Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1894 and PP_1895 are separated by 133 nucleotidesPP_1895 and PP_1896 overlap by 4 nucleotidesPP_1896 and PP_5481 overlap by 117 nucleotidesPP_5481 and PP_1897 are separated by 142 nucleotides PP_1894: PP_1894 - glutathione S-transferase reducing arsenate to arsenite, at 2,137,141 to 2,137,764 _1894 PP_1895: PP_1895 - putative ABC transporter - ATP binding subunit, at 2,137,898 to 2,138,830 _1895 PP_1896: PP_1896 - putative ABC transporter - permease subunit, at 2,138,827 to 2,139,606 _1896 PP_5481: PP_5481 - conserved protein of unknown function, at 2,139,490 to 2,140,122 _5481 PP_1897: PP_1897 - DNA internalization-related competence protein ComEC/Rec2, at 2,140,265 to 2,142,478 _1897
Group Condition PP_1894 PP_1895 PP_1896 PP_5481 PP_1897
supernatant Supernatant; Trichoderma atroviride IMI grown in Vogels_fungal_media, filtered; 0.2X +0.2 -0.9 -0.7 -0.1 -0.5
nitrogen source spermidine (N) -0.1 -0.6 -0.4 -0.4 -0.1
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -0.0 -0.4 -0.7 -0.5 -0.0
carbon source Valerolactone (C) -0.2 +0.0 -0.8 -0.6 -0.1
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. -0.3 -0.6 -0.3 -0.3 -0.0
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +0.2 -0.8 -0.8 -0.1 -0.1
stress Cholinium lysinate 10 vol% +0.2 -1.1 -0.7 +0.3 +0.0
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -0.4 -0.6 -0.2 -0.2 +0.2
nitrogen source NAG (N); with MOPS +0.0 -1.3 -0.4 +0.4 +0.3
agar plate interaction control Parafilmed volatile agar plate with no fungus +0.2 -1.2 -0.1 +0.1 +0.0
temperature shift Temperature shift 30_to_25 +0.3 -0.9 +0.0 -0.3 -0.0
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.5 -0.7 -0.2 -0.1 -0.2
nitrogen source nitrate (N) +0.5 -0.4 -0.1 -0.7 +0.2
stress R2A with Polymyxin B sulfate 0.002 mg/ml -0.7 +0.6 -0.2 +0.5 -0.4
carbon source Valeric (C) -0.0 -0.1 +0.4 +0.5 -0.7
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.0 +0.6 -0.4 -0.3 +0.4
phage P. putida Sci small MOI 0.1 -0.1 +0.7 -0.5 +0.5 -0.3
temperature shift Temperature shift 30_to_21; with MOPS +0.2 +0.6 +0.2 +0.2 -0.4
phage P. put South MOI 10 +0.5 +0.7 +0.2 -0.4 -0.0
carbon source Delta-Nonalactone (C) -0.1 +1.0 +0.2 -0.4 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.6 -0.4 +0.2 +0.4 +0.4
micoeukaryotes Tetrahymena sp., Mixed culture-2 -0.4 +0.5 +0.1 +0.6 +0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 +0.8 -0.2 +0.4 -0.2
carbon source Lignin Monomers (C) +0.3 +0.3 +0.8 -0.0 -0.2
nitrogen source Propandiamine (N) +0.3 +0.1 -0.3 +1.1 +0.0
carbon source Delta-Decalactone (C) +0.0 +1.1 +0.3 +0.0 +0.2
carbon source carbon source 2-Deoxy-D-glucose 100 mM +0.5 +0.2 +0.2 +0.4 +0.3
carbon source carbon source Glycerol 108.6 mM +0.5 +0.4 +0.2 +0.4 +0.2
pH pH 4 +0.4 +0.7 +0.0 +0.5 +0.2
carbon source carbon source Bisabolene 48.9 mM +0.4 +0.6 +0.4 +0.4 +0.3
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