Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1971 and PP_t63 are separated by 230 nucleotidesPP_t63 and PP_1972 are separated by 62 nucleotidesPP_1972 and PP_1974 are separated by 284 nucleotidesPP_1974 and PP_1975 are separated by 127 nucleotides PP_1971: PP_1971 - conserved protein of unknown function, at 2,232,462 to 2,233,040 _1971 PP_t63: PP_t63 - tRNA-Asn, at 2,233,271 to 2,233,346 _t63 PP_1972: PP_1972 - aromatic-amino-acid aminotransferase, at 2,233,409 to 2,234,605 _1972 PP_1974: PP_1974 - excinuclease UvrABC protein B, at 2,234,890 to 2,236,905 _1974 PP_1975: PP_1975 - putative EmrB/QacA family drug resistance transporter, at 2,237,033 to 2,238,583 _1975
Group Condition PP_1971 PP_t63 PP_1972 PP_1974 PP_1975
carbon source 5-Aminovaleric 10 mM (C) -0.2 N.D. -1.4 N.D. -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.0 N.D. -0.9 N.D. -0.4
carbon source ferulate (C); with MOPS -0.1 N.D. -1.0 N.D. -0.1
reactor 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO. -0.5 N.D. -0.7 N.D. -0.1
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO. -0.4 N.D. -0.7 N.D. -0.0
phage P. putida Missley MOI 0.1 -0.2 N.D. -0.4 N.D. -0.5
carbon source L-Glutamic (C) +0.1 N.D. -1.2 N.D. +0.0
pH Growth at pH6 and (C) Trisodium citrate -0.3 N.D. -0.5 N.D. -0.3
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 N.D. -0.6 N.D. -0.2
carbon source L-Glutamine (C) +0.1 N.D. -1.1 N.D. +0.1
nitrogen source nitrogen source nitrite 1mM +0.2 N.D. -0.9 N.D. -0.2
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 N.D. -0.8 N.D. -0.1
nitrogen source nitrate (N) +0.1 N.D. -0.7 N.D. -0.2
carbon source 5-Aminovaleric 10 mM (C) +0.1 N.D. -0.9 N.D. -0.0
micoeukaryotes C.elegans, mixed culture-2 +0.1 N.D. -0.9 N.D. +0.1
phage P. putida Sci Big MOI 0.1 +0.1 N.D. -0.1 N.D. -0.8
phage P. putida Sci small MOI 0.1 -0.5 N.D. +0.2 N.D. -0.5
carbon source Myristic (C) -0.6 N.D. +0.2 N.D. -0.3
mixed carbon source mixed (C)s Trisodium citrate 10 mM and L-Phenylalanine 5 mM -0.0 N.D. -0.7 N.D. +0.2
carbon source L-Glutamic (C) +0.0 N.D. -0.7 N.D. +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.3 N.D. -0.8 N.D. -0.0
pH Growth at pH6 and (C) D-Glucose -0.1 N.D. -0.6 N.D. +0.2
nitrogen source D-2-Aminobutyric (N) +0.3 N.D. -0.7 N.D. -0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.3 N.D. +0.4 N.D. -0.4
pH Growth at pH6 and (C) D-Glucose +0.3 N.D. -0.5 N.D. +0.2
pH pH 7 -0.5 N.D. +0.5 N.D. +0.1
carbon source D-Glucose (C); with MOPS +0.2 N.D. +0.4 N.D. -0.3
phage P. putida South MOI 1 +0.2 N.D. +0.7 N.D. -0.1
phage P. put South MOI 1 +0.3 N.D. +0.6 N.D. -0.1
stress R2A with Polymyxin B sulfate 0.001 mg/ml +0.0 N.D. +0.7 N.D. +0.3
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