Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2263 and PP_5505 are separated by 12 nucleotidesPP_5505 and PP_2264 are separated by 39 nucleotidesPP_2264 and PP_2265 are separated by 126 nucleotidesPP_2265 and PP_t37 are separated by 269 nucleotides PP_2263: PP_2263 - Sugar ABC transporter, permease protein, at 2,581,649 to 2,582,449 _2263 PP_5505: PP_5505 - conserved transmembrane protein of unknown function, at 2,582,462 to 2,582,734 _5505 PP_2264: PP_2264 - putative Sugar ABC transporter, periplasmic sugar-binding protein, at 2,582,774 to 2,584,513 _2264 PP_2265: PP_2265 - methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase, at 2,584,640 to 2,585,494 _2265 PP_t37: PP_t37 - tRNA-Arg, at 2,585,764 to 2,585,840 _t37
Group Condition PP_2263 PP_5505 PP_2264 PP_2265 PP_t37
pH Growth at pH7 and (C) Trisodium citrate +0.3 -4.1 -0.2 N.D. N.D.
nitrogen source Propandiamine (N) +0.0 -2.4 -0.2 N.D. N.D.
temperature shift Temperature shift 10_to_30 +0.0 -2.5 -0.1 N.D. N.D.
pH Growth at pH9 and (C) Trisodium citrate -0.0 -2.6 +0.1 N.D. N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.1 -2.1 -0.0 N.D. N.D.
carbon source Trisodium citrate (C) -0.4 -1.5 -0.1 N.D. N.D.
phage P. putida Sci small MOI 0.1 -0.3 -1.6 -0.1 N.D. N.D.
pH Growth at pH9 and (C) Trisodium citrate +0.1 -1.8 -0.0 N.D. N.D.
pH Growth at pH6 and (C) Trisodium citrate -0.2 -1.1 -0.3 N.D. N.D.
nitrogen source nitrite (N) +0.2 -1.6 -0.2 N.D. N.D.
pH Growth at pH6 and (C) D-Glucose -0.3 -1.3 +0.1 N.D. N.D.
carbon source 1,3-Hexanediol (C) -0.2 -1.0 -0.3 N.D. N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant +0.1 -1.5 +0.0 N.D. N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.3 -0.9 -0.3 N.D. N.D.
reactor 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v dodecane overlay +0.0 -1.3 -0.1 N.D. N.D.
carbon source L-Leucine (C) +0.4 -2.0 +0.2 N.D. N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.1 -1.6 +0.2 N.D. N.D.
carbon source Valerolactone (C) +0.0 -1.3 +0.0 N.D. N.D.
carbon source ferulate (C); with MOPS -0.1 -1.2 +0.1 N.D. N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant +0.2 -1.8 +0.3 N.D. N.D.
carbon source acetate (C) -0.1 -1.3 +0.2 N.D. N.D.
nitrogen source nitrate (N) +0.2 -1.4 +0.0 N.D. N.D.
reactor 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. +0.2 -1.1 -0.3 N.D. N.D.
phage P. putida PUT10 MOI 1 +0.1 -1.3 +0.3 N.D. N.D.
nitrogen source Urea (N) -0.2 -0.9 +0.3 N.D. N.D.
pH Valerolactone (C) pH 6.5 +0.3 -1.1 -0.0 N.D. N.D.
phage P. putida Sci Big MOI 0.1 -0.5 -0.7 +0.6 N.D. N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days -0.3 +0.8 -0.3 N.D. N.D.
in planta Plant=Zea_mays; PlantTreatment=Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.2 +1.1 -0.1 N.D. N.D.
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.2 +0.9 +0.5 N.D. N.D.
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