Fitness for 5 genes in Escherichia coli BW25113

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500 ntyfhR and csiE are separated by 190 nucleotidescsiE and hcaT overlap by 9 nucleotideshcaT and hcaR are separated by 159 nucleotideshcaR and hcaE are separated by 135 nucleotides b2534: yfhR - predicted peptidase (RefSeq), at 2,662,412 to 2,663,266 yfhR b2535: csiE - orf, hypothetical protein (VIMSS), at 2,663,457 to 2,664,737 csiE b2536: hcaT - predicted 3-phenylpropionic transporter (NCBI), at 2,664,729 to 2,665,868 hcaT b2537: hcaR - DNA-binding transcriptional activator of 3-phenylpropionic acid catabolism (NCBI), at 2,666,028 to 2,666,918 hcaR b2538: hcaE - 3-phenylpropionate dioxygenase, large (alpha) subunit (NCBI), at 2,667,054 to 2,668,415 hcaE
Group Condition b2534 b2535 b2536 b2537 b2538
yfhR csiE hcaT hcaR hcaE
phage T7_phage 0.00015625 MOI TC4 -0.5 -1.3 -0.1 -0.4 +0.3
motility outer cut, LB soft agar motility assay -0.2 -0.2 -0.3 -0.2 -0.9
phage RB68 -0.3 -0.4 -0.1 -0.5 -0.3
phage T7_phage 0.0015625 MOI TC1 -0.4 -0.7 -0.3 -0.1 -0.1
phage Ste41 -0.4 -0.1 -0.1 -1.3 +0.3
stress Ciprofloxacin Hydrochloride 0.0024 mM +0.2 +0.3 -0.4 -0.9 +0.0
stress LB Anaerobic with Benzethonium chloride 0.00003125 mM -0.3 +0.1 +0.4 -0.8 -0.2
carbon source Dodecanol and Rhamnolipid (C) -0.2 +0.9 -0.4 -0.6 -0.4
stress LB Anaerobic with Furaltadone 0.000015625 mM -0.5 +0.2 -0.2 -0.4 +0.3
phage Ste41 -0.4 -0.6 +0.4 -0.4 +0.4
carbon source D-Serine (C) -0.2 -0.9 +0.1 +0.1 +0.4
carbon source Dodecanol and Rhamnolipid (C) -0.6 +0.9 -0.2 -0.1 -0.2
carbon source carbon source D-Mannose 1mM -0.1 +0.1 -0.7 +0.3 +0.6
phage Δdbn_10 -0.2 +0.1 -0.0 -0.7 +1.0
control PBS_cage_1_mouse_2_Cecum_40 hr +0.6 -0.5 +0.0 -0.1 +0.6
stress LB Aerobic with Irgasan 0.0000003125 mM +0.8 +0.3 -0.2 +0.2 -0.4
control PBS_cage_1_mice _Feces_16 hr +0.7 -0.1 -0.3 -0.1 +0.7
plasmid transformation vcDART vector transformation; liquid outgrowth assay -0.4 -0.1 +0.1 +0.2 +1.2
carbon source succinate (C) -0.1 +0.8 -0.1 +0.2 +0.4
control PBS_cage_1_mice _Feces_22 hr +0.5 +0.1 -0.3 +0.4 +0.5
control PBS_cage_1_mouse_1_Cecum_40 hr +0.9 +0.3 -0.3 +0.4 -0.1
control PBS_cage_1_mice _Feces_40 hr +0.7 -0.1 -0.2 +0.3 +0.6
carbon source succinate (C) -0.0 +0.8 +0.3 +0.2 +0.4
carbon source L-Malic (C) -0.1 +1.4 +0.1 +0.2 +0.2
carbon source L-Malic (C) -0.1 +1.4 +0.1 +0.4 +0.0
carbon source Ying_Nucleobase14 rep B; time point 3 +0.1 +0.3 +0.9 +0.1 +0.6
carbon source Ying_Nucleobase14 rep C; time point 3 +0.0 +0.1 +1.0 +0.3 +0.6
carbon source Ying_Nucleobase14 rep A; time point 3 +0.0 +0.2 +1.1 +0.2 +0.7
carbon source Glycolic Acid (C) -0.0 +2.4 +0.2 +0.1 +0.3
carbon source Glycolic Acid (C) -0.1 +2.6 +0.4 +0.3 +0.2
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