Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5516 and PP_5517 are separated by 20 nucleotidesPP_5517 and PP_2295 are separated by 245 nucleotidesPP_2295 and PP_2296 are separated by 414 nucleotidesPP_2296 and PP_2297 overlap by 26 nucleotides PP_5516: PP_5516 - protein of unknown function, at 2,622,557 to 2,622,811 _5516 PP_5517: PP_5517 - conserved exported protein of unknown function, at 2,622,832 to 2,623,164 _5517 PP_2295: PP_2295 - putative antirestriction protein, at 2,623,410 to 2,623,994 _2295 PP_2296: PP_2296 - conserved protein of unknown function, at 2,624,409 to 2,624,765 _2296 PP_2297: PP_2297 - putative integrative genetic element Ppu40, integrase, at 2,624,740 to 2,625,822 _2297
Group Condition PP_5516 PP_5517 PP_2295 PP_2296 PP_2297
pH Growth at pH7 and (C) Trisodium citrate -1.0 +0.1 -0.3 N.D. -0.8
carbon source 4-Methyl-2-oxopentanoic (C) -0.6 -0.4 -0.3 N.D. -0.4
carbon source Tween 20 (C) -0.7 -0.0 -0.1 N.D. -0.6
carbon source Tween 20 (C) -0.3 -0.3 -0.3 N.D. -0.4
pH pH 4 +0.1 -0.8 -0.2 N.D. -0.1
pH Growth at pH6 and (C) D-Glucose -0.3 +0.3 -0.6 N.D. -0.4
pH pH 8 -0.6 -0.2 -0.3 N.D. +0.2
carbon source Valerolactone (C) -0.5 -0.1 -0.5 N.D. +0.2
stress Growth with Chloride 500 mM; with MOPS +0.2 -0.7 -0.2 N.D. +0.1
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=no_outgrowth_LB; Time=7_days -0.9 +0.3 -0.0 N.D. +0.3
nitrogen source Ammonium chloride (N) +0.5 -0.2 -0.6 N.D. +0.0
carbon source 5-Aminovaleric 10 mM (C) +0.5 -0.2 -0.5 N.D. +0.1
pH Growth at pH7 and (C) D-Glucose -0.9 +0.6 +0.2 N.D. +0.2
nitrogen source Urea (N); with MOPS +0.4 +0.4 -0.4 N.D. -0.2
carbon source D-Glucose (C) +0.2 +0.6 -0.3 N.D. -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.8 -0.0 +0.3 N.D. -0.5
phage PUT 8 MOI 1 +0.1 +1.0 -0.2 N.D. -0.3
temperature Growth at 30C -0.3 +0.6 -0.1 N.D. +0.3
phage P. putida Missley MOI 0.1 +0.1 -0.4 +0.5 N.D. +0.3
temperature shift Temperature shift 30_to_4 +0.5 +0.5 -0.3 N.D. -0.1
nitrogen source 2,6-diaminopimelic (N) -0.1 +0.6 +0.4 N.D. -0.2
temperature shift Temperature shift 10_to_25; with MOPS +0.3 +0.5 -0.2 N.D. +0.4
nitrogen source nitrate (N) +0.1 +0.5 +0.5 N.D. -0.2
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v oleyl alcohol overlay +0.5 +0.4 -0.2 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=72_hrs +0.3 +0.7 -0.2 N.D. +0.2
carbon source 3-methyl-1-butanol 0.1 vol% (C) +0.9 -0.1 -0.1 N.D. +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -0.1 +0.4 +0.4 N.D. +0.4
pH Growth at pH6 and (C) Trisodium citrate -0.1 +0.6 +0.3 N.D. +0.4
phage P. putida Sci small MOI 0.1 +0.5 +0.2 +0.4 N.D. +0.3
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.9 +0.4 +0.1 N.D. +0.5
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