Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4869 and PP_4870 are separated by 102 nucleotidesPP_4870 and PP_4871 are separated by 347 nucleotidesPP_4871 and PP_4872 are separated by 120 nucleotidesPP_4872 and PP_4873 are separated by 315 nucleotides PP_4869: PP_4869 - NH(3)-dependent NAD(+) synthetase, at 5,536,196 to 5,537,023 _4869 PP_4870: PP_4870 - Azurin, at 5,537,126 to 5,537,575 _4870 PP_4871: PP_4871 - putative lysine decarboxylase family protein, at 5,537,923 to 5,538,510 _4871 PP_4872: PP_4872 - putative enzyme of unknown function, at 5,538,631 to 5,540,985 _4872 PP_4873: PP_4873 - replicative DNA helicase (ATPase), at 5,541,301 to 5,542,698 _4873
Group Condition PP_4869 PP_4870 PP_4871 PP_4872 PP_4873
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs N.D. +0.1 -3.9 -0.1 N.D.
pH Growth at pH7 and (C) Trisodium citrate N.D. -2.8 -0.9 +0.1 N.D.
pH Growth at pH7 and (C) D-Glucose N.D. -2.9 +0.3 +0.1 N.D.
nitrogen source Propandiamine (N) N.D. -1.2 -0.8 -0.4 N.D.
nitrogen source D-2-Aminobutyric (N) N.D. -2.3 +0.1 +0.1 N.D.
carbon source carbon source 4-vinylphenol 0.1 mM N.D. -1.1 -0.8 -0.0 N.D.
carbon source carbon source 4-vinylphenol 0.01 mM N.D. -1.8 -0.0 -0.1 N.D.
stress MOPS minimal media_Glucose20mM with Poly(3-hydroxybutyric) 0.1 mg/mL N.D. -2.2 +0.1 +0.2 N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant N.D. -0.7 -1.1 -0.1 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 N.D. -1.1 -0.5 -0.2 N.D.
pH D-Glucose (C) pH 6 N.D. -1.2 -0.5 -0.0 N.D.
carbon source 4-Aminobutyric 10 mM (C) N.D. -0.9 -0.9 +0.1 N.D.
carbon source 1,3-Hexanediol (C) N.D. -1.9 +0.2 +0.1 N.D.
carbon source Delta-Nonalactone (C) N.D. -1.1 -0.5 +0.0 N.D.
nitrogen source Ammonium chloride (N) N.D. -0.5 -1.1 +0.1 N.D.
pH Growth at pH6 and (C) Trisodium citrate N.D. -1.8 +0.4 +0.1 N.D.
nitrogen source nitrate (N) N.D. -0.9 -0.6 +0.3 N.D.
nitrogen source nitrite (N) N.D. -0.3 -1.2 +0.3 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 N.D. +0.7 -1.6 -0.1 N.D.
pH Growth at pH6 and (C) Trisodium citrate N.D. -1.4 +0.3 +0.1 N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. -0.7 +0.7 -0.3 N.D.
pH Growth at pH6 and (C) Trisodium citrate N.D. -1.1 +0.7 +0.3 N.D.
carbon source Myristic (C) N.D. +0.6 -0.9 +0.2 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs N.D. +0.8 -0.8 +0.1 N.D.
phage PUT 8 MOI 1 N.D. +0.1 +1.1 -0.5 N.D.
micoeukaryotes Tetrahymena sp., Mixed culture-2 N.D. -0.4 +0.9 +0.3 N.D.
carbon source 3-methyl-1-butanol 0.1 vol% (C) N.D. +1.4 -0.6 +0.1 N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant N.D. +0.9 +0.6 -0.1 N.D.
phage P. putida Missley MOI 0.1 N.D. +0.7 +0.6 +0.2 N.D.
pH Growth at pH8 and (C) D-Glucose N.D. +0.9 +0.4 +0.3 N.D.
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