Fitness for 5 genes in Escherichia coli BW25113

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500 ntxylB and xylA are separated by 71 nucleotidesxylA and xylF are separated by 365 nucleotidesxylF and xylG are separated by 77 nucleotidesxylG and xylH overlap by 23 nucleotides b3564: xylB - xylulokinase (NCBI), at 3,725,940 to 3,727,394 xylB b3565: xylA - xylose isomerase (NCBI), at 3,727,466 to 3,728,788 xylA b3566: xylF - D-xylose transporter subunit (NCBI), at 3,729,154 to 3,730,146 xylF b3567: xylG - fused D-xylose transporter subunits of ABC superfamily: ATP-binding components (NCBI), at 3,730,224 to 3,731,765 xylG b3568: xylH - D-xylose transporter subunit (NCBI), at 3,731,743 to 3,732,924 xylH
Group Condition b3564 b3565 b3566 b3567 b3568
xylB xylA xylF xylG xylH
carbon source D-Xylose (C) -4.4 -4.4 -2.0 -0.9 +0.1
carbon source D-Xylose (C) -3.8 -4.3 -2.1 -1.0 -0.0
carbon source D-Ribose (C) -0.7 -1.0 -0.4 -0.2 +0.4
carbon source D-Ribose (C) -0.6 -0.9 -0.3 -0.1 +0.4
plasmid transformation vcDART vector transformation; liquid outgrowth assay -0.1 -0.6 -0.2 -0.1 -0.4
predation 6 hr rep1_HD100_10fold_dilution_grewON -0.2 -0.1 -0.3 -0.0 -0.8
carbon source carbon source D-Glucose 0.25mM -0.1 -0.1 +0.0 -0.1 -0.9
phage N4_phage 0.009375 MOI TC2 -0.3 -0.3 -0.1 -0.2 -0.1
phage Papa dilution 10-1 cacl2 maltose -0.2 -0.2 -0.0 -0.3 -0.2
stress LB Anaerobic with Nitrofurantoin 0.00003125 mM -0.1 -0.1 -0.0 -0.2 -0.5
phage N4_phage 0.009375 MOI TC1 -0.2 -0.3 -0.1 -0.1 -0.2
stress LB Anaerobic with Chlorhexidine diacetate salt 0.000000625 mM -0.2 -0.4 -0.2 -0.1 -0.1
phage Δdbn_10 -0.3 +0.0 -0.2 +0.0 -0.4
stress LB Anaerobic with Benzethonium chloride 0.00003125 mM -0.5 -0.2 -0.4 -0.3 +0.5
plasmid transformation vcDART vector transformation; liquid outgrowth assay +0.2 -0.6 -0.0 -0.2 -0.2
predation 6 hr rep2_HD100_10fold_dilution_grewON +0.1 -0.4 +0.1 -0.1 -0.5
attachment_assay_attached_sample Time0_Wash=None; Attachment_time=2hrs; Attachment_surface=PDMS; Sample_type=attached; Outgrowth=LB -0.2 -0.3 +0.1 +0.1 -0.2
carbon source carbon source D-Glucose 5mM +0.3 +0.1 -0.2 -0.2 -0.4
control PBS_cage_1_mice _Feces_16 hr +0.2 -0.2 +0.3 -0.0 -0.4
control PBS_cage_1_mice _Feces_22 hr +0.2 -0.3 +0.4 -0.1 -0.1
phage Ste41 +0.7 +0.3 -0.1 -0.1 -0.7
phage Phage_N4_cage_3_mouse_3_Cecum_40 hr +0.2 -0.2 +0.4 +0.1 -0.1
phage Ste41 +0.6 +0.4 -0.1 -0.0 -0.3
phage Koxy_100 +0.3 +0.0 +0.3 +0.1 -0.1
carbon source Ying_Nucleobase14 rep C; time point 2 +0.3 +0.4 +0.1 +0.1 -0.1
carbon source Ying_Nucleobase14 rep C; time point 3 +0.3 +0.5 +0.1 +0.0 -0.1
carbon source Ying_Nucleobase14 rep B; time point 3 +0.4 +0.4 +0.1 +0.1 -0.0
phage RB68 +0.9 +0.3 +0.2 -0.1 -0.4
stress acetate 70 mM +0.4 +0.3 +0.1 -0.0 +0.2
phage RB68 +0.9 +0.4 +0.1 -0.0 +0.4
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