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Cofit
Protein
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Fitness for 5 genes in
Escherichia coli BW25113
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500 nt
yfcF and yfcG are separated by 135 nucleotides
yfcG and folX are separated by 56 nucleotides
folX and yfcH are separated by 20 nucleotides
yfcH and yfcI are separated by 47 nucleotides
b2301: yfcF - predicted enzyme (NCBI), at 2,417,863 to 2,418,507
yfcF
b2302: yfcG - predicted glutathione S-transferase (NCBI), at 2,418,643 to 2,419,290
yfcG
b2303: folX - D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase and dihydroneopterin aldolase (NCBI), at 2,419,347 to 2,419,709
folX
b2304: yfcH - conserved protein with NAD(P)-binding Rossmann-fold domain (NCBI), at 2,419,730 to 2,420,623
yfcH
b2305: yfcI - hypothetical protein (NCBI), at 2,420,671 to 2,421,561
yfcI
Group
Condition
b2301
b2302
b2303
b2304
b2305
yfcF
yfcG
folX
yfcH
yfcI
motility
outer cut, LB soft agar motility assay
-1.3
-0.2
-0.6
+0.1
-0.3
stress
Cisplatin 0.1 mg/ml
-0.9
-0.3
-0.7
+0.1
+0.1
plasmid transformation
mariner vector transformation; liquid outgrowth assay
-1.2
+0.1
-0.3
-0.3
+0.0
stress
LB Aerobic with Chlorhexidine diacetate salt 0.000000625 mM
-0.4
+0.2
-0.3
-0.3
-0.6
stress
LB Anaerobic with Benzethonium chloride 0.00003125 mM
-0.3
-0.2
-0.7
-0.3
+0.1
stress
3-methyl-1-butanol 1.25 vol%
-0.9
-0.5
+0.0
+0.2
+0.2
stress
LB Anaerobic with Nitrofurantoin 0.000015625 mM
+0.4
-0.3
-0.2
-0.3
-0.4
micoeukaryotes
Tetrahymena sp., Mixed culture-1
-1.2
+0.2
+0.4
-0.4
+0.3
stress
LB Aerobic with Nitrofurantoin 0.00003125 mM
-0.6
+0.4
+0.2
+0.1
-0.6
stress
Benzalkonium Chloride 0.004 mg/ml
+0.7
+0.4
-0.8
+0.1
-0.4
phage
Phage_N4_cage_3_mouse_4_Cecum_40 hr
+0.9
+0.1
-0.1
-0.1
-0.5
stress
LB Aerobic with Trimethoprim 0.00000125 mM
+0.5
+0.3
+0.4
-0.2
-0.4
phage
T7_phage 0.00015625 MOI TC4
+0.7
-0.3
-0.0
-0.0
+0.5
phage
Δdbn_10
+0.5
-0.3
+0.3
-0.2
+0.6
control
PBS_cage_1_mouse_1_Cecum_40 hr
+0.1
+0.2
+0.3
+0.8
-0.3
carbon source
Ying_Nucleobase14 rep B; time point 3
-0.3
+0.1
+0.9
+0.1
+0.3
stress
LB Anaerobic with Sulfamonomethoxine 0.0000625 mM
+0.1
-0.2
+1.2
+0.1
-0.0
stress
LB Anaerobic with Cephalothin 0.0000078125 mM
+1.2
-0.0
-0.0
-0.2
+0.2
carbon source
succinate (C)
-0.2
+0.2
+1.0
+0.3
-0.1
carbon source
Glycolic Acid (C)
+0.1
+0.2
+0.9
+0.3
-0.0
stress
Cephalothin 0.01 mg/ml
+1.6
+0.0
-0.3
-0.1
+0.2
stress
Carbenicillin 0.008 mg/ml
+0.8
+0.4
+0.2
+0.1
-0.0
carbon source
carbon source D-Mannose 5mM
+0.6
+0.1
+0.3
+0.5
+0.1
stress
LB Aerobic with 2-Mercaptopyridine N-oxide 0.0000078125 mM
+1.1
+0.2
+0.1
+0.1
+0.2
carbon source
Ying_Nucleobase14 rep C; time point 3
+0.4
+0.2
+1.0
+0.0
+0.2
phage
T7_phage 0.0015625 MOI TC2
+1.4
-0.2
+0.1
+0.2
+0.3
stress
M9 with Methotrexate 1.98 mM 48 hr
+0.0
+0.0
+1.9
+0.0
+0.0
carbon source
carbon source D-Glucose 5mM
+0.5
+0.4
+0.7
+0.5
+0.1
stress
M9 with Methotrexate 1.98 mM 24 hr
-0.1
+0.1
+1.9
+0.1
+0.1
stress
M9 with Methotrexate 1.98 mM 24 hr
+0.1
+0.0
+2.8
+0.0
+0.0
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