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Protein
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Fitness for 5 genes in
Escherichia coli BW25113
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500 nt
recD and recB overlap by 1 nucleotides
recB and ptr overlap by 8 nucleotides
ptr and recC are separated by 175 nucleotides
recC and ppdC are separated by 12 nucleotides
b2819: recD - exonuclease V (RecBCD complex), alpha chain (NCBI), at 2,948,657 to 2,950,483
recD
b2820: recB - exonuclease V (RecBCD complex), beta subunit (NCBI), at 2,950,483 to 2,954,025
recB
b2821: ptr - protease III (NCBI), at 2,954,018 to 2,956,906
ptr
b2822: recC - exonuclease V (RecBCD complex), gamma chain (NCBI), at 2,957,082 to 2,960,450
recC
b2823: ppdC - hypothetical protein (NCBI), at 2,960,463 to 2,960,786
ppdC
Group
Condition
b2819
b2820
b2821
b2822
b2823
recD
recB
ptr
recC
ppdC
retron_ec_48_control
retron_Ec_48_control
-9.7
-0.2
-0.3
-1.4
+0.5
retron_ec_48_control
retron_Ec_48_control
-9.7
-0.2
-0.4
-1.3
+0.7
drt_type_3
DRT_type_3
-9.9
-0.2
-0.3
-0.7
+0.4
retron_ec_48_control
retron_Ec_48_control
-8.6
-0.3
-0.6
-1.5
+0.5
phage
P2 dilution 10-3
-6.7
-1.4
+0.1
-1.9
-0.1
drt_type_3
DRT_type_3
-9.4
-0.1
-0.3
-0.8
+0.7
drt_type_3
DRT_type_3
-8.9
-0.2
-0.4
-0.9
+0.6
ppi
ppI
-6.2
-0.2
-0.3
-0.7
+0.4
stress
Nalidixic 0.006 mg/ml
-0.2
-4.1
+0.1
-3.2
+0.4
motility
inner cut, LB soft agar motility assay
-0.4
-4.3
-0.1
-2.0
-0.1
stress
2-undecanol 5 vol%
-0.3
-3.7
+0.0
-1.7
-0.3
phage
P2 dilution 10-2 cacl2
-4.0
-0.7
+0.0
-1.3
-0.1
motility
outer cut, LB soft agar motility assay
-0.1
-3.6
+0.2
-2.2
-0.1
ppi
ppI
-5.1
-0.3
-0.3
-0.7
+0.6
stress
Cisplatin 0.05 mg/ml
-1.7
-2.1
-0.4
-1.7
+0.2
ppi
ppI
-5.3
-0.2
-0.3
-0.5
+0.8
phage
P2 dilution 10-3 cacl2
-3.5
-0.7
-0.1
-1.4
+0.2
stress
hexanol 0.31 vol%
-0.2
-3.8
+0.3
-1.7
-0.0
phage
Phage_N4_cage_4_mouse_1_Cecum_40 hr
-0.5
-3.1
-0.0
-2.2
+0.3
sir2-hera
SIR2-HerA
-4.4
-0.4
-0.3
-0.5
+0.3
phage
Phage_N4_cage_3_mice _Feces_22 hr
-0.1
-3.2
-0.0
-2.2
+0.4
control
PBS_cage_2_mice _Feces_40 hr
+0.3
-2.7
+0.2
-2.4
-0.5
control
PBS_cage_1_mice _Feces_22 hr
-0.6
-2.4
+0.1
-2.4
+0.5
control
PBS_cage_2_mouse_1_Cecum_40 hr
+0.4
-2.5
+0.3
-1.9
-1.0
sir2-hera
SIR2-HerA
-4.5
-0.1
-0.2
-0.3
+0.7
control
PBS_cage_1_mice _Feces_40 hr
-0.5
-2.5
+0.1
-2.4
+0.7
phage
T7_phage 0.00015625 MOI TC4
+0.1
+2.9
+0.1
+2.6
-1.2
plasmid transformation
vcDART vector transformation; liquid outgrowth assay
+3.7
+1.2
-0.1
+0.6
+0.7
phage
T7_phage 0.00015625 MOI TC3
+1.8
+5.5
-0.1
+4.7
+0.0
phage
T7_phage 0.0015625 MOI TC2
+1.1
+5.8
+0.1
+4.9
+0.0
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