Fitness for 5 genes in Escherichia coli BW25113

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500 ntyrdC and yrdD are separated by 4 nucleotidesyrdD and smg are separated by 28 nucleotidessmg and smf overlap by 29 nucleotidessmf and def are separated by 129 nucleotides b3282: yrdC - predicted ribosome maturation factor (NCBI), at 3,428,865 to 3,429,437 yrdC b3283: yrdD - predicted DNA topoisomerase (NCBI), at 3,429,442 to 3,429,984 yrdD b3284: smg - hypothetical protein (NCBI), at 3,430,013 to 3,430,486 smg b4473: smf - hypothetical protein (NCBI), at 3,430,458 to 3,431,582 smf b3287: def - peptide deformylase (NCBI), at 3,431,712 to 3,432,221 def
Group Condition b3282 b3283 b3284 b4473 b3287
yrdC yrdD smg smf def
phage N4_phage 0.009375 MOI TC2 N.D. -0.4 -0.6 -0.2 N.D.
carbon source Ying_AminoAcid20 rep B; time point 3 N.D. -0.2 -0.9 -0.0 N.D.
carbon source carbon source D-Mannose 1mM N.D. +0.0 -0.9 -0.1 N.D.
carbon source a-Ketoglutaric (C) N.D. +0.3 -1.3 +0.0 N.D.
stress Trimethoprim 0.0025 mM N.D. -1.0 +0.0 +0.2 N.D.
carbon source D-Lactate (C) N.D. +0.2 -1.0 +0.1 N.D.
carbon source a-Ketoglutaric (C) N.D. +0.6 -1.2 +0.1 N.D.
phage Lambda_ci1857 N.D. -0.6 -0.3 +0.4 N.D.
carbon source succinate (C) N.D. +0.3 -0.8 +0.1 N.D.
motility outer cut, LB soft agar motility assay N.D. +0.2 -0.5 +0.3 N.D.
carbon source succinate (C) N.D. +0.5 -0.5 +0.1 N.D.
carbon source Glycolic Acid (C) N.D. +0.6 -0.5 +0.1 N.D.
carbon source L-Malic (C) N.D. +0.6 -0.5 +0.2 N.D.
carbon source L-Malic (C) N.D. +0.7 -0.4 +0.1 N.D.
stress 2,4-Dinitrophenol 2 mM N.D. +0.4 +0.5 -0.2 N.D.
phage T7_phage 0.00015625 MOI TC4 N.D. +0.1 +0.9 -0.3 N.D.
stress LB Anaerobic with Benzethonium chloride 0.00003125 mM N.D. +0.6 +0.4 -0.2 N.D.
plasmid transformation mariner vector transformation; liquid outgrowth assay N.D. +0.6 +0.4 -0.2 N.D.
stress LB Anaerobic with Amoxicillin 0.0000078125 mM N.D. +0.8 +0.2 -0.1 N.D.
stress Cephalothin 0.01 mg/ml N.D. +1.4 -0.0 -0.4 N.D.
stress 2,4-Dinitrophenol 2 mM N.D. +0.6 +0.5 -0.1 N.D.
control PBS_cage_1_mice _Feces_16 hr N.D. +0.2 +0.6 +0.4 N.D.
plasmid transformation mariner vector transformation; liquid outgrowth assay N.D. +0.5 +0.5 +0.1 N.D.
stress LB Aerobic with Zinc Pyrithione 0.0000025 mM N.D. +0.9 +0.3 -0.0 N.D.
stress Phosphomycin 0.001 mg/ml N.D. +0.4 +0.4 +0.2 N.D.
stress LB Aerobic with Zinc Pyrithione 0.0000025 mM N.D. +1.1 +0.2 -0.1 N.D.
plasmid transformation vcDART vector transformation; liquid outgrowth assay N.D. +0.9 +0.4 -0.1 N.D.
stress LB Anaerobic with Cephalothin 0.0000078125 mM N.D. +1.4 +0.3 -0.5 N.D.
stress LB Anaerobic with Cephalothin 0.0000078125 mM N.D. +1.6 +0.0 -0.1 N.D.
plasmid transformation mariner vector transformation; liquid outgrowth assay N.D. +0.9 +0.7 +0.2 N.D.
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