Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5000 and PP_5001 are separated by 76 nucleotidesPP_5001 and PP_5002 are separated by 166 nucleotidesPP_5002 and PP_5003 are separated by 268 nucleotidesPP_5003 and PP_5004 are separated by 62 nucleotides PP_5000: PP_5000 - peptidase component of the ATP-dependent HslVU protease, at 5,696,760 to 5,697,290 _5000 PP_5001: PP_5001 - protease HslVU, ATPase component, at 5,697,367 to 5,698,710 _5001 PP_5002: PP_5002 - conserved protein of unknown function, at 5,698,877 to 5,699,254 _5002 PP_5003: PP_5003 - poly(3-hydroxyalkanoate) polymerase 1, at 5,699,523 to 5,701,202 _5003 PP_5004: PP_5004 - Poly(3-hydroxyalkanoate) depolymerase, at 5,701,265 to 5,702,116 _5004
Group Condition PP_5000 PP_5001 PP_5002 PP_5003 PP_5004
phage P. putida Sci small MOI 0.1 -0.9 -5.6 N.D. -0.5 -0.4
micoeukaryotes C.elegans, mixed culture-2 -4.4 -0.3 N.D. -1.0 -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 -4.4 -0.0 N.D. -0.2 -0.4
temperature Growth at 25C -1.0 -3.7 N.D. -0.2 +0.2
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -1.8 -2.4 N.D. -0.1 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -3.5 -1.1 N.D. +0.3 +0.3
micoeukaryotes C.elegans, mixed culture-1 -0.7 -1.1 N.D. -1.7 -0.4
nitrogen source Propandiamine (N) -3.3 -0.2 N.D. -0.5 +0.0
nitrogen source Urea (N); with MOPS -3.5 -0.5 N.D. -0.1 +0.2
temperature Growth at 25C -2.2 -1.1 N.D. -0.2 -0.1
pH Growth at pH6 and (C) Trisodium citrate -3.4 -0.1 N.D. +0.1 -0.1
stress Growth with Chloride 500 mM; with MOPS -0.6 -2.5 N.D. -0.3 +0.0
phage P. putida Sci small MOI 0.1 -2.3 -0.5 N.D. +0.0 -0.4
nitrogen source 2,6-diaminopimelic (N) -2.1 +0.1 N.D. -0.2 -0.9
temperature shift Temperature shift 10_to_25 -2.8 -0.5 N.D. -0.1 +0.3
stress R2A with Fusaric 480 ug/mL -2.1 -1.3 N.D. +0.4 +0.0
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -1.2 -2.0 N.D. +0.9 -0.5
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -3.5 +0.6 N.D. +0.3 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -2.7 -0.4 N.D. +0.1 +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 -1.6 -0.9 N.D. +0.6 -0.4
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.8 +0.9 N.D. +0.3 -0.1
carbon source carbon source D-Glucose 55.5 mM -2.4 +0.3 N.D. +0.8 +0.2
pH Growth at pH9 and (C) Trisodium citrate +1.7 -2.0 N.D. -0.2 +0.1
nitrogen source 2,6-diaminopimelic (N) +0.9 +1.4 N.D. -1.1 +0.1
carbon source 5-Hydroxydodecanoate (C) -0.6 -0.6 N.D. +5.3 +0.1
carbon source 5-Hydroxydodecanoate (C) -0.2 +0.2 N.D. +5.3 +0.2
carbon source Delta-Dodecalactone (C) +0.5 -0.9 N.D. +5.5 +0.9
carbon source 3-Hydroxydecanoic (C) +0.6 -0.3 N.D. +6.3 -0.3
carbon source 3-Hydroxydecanoic (C) -0.2 +0.3 N.D. +6.3 +0.0
carbon source Delta-Dodecalactone (C) +0.7 +0.2 N.D. +5.3 +0.6
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