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Fitness for 5 genes in
Escherichia coli BW25113
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500 nt
garR and garL are separated by 35 nucleotides
garL and garP are separated by 15 nucleotides
garP and garD are separated by 374 nucleotides
garD and sohA are separated by 148 nucleotides
b3125: garR - tartronate semialdehyde reductase (RefSeq), at 3,269,889 to 3,270,773
garR
b3126: garL - alpha-dehydro-beta-deoxy-D-glucarate aldolase (NCBI), at 3,270,809 to 3,271,579
garL
b3127: garP - predicted (D)-galactarate transporter (NCBI), at 3,271,595 to 3,272,929
garP
b3128: garD - (D)-galactarate dehydrogenase (NCBI), at 3,273,304 to 3,274,875
garD
b3129: sohA - predicted regulator (NCBI), at 3,275,024 to 3,275,359
sohA
Group
Condition
b3125
b3126
b3127
b3128
b3129
garR
garL
garP
garD
sohA
carbon source
Glycolic Acid (C)
-1.3
-1.0
-2.2
+0.2
-0.5
carbon source
Glycolic Acid (C)
-0.8
-0.4
-2.0
-0.1
-0.5
carbon source
carbon source D-Glucose 0.25mM
-0.8
-0.8
-0.7
+0.3
-1.0
phage
T7_phage 0.0015625 MOI TC2
-0.2
+0.4
-0.8
-0.2
-2.1
carbon source
carbon source D-Mannose 5mM
-0.2
-0.4
-0.6
+0.1
-1.2
stress
LB Anaerobic with Benzethonium chloride 0.00003125 mM
+0.1
-0.1
+0.0
-0.2
-1.8
phage
Ste41
-0.5
-0.0
+0.5
-0.0
-1.7
micoeukaryotes
Tetrahymena sp., Mixed culture-1
-0.0
-0.1
+0.1
-0.1
-1.5
stress
LB Aerobic with Ramoplanin 0.000125 mM
+0.6
-0.2
-0.3
+0.1
-1.2
stress
Aluminum chloride 5 mM
-0.2
-1.3
-0.3
+0.1
+0.8
stress
LB Anaerobic with Nitrofurantoin 0.00003125 mM
+0.4
+0.2
+0.2
-0.2
-1.4
stress
Cisplatin 0.1 mg/ml
+0.2
-1.1
-0.2
+0.3
+0.3
stress
3-methyl-1-butanol 1.25 vol%
+0.1
+0.4
+0.4
-0.2
-1.1
stress
3-methyl-1-butanol 1.25 vol%
+0.3
+0.4
+0.2
+0.3
-1.5
stress
LB Anaerobic with Trimethoprim 0.0000003125 mM
+0.4
+0.3
-0.1
+0.2
-1.0
stress
Chloramphenicol 0.005 mg/ml
+0.3
-0.6
-0.4
-0.1
+0.6
stress
Chlorite 1.25 mM
+0.2
-0.6
-0.1
+0.3
+0.7
plasmid transformation
vcDART vector transformation; liquid outgrowth assay
+0.4
+0.9
-0.1
+0.2
-1.0
phage
Ste41
+0.4
-0.6
+0.6
+0.1
+0.2
stress
Trimethoprim 0.00125 mM
-0.2
-0.1
-0.0
-0.0
+1.5
plasmid transformation
mariner vector transformation; liquid outgrowth assay
-0.1
+0.1
-0.4
-0.3
+1.9
stress
LB Anaerobic with Cephalothin 0.0000078125 mM
-0.0
+0.0
-0.3
+0.3
+1.4
carbon source
carbon source D-Glucose 5mM
+0.1
+0.2
-0.2
+0.4
+1.0
motility
inner cut, LB soft agar motility assay
+0.3
+0.2
+0.4
-0.1
+0.9
stress
LB Anaerobic with Amoxicillin 0.0000078125 mM
-0.0
-0.0
+0.3
+0.2
+1.4
stress
Trimethoprim 0.0025 mM
+0.3
-0.0
-0.1
-0.2
+1.9
stress
Cephalothin 0.01 mg/ml
-0.1
-0.3
+0.2
+0.1
+2.0
plasmid transformation
mariner vector transformation; liquid outgrowth assay
+0.4
+0.4
-0.2
+0.1
+1.5
control
PBS_cage_1_mice _Feces_16 hr
+0.4
+0.9
+0.4
+0.1
+0.6
motility
outer cut, LB soft agar motility assay
+0.7
+0.8
+0.4
+0.0
+0.7
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