Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5198 and PP_5199 overlap by 4 nucleotidesPP_5199 and PP_5200 overlap by 4 nucleotidesPP_5200 and PP_5201 are separated by 21 nucleotidesPP_5201 and PP_5721 are separated by 145 nucleotides PP_5198: PP_5198 - conserved protein of unknown function, at 5,930,391 to 5,930,873 _5198 PP_5199: PP_5199 - 2-octaprenyl-6-methoxyphenyl hydroxylase, at 5,930,870 to 5,932,069 _5199 PP_5200: PP_5200 - proline aminopeptidase P II, at 5,932,066 to 5,933,400 _5200 PP_5201: PP_5201 - conserved protein of unknown function, UPF0149 family, at 5,933,422 to 5,933,976 _5201 PP_5721: PP_5721 - conserved protein of unknown function, at 5,934,122 to 5,934,340 _5721
Group Condition PP_5198 PP_5199 PP_5200 PP_5201 PP_5721
carbon source D-Glucose (C) -2.6 N.D. +0.3 -2.5 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -3.6 N.D. -0.1 -1.0 -0.0
carbon source acetate (C) -3.2 N.D. +0.1 -1.7 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -2.0 N.D. -0.3 -1.2 -0.4
pH Growth at pH6 and (C) D-Glucose -2.7 N.D. +0.2 -0.3 -0.7
pH Growth at pH6 and (C) D-Glucose -2.1 N.D. -0.0 -1.2 +0.2
pH Growth at pH7 and (C) D-Glucose -0.4 N.D. +0.3 -3.0 +0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -3.3 N.D. +0.3 +0.5 -0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.4 N.D. +0.7 -4.7 +0.8
nitrogen source no extra (N); with MOPS -1.8 N.D. +0.2 -1.2 -0.0
carbon source L-Leucine (C) -0.9 N.D. +0.9 -1.4 -0.7
carbon source ferulate (C); with MOPS -1.4 N.D. +0.8 -1.6 +0.7
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -1.6 N.D. +0.5 -0.6 +0.5
carbon source ferulate (C); with MOPS -1.2 N.D. +0.9 -1.1 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs -1.6 N.D. +0.5 +0.8 -0.3
carbon source D-Glucose (C) +1.3 N.D. -0.5 -1.7 +0.3
nitrogen source NAG (N); with MOPS -2.1 N.D. +0.6 +0.5 +0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -1.8 N.D. +0.4 +1.1 -0.2
pH Growth at pH9 and (C) Trisodium citrate +1.5 N.D. -0.4 -1.3 -0.1
carbon source 4-Hydroxyvalerate (C) (40mM) -1.8 N.D. +0.8 +1.1 +0.1
carbon source Acetate Carbon Source (20mM) -1.6 N.D. +0.2 +1.3 +0.2
carbon source butyrate (C) -1.6 N.D. +1.0 +1.0 +0.1
carbon source Hexanoic (C) -1.3 N.D. +0.6 +1.0 +0.2
carbon source 3-methyl-1-butanol 0.1 vol% (C) +2.1 N.D. -0.3 -1.0 +0.2
pH pH 6 +1.0 N.D. -1.1 +0.7 +0.6
carbon source 4-Hydroxyvalerate (C) (40mM) -1.1 N.D. +0.8 +1.6 +0.2
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.6 N.D. +0.5 +2.5 -0.1
phage PUT8 MOI 0.1 +1.7 N.D. -0.5 +0.8 +0.2
phage P. put PUT 10 MOI 10 +1.5 N.D. -0.3 +0.9 +0.5
carbon source Delta-Nonalactone (C) +0.2 N.D. -0.0 +2.4 +1.1
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