Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2567 and PP_2568 are separated by 75 nucleotidesPP_2568 and PP_2569 are separated by 261 nucleotidesPP_2569 and PP_2570 are separated by 82 nucleotidesPP_2570 and PP_2572 are separated by 439 nucleotides PP_2567: PP_2567 - Hydrolase, alpha/beta fold family, at 2,934,284 to 2,935,210 _2567 PP_2568: PP_2568 - Ring-cleaving dioxygenase, at 2,935,286 to 2,935,705 _2568 PP_2569: PP_2569 - Metabolite MFS transporter, MHS family, at 2,935,967 to 2,937,643 _2569 PP_2570: PP_2570 - transposase, at 2,937,726 to 2,939,054 _2570 PP_2572: PP_2572 - conserved protein of unknown function, at 2,939,494 to 2,940,141 _2572
Group Condition PP_2567 PP_2568 PP_2569 PP_2570 PP_2572
carbon source Tween 20 (C) +0.1 -5.2 +0.1 N.D. -1.0
phage P. putida Sci small MOI 0.1 +0.1 -4.9 -0.0 N.D. -0.1
phage P. putida Sci small MOI 0.1 +0.3 -4.4 -0.5 N.D. -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.6 -3.3 -0.1 N.D. +0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -0.0 -3.2 +0.2 N.D. -0.7
pH Valerolactone (C) pH 6.5 +0.2 -2.8 -0.0 N.D. -0.7
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. -0.2 -2.8 -0.2 N.D. -0.1
nitrogen source NAG (N); with MOPS -0.1 -2.4 +0.4 N.D. -1.0
nitrogen source Propandiamine (N) +0.4 -3.3 -0.4 N.D. +0.3
pH D-Glucose (C) pH 6 -0.5 -2.3 -0.1 N.D. -0.1
carbon source 3-methyl-1-butanol 0.1 vol% (C) -0.2 -2.3 +0.0 N.D. -0.3
micoeukaryotes C.elegans, mixed culture-2 -0.2 -2.4 -0.2 N.D. +0.1
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.0 -0.6 +0.3 N.D. -2.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.2 -1.4 +0.1 N.D. -0.9
stress R2A with Fusaric 480 ug/mL -0.2 -2.0 +0.1 N.D. -0.2
micoeukaryotes Dictyostellum sp.mixed culture-2 -0.0 -1.6 +0.1 N.D. -0.6
carbon source D-Lysine 10 mM (C) +0.2 -2.1 -0.1 N.D. +0.0
r2a control R2A control +0.3 -2.4 +0.0 N.D. +0.1
micoeukaryotes Tetrahymena sp., Mixed culture-1 +0.1 -2.0 -0.2 N.D. +0.1
carbon source D-Galacturonic Acid (C) -0.1 -2.0 -0.1 N.D. +0.3
temperature shift Temperature shift 10_to_21 +0.2 -2.1 -0.0 N.D. +0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.0 -2.0 -0.1 N.D. +0.3
carbon source 4-Methyl-2-oxopentanoic (C) +0.3 -1.8 +0.4 N.D. -0.6
nitrogen source Urea (N) +0.5 -1.9 -0.3 N.D. +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 -1.8 -0.3 N.D. +0.3
pH Growth at pH8 and (C) Trisodium citrate +0.3 -1.5 +0.3 N.D. -0.3
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.4 -1.8 +0.7 N.D. -0.2
nitrogen source D-2-Aminobutyric (N) -0.4 +2.1 -0.3 N.D. -0.7
micoeukaryotes Tetrahymena sp., Mixed culture-2 -0.4 +1.8 +0.1 N.D. -0.1
carbon source Hexanoic (C) +0.0 +1.9 +0.2 N.D. -0.2
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