Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4422 and PP_4423 are separated by 259 nucleotidesPP_4423 and PP_4424 are separated by 202 nucleotidesPP_4424 and PP_4425 are separated by 50 nucleotidesPP_4425 and PP_4426 are separated by 98 nucleotides PP_4422: PP_4422 - succinate-semialdehyde dehydrogenase (NADP+), at 5,017,384 to 5,018,856 _4422 PP_4423: PP_4423 - conserved protein of unknown function, at 5,019,116 to 5,020,111 _4423 PP_4424: PP_4424 - Uncharacterized HTH-type transcriptional regulator y4tD, at 5,020,314 to 5,020,781 _4424 PP_4425: PP_4425 - putative amino-acid ABC transporter ATP-binding protein y4tH, at 5,020,832 to 5,021,599 _4425 PP_4426: PP_4426 - Amino acid ABC transporter, permease protein, at 5,021,698 to 5,022,354 _4426
Group Condition PP_4422 PP_4423 PP_4424 PP_4425 PP_4426
pH Growth at pH9 and (C) Trisodium citrate +0.1 -0.1 -6.8 +0.1 +0.3
stress R2A with Polymyxin B sulfate 0.002 mg/ml +0.1 +0.1 -3.8 -0.3 -0.4
temperature Growth at 25C; with MOPS -0.1 -0.6 -1.5 +0.2 -1.7
temperature Growth at 25C -0.1 +0.1 -2.9 -0.2 -0.4
carbon source ferulate (C); with MOPS -0.3 -0.2 -2.4 -0.2 +0.1
temperature shift Temperature shift 10_to_25; with MOPS -0.2 +0.2 -2.7 -0.1 -0.1
carbon source Tween 20 (C) +0.0 -0.5 -1.9 -0.3 -0.2
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. -0.1 +0.1 -1.7 -0.1 -0.6
carbon source ferulate (C); with MOPS -0.2 +0.0 -2.1 +0.1 -0.1
carbon source ferulate (C); with MOPS -0.3 +0.1 -1.2 -0.3 -0.5
nitrogen source nitrogen source nitrate 5mM -0.1 +0.3 -1.1 -0.2 -0.9
nitrogen source D-2-Aminobutyric (N) -0.3 +0.0 -1.9 -0.2 +0.4
carbon source 1,3-Butandiol (C) -0.1 +0.4 -2.2 -0.0 +0.2
carbon source acetate (C) -0.2 +0.2 +0.4 +0.0 -1.7
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.2 +0.1 -1.6 -0.3 +0.4
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.1 -0.1 -2.0 +0.3 +0.6
nitrogen source NAG (N); with MOPS -0.0 -0.5 -0.4 -0.8 +0.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.1 +0.5 -0.9 +0.5 -0.7
phage P. putida Sci small MOI 0.1 +0.1 +0.9 -1.7 +0.3 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -0.5 +0.1 +1.3 -0.0 -0.6
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.2 -0.5 +0.7 +0.3 +0.8
carbon source Valerolactam 10 mM (C) +1.3 +0.0 +0.8 -0.1 -0.4
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.1 +0.8 -0.2 +0.3 +1.5
phage P. putida PUT 7 MOI 1 +0.5 +0.8 +0.4 +0.7 -0.0
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.2 +0.5 +1.9 +0.6 -0.3
carbon source 5-Aminovaleric 10 mM (C) +0.8 +0.4 +1.2 +0.1 +0.2
nitrogen source Caprolactam (N) +3.3 -0.0 -0.2 +0.1 -0.3
nitrogen source Caprolactam (N) +3.5 -0.2 -0.2 +0.0 -0.0
phage P. putida Missley MOI 0.1 +0.7 +0.5 +0.6 +0.3 +1.1
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.2 +0.7 +1.4 +0.2 +0.8
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