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Cofit
Protein
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Fitness for 5 genes in
Escherichia coli BW25113
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500 nt
yjjU and yjjV overlap by 4 nucleotides
yjjV and yjjW are separated by 419 nucleotides
yjjW and yjjI overlap by 29 nucleotides
yjjI and deoC are separated by 257 nucleotides
b4377: yjjU - predicted esterase (NCBI), at 4,610,434 to 4,611,507
yjjU
b4378: yjjV - predicted DNase (NCBI), at 4,611,504 to 4,612,283
yjjV
b4379: yjjW - predicted pyruvate formate lyase activating enzyme (NCBI), at 4,612,703 to 4,613,566
yjjW
b4380: yjjI - hypothetical protein (NCBI), at 4,613,538 to 4,615,088
yjjI
b4381: deoC - deoxyribose-phosphate aldolase (NCBI), at 4,615,346 to 4,616,125
deoC
Group
Condition
b4377
b4378
b4379
b4380
b4381
yjjU
yjjV
yjjW
yjjI
deoC
stress
2,4-Dinitrophenol 2 mM
-0.8
-0.2
-0.1
+0.1
-1.3
stress
Spectinomycin 0.0125 mg/ml
-0.1
-0.2
+0.3
+0.8
-2.9
phage
Phage_N4_cage_3_mouse_4_Cecum_40 hr
-0.1
-0.5
-0.3
+0.1
-1.2
stress
Spectinomycin 0.00625 mg/ml
+0.3
-0.0
+0.1
+0.5
-2.6
control
PBS_cage_2_mouse_1_Cecum_40 hr
+0.4
-0.6
-0.6
-0.1
-0.7
motility
outer cut, LB soft agar motility assay
+0.4
-0.8
+0.0
+0.0
-1.2
carbon source
carbon source D-Glucose 0.25mM
+0.4
+0.2
-0.2
-0.7
-1.2
motility
outer cut, LB soft agar motility assay
-0.5
+0.5
+0.1
+0.5
-1.5
carbon source
carbon source D-Mannose 0.5mM
+0.2
+0.0
-0.2
+0.4
-1.3
carbon source
carbon source D-Mannose 5mM
-0.2
+0.6
-0.3
+0.3
-0.8
stress
Cisplatin 0.1 mg/ml
+1.0
-0.1
+0.2
-0.6
-0.7
stress
LB Anaerobic with Nitrofurantoin 0.00003125 mM
+0.7
-1.1
+0.5
-0.1
-0.1
stress
Trimethoprim 0.005 mM
-0.0
-0.6
-0.2
-0.5
+1.5
stress
Benzalkonium Chloride 0.004 mg/ml
+0.8
-0.2
+0.2
+0.5
-0.6
stress
Aluminum chloride 5 mM
+0.6
-1.1
+0.0
+0.5
+1.3
carbon source
Adenosine 0.3742 mM (C)
-0.2
+0.2
-0.1
+0.9
+1.0
carbon source
Inosine 0.3728 mM (C)
-0.2
-0.2
-0.3
+1.4
+1.1
carbon source
Ying_Nucleobase14 rep C; time point 2
-0.2
-0.0
+0.1
+1.0
+1.2
phage
Papa dilution 10-1 cacl2 maltose
+0.4
+0.8
+0.2
+0.3
+0.4
carbon source
Ying_Nucleobase14 rep B; time point 2
-0.1
+0.1
+0.0
+1.0
+1.2
plasmid transformation
vcDART vector transformation; liquid outgrowth assay
+0.5
+0.6
+0.2
-0.2
+1.3
carbon source
Inosine 0.3728 mM (C)
-0.1
+0.2
-0.1
+1.4
+1.0
carbon source
Inosine 0.3728 mM (C)
-0.0
+0.0
+0.1
+1.5
+0.9
carbon source
Ying_Nucleobase14 rep A; time point 2
-0.1
+0.1
+0.1
+1.0
+1.4
carbon source
Ying_Nucleobase14 rep A; time point 3
-0.0
-0.2
-0.1
+1.1
+1.9
carbon source
Ying_Nucleobase14 rep B; time point 3
+0.0
+0.2
-0.1
+1.3
+1.6
carbon source
Guanosine 0.35306 mM (C)
+0.1
-0.1
-0.0
+0.8
+2.3
carbon source
Ying_Nucleobase14 rep C; time point 3
-0.1
+0.2
+0.1
+1.2
+1.8
carbon source
Guanosine 0.35306 mM (C)
+0.0
+0.2
-0.1
+0.8
+2.3
carbon source
Guanosine 0.35306 mM (C)
-0.1
-0.1
+0.1
+1.0
+3.3
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