment to a functional category for C. coli RM2228. The log2 fold changes of expression level for each gene are shown in Supplementary Table S3.