Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4149 and PP_4150 are separated by 1 nucleotidesPP_4150 and PP_4151 are separated by 141 nucleotidesPP_4151 and PP_4152 overlap by 4 nucleotidesPP_4152 and PP_4154 are separated by 213 nucleotides PP_4149: PP_4149 - putative inner membrane ABC transporter permease protein, at 4,688,100 to 4,689,119 _4149 PP_4150: PP_4150 - microcin C transporter - ATP binding subunit, at 4,689,121 to 4,690,725 _4150 PP_4151: PP_4151 - Excisionase domain protein, at 4,690,867 to 4,691,340 _4151 PP_4152: PP_4152 - conserved protein of unknown function, at 4,691,337 to 4,691,912 _4152 PP_4154: PP_4154 - putative class 3 aminotransferase, at 4,692,126 to 4,695,056 _4154
Group Condition PP_4149 PP_4150 PP_4151 PP_4152 PP_4154
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -1.4 -2.4 +0.9 -0.0 +0.0
nitrogen source 2,6-diaminopimelic (N) -0.8 -1.2 -0.3 -0.2 -0.3
nitrogen source Ammonium chloride and TNT (N) -1.0 -1.5 +0.0 -0.1 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.2 -1.5 -0.6 +0.0 -0.0
nitrogen source Ammonium chloride and TNT (N) -0.9 -1.0 -0.4 -0.2 +0.1
carbon source Myristic (C) -0.1 -0.9 -1.2 +0.1 -0.2
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -1.1 -1.5 +0.1 +0.2 +0.2
reactor 40hr timepoint of 1L M9/1% dextrose CONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat, feed rate 1g/hr dextrose, set to 30% DO. -0.5 -1.1 -0.5 -0.1 +0.0
carbon source Ethyl decanoate (C) -0.7 -0.8 -0.4 -0.2 -0.0
nitrogen source Ammonium chloride and TNT (N) -0.8 -1.0 +0.0 -0.3 +0.0
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. -0.5 -1.0 -0.3 +0.1 -0.3
nitrogen source Urea (N) -0.0 -0.4 -1.5 +0.1 -0.2
nitrogen source Ammonium chloride and TNT (N) -0.9 -1.1 -0.0 -0.1 +0.2
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -0.7 -1.3 +0.3 -0.2 +0.2
micoeukaryotes C.elegans, mixed culture-1 -0.7 -1.2 +0.4 +0.1 -0.1
carbon source 1,3-Hexanediol (C) -0.5 -1.2 +0.4 +0.0 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.3 -1.7 +0.4 -0.2 +0.4
temperature shift Temperature shift 10_to_30 -0.1 -1.5 +0.4 -0.1 -0.0
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.7 -1.1 -0.1 +0.6 -0.0
carbon source ferulate (C); with MOPS -0.7 -0.6 +0.8 -0.4 -0.2
carbon source DL-2-Aminoadipic 10 mM (C) -0.7 -0.7 +0.5 +0.2 -0.1
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.5 -0.8 +0.6 -0.2 +0.4
phage P. putida Sci small MOI 0.1 -1.0 +0.5 +0.7 -0.4 +0.2
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 -0.5 +0.8 +0.4 +0.3
carbon source acetate (C) -0.1 +0.8 +0.8 +0.2 -0.4
carbon source Hexanoic (C) +0.7 +0.9 +0.2 +0.0 -0.2
carbon source Decanoic (C) +1.2 +1.2 +0.1 -0.1 -0.0
carbon source Delta-Decalactone (C) +1.1 +1.2 +0.3 -0.2 +0.0
carbon source Delta-Decalactone (C) +1.2 +1.4 +0.3 -0.3 -0.1
carbon source Delta-Nonalactone (C) +2.4 +2.6 -0.1 +0.2 +0.2
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