Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1847 and PP_1849 are separated by 200 nucleotidesPP_1849 and PP_1850 are separated by 202 nucleotidesPP_1850 and PP_5479 are separated by 106 nucleotidesPP_5479 and PP_1852 are separated by 45 nucleotides PP_1847: PP_1847 - putative TonB-dependent ferric siderophore receptor, at 2,071,275 to 2,073,407 _1847 PP_1849: PP_1849 - conserved protein of unknown function, at 2,073,608 to 2,073,988 _1849 PP_1850: PP_1850 - putative uncharacterized transporter YgaY, at 2,074,191 to 2,075,378 _1850 PP_5479: PP_5479 - transcriptional regulator HTH, LysR family, at 2,075,485 to 2,076,363 _5479 PP_1852: PP_1852 - putative enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific), at 2,076,409 to 2,077,158 _1852
Group Condition PP_1847 PP_1849 PP_1850 PP_5479 PP_1852
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.2 N.D. -0.0 -1.4 -0.2
phage P. putida Sci Big MOI 0.1 -0.1 N.D. -0.4 -0.8 -0.4
carbon source ferulate (C); with MOPS -0.1 N.D. -0.1 -1.2 -0.2
nitrogen source nitrogen source nitrite 1mM -0.2 N.D. -0.0 -0.7 -0.1
phage P. putida Sci small MOI 0.1 -0.1 N.D. -0.2 -0.3 -0.5
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -0.0 N.D. -0.3 -0.5 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs +0.2 N.D. -0.4 -0.5 -0.3
stress R2A with Fusaric 240 ug/mL -0.1 N.D. -0.0 -0.6 -0.2
stress R2A with Fusaric 480 ug/mL -0.1 N.D. +0.1 -0.8 -0.2
nitrogen source D-2-Aminobutyric (N) -0.2 N.D. +0.2 -0.6 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.2 N.D. -0.2 -0.5 +0.1
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.0 N.D. -0.4 -0.5 +0.3
phage PUT8 MOI 10 -0.0 N.D. +0.2 -0.7 -0.1
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +0.2 N.D. +0.1 -0.4 -0.3
nitrogen source NAG (N); with MOPS -0.1 N.D. +0.5 -0.9 +0.3
pH Growth at pH9 and (C) Trisodium citrate +0.2 N.D. +0.3 -0.5 -0.1
pH Growth at pH6 and (C) Trisodium citrate +0.1 N.D. +0.1 -0.6 +0.3
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days +0.1 N.D. +0.4 -0.4 -0.2
carbon source D-Glucose (C); with MOPS +0.1 N.D. +0.3 -0.5 +0.2
carbon source ferulate (C); with MOPS -0.1 N.D. -0.5 +0.5 +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.1 N.D. +0.3 +0.3 -0.2
stress R2A with Polymyxin B sulfate 0.002 mg/ml -0.1 N.D. +0.2 +0.5 -0.3
carbon source 3-methyl-1-butanol 0.1 vol% (C) -0.2 N.D. -0.4 +0.8 +0.1
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.1 N.D. +0.6 -0.4 +0.1
temperature shift Temperature shift 10_to_30 +0.1 N.D. -0.3 +0.5 +0.2
pH Growth at pH7 and (C) D-Glucose +0.1 N.D. +0.2 +0.7 -0.2
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 +0.3 N.D. -0.2 +0.9 -0.2
nitrogen source Urea (N); with MOPS -0.1 N.D. +0.4 +0.3 +0.4
temperature shift Temperature shift 10_to_21; with MOPS +0.2 N.D. +0.1 +0.4 +0.3
carbon source D-Glucose (C) +0.1 N.D. +0.1 +0.5 +0.2
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