Fitness for 5 genes in Escherichia coli BW25113

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500 ntybgI and ybgJ are separated by 22 nucleotidesybgJ and ybgK overlap by 7 nucleotidesybgK and ybgL overlap by 11 nucleotidesybgL and nei are separated by 35 nucleotides b0710: ybgI - conserved metal-binding protein (NCBI), at 742,050 to 742,793 ybgI b0711: ybgJ - predicted enzyme subunit (NCBI), at 742,816 to 743,472 ybgJ b0712: ybgK - predicted enzyme subunit (NCBI), at 743,466 to 744,398 ybgK b0713: ybgL - hypothetical protein (NCBI), at 744,388 to 745,122 ybgL b0714: nei - endonuclease VIII/ 5-formyluracil/5-hydroxymethyluracil DNA glycosylase (NCBI), at 745,158 to 745,949 nei
Group Condition b0710 b0711 b0712 b0713 b0714
ybgI ybgJ ybgK ybgL nei
phage T7_phage 0.0015625 MOI TC2 -0.6 -0.3 -1.4 -0.1 -1.0
phage T7_phage 0.00015625 MOI TC4 +0.6 -0.8 -0.3 -0.8 -1.8
plasmid transformation vcDART vector transformation; liquid outgrowth assay -1.5 -0.1 +0.1 +0.4 -0.5
stress 2-Furfuraldehyde 0.25 vol% -1.5 -0.3 +0.3 -0.2 +0.1
attachment_assay_attached_sample Time0_Wash=None; Attachment_time=2hrs; Attachment_surface=PDMS; Sample_type=attached; Outgrowth=LB +0.7 -0.6 -0.3 -0.9 -0.3
plasmid transformation vcDART vector transformation; liquid outgrowth assay -1.0 +0.1 +0.3 -0.2 -0.6
phage Phage_N4_cage_3_mouse_4_Cecum_40 hr -1.4 -0.8 -0.2 +0.5 +0.7
phage Δdbn_10 +0.2 -0.3 -1.0 +0.5 -0.5
predation 6 hr rep1_HD100_10fold_dilution_grewON -2.0 +0.6 +0.5 +0.2 -0.4
phage T7_phage 0.0015625 MOI TC1 +0.5 -0.4 -0.2 -0.5 -0.4
carbon source carbon source D-Glucose 5mM +0.9 +0.5 +0.8 -0.8 -2.0
phage RB68 -0.7 -0.3 +0.1 +0.6 -0.2
carbon source succinate (C) -1.1 +0.2 -0.0 +0.3 +0.4
stress LB Aerobic with Irgasan 0.0000003125 mM -0.7 -0.3 +0.4 +0.6 -0.3
stress Cisplatin 0.1 mg/ml -1.1 +0.0 +0.4 -0.3 +0.8
motility inner cut, LB soft agar motility assay -0.7 -0.1 +0.6 -0.4 +0.4
gfp_control GFP_control +0.1 +0.6 -0.1 -0.9 +0.3
carbon source succinate (C) -0.9 +0.3 +0.0 +0.3 +0.4
phage Ste41 +0.6 +0.3 +0.5 +0.2 -1.4
motility inner cut, LB soft agar motility assay -0.6 +0.3 +0.6 -0.5 +0.6
control PBS_cage_1_mice _Feces_40 hr -0.4 +0.9 +0.0 -0.5 +0.3
carbon source acetate (C) -0.9 +0.4 +0.2 +0.6 +0.5
carbon source Dodecanol and Rhamnolipid (C) +0.6 -0.5 +0.5 +0.0 +0.4
protonated/deuterated deuterated glucose in H2O -0.5 +0.6 +0.2 +0.3 +0.4
motility outer cut, LB soft agar motility assay -0.4 -0.2 +0.1 +0.5 +1.1
control PBS_cage_1_mice _Feces_16 hr +0.0 +1.2 +0.1 -0.3 +0.5
control PBS_cage_2_mouse_2_Cecum_40 hr +0.6 +0.2 +0.8 +0.5 -0.2
carbon source carbon source D-Mannose 5mM +0.6 +0.7 +0.1 +0.4 +0.1
control NoBALOControl +0.1 +0.5 +0.3 +0.3 +0.9
stress LB Anaerobic with Nitrofurantoin 0.00003125 mM +0.5 +0.8 +0.5 -0.2 +0.9
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