Table 3.
ORF (total no. of genes)a | Geneb | Protein functionc | Expression ratiod | z-test P valuee |
---|---|---|---|---|
Metabolism (125) | ||||
b3236 | mdh* | Malate dehydrogenase | 0.15 | 5.5 × 10−10 |
ECS0753 | sucC | Succinate dehydrogenase | 0.17 | 2.6 × 10−5 |
Z0877 | sdhA* | Succinate dehydrogenase | 0.28 | 7.7 × 10−4 |
b0430 | cyoA* | Cytochrome o-oxidase | 0.25 | 0.0032 |
b0432 | cyoC | Cytochrome o-oxidase | 0.14 | 1.27 × 10−4 |
Transport (34) | ||||
Z1276 | ompF* | Outer membrane protein F | 0.47 | 0.0098 |
Z3473 | ompC* | Outer membrane protein C | 0.13 | 2.74 × 10−5 |
ECS1744 | oppB* | Oligopeptide permease | 0.38 | 0.0009 |
Z3570 | hisQ | Histidine permease | 0.39 | 0.0187 |
ECS5330 | osmY | Hyperosmotically inducible periplasmic protein | 0.20 | 6.1 × 10−4 |
b4123 | dcuB | Anaerobic dicarboxylate transporter | 0.29 | 0.0548 |
Cell division (7) | ||||
b0039 | ftsW | Membrane protein involved in shape determination | 0.085 | 1.93 × 10−9 |
ECS0975 | ftsK* | Cell division | 0.14 | 8.06 × 10−9 |
Z0105 | ftsZ* | Tubulin-like GTP binding protein | 0.43 | 0.0032 |
Z4333 | ftsY* | Cell division membrane protein | 0.33 | 1.6 × 10−4 |
b0924 | mukB | Kinesin-like cell division protein | 0.093 | 7.7 × 10−7 |
Z5336 | minC* | Inhibits ftsZ ring formation | 0.30 | 0.057 |
ECS1670 | chpB | Probable growth inhibitor | 0.40 | 0.0062 |
LEE pathogenicity island (10) | ||||
Z5119 | escN* | Type III secretion system | 0.35 | 0.0047 |
Z5112 | tir* | Translocated intimin receptor | 0.10 | 4.03 × 10−9 |
Biofilm (2) | ||||
b0196 | rcsF* | Regulator in colanic acid synthesis | 0.38 | 0.0025 |
b2058 | wcaB* | Putative transferase | 0.44 | 0.0087 |
Miscellaneous | ||||
b0438 | clpX* | ATP-dependent specificity component of ClpX/ClpP complex | 0.23 | 6.17 × 10−5 |
Open reading frames (ORF) are taken from E. coli K-12 MG1655 (7), E. coli O157:H7 EDL933 (36), and E. coli O157:H7 Sakai (20).
Asterisks indicate genes that were selected for real-time PCR.
Protein functions were determined with the Kyoto Encyclopedia of Genes and Genomes (KEGG; http://www.genome.jp/kegg).
The expression ratio (or fold difference) was determined by dividing the pixel values of the parent strain by those of the flhC mutant for each experiment. The average over five experiments is presented.
z-tests were performed on the expression ratios obtained, and ratios having a P value of ≤0.05 were selected.