Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4008 and PP_4009 are separated by 30 nucleotidesPP_4009 and PP_4010 are separated by 230 nucleotidesPP_4010 and PP_4011 are separated by 71 nucleotidesPP_4011 and PP_4012 are separated by 414 nucleotides PP_4008: PP_4008 - ATP-dependent serine protease, at 4,517,249 to 4,519,519 _4008 PP_4009: PP_4009 - ATP-dependent Clp protease adapter protein ClpS, at 4,519,550 to 4,519,912 _4009 PP_4010: PP_4010 - DNA replication inhibitor, at 4,520,143 to 4,520,409 _4010 PP_4011: PP_4011 - isocitrate dehydrogenase, NADP(+)-specific, at 4,520,481 to 4,521,737 _4011 PP_4012: PP_4012 - isocitrate dehydrogenase, at 4,522,152 to 4,524,377 _4012
Group Condition PP_4008 PP_4009 PP_4010 PP_4011 PP_4012
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -5.1 -1.2 -1.0 -0.2 N.D.
carbon source Soil Extract with D-Glucose 10 mM; 30C; then outgrowth in LB -4.8 -2.0 -0.3 +0.0 N.D.
carbon source Soil Extract with D-Glucose 10 mM; 30C; then outgrowth in LB -4.8 -1.7 -0.6 +0.2 N.D.
carbon source 4-Hydroxyvalerate (C) (40mM) -3.7 -1.6 -1.4 +0.3 N.D.
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.7 -2.8 -0.6 -0.0 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -5.3 -0.1 -0.3 -0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -2.7 -1.5 -0.9 -0.5 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -3.2 -1.6 -0.4 -0.3 N.D.
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 -2.3 -2.9 +0.2 -0.5 N.D.
micoeukaryotes Acanthamoeba sp., muxed culture-1 -4.4 -0.8 -0.1 -0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -3.9 -0.7 -0.7 -0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -2.9 -1.5 -0.5 -0.4 N.D.
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.7 -2.8 +0.0 +0.2 N.D.
carbon source M9 minimal media_noCarbon with Trisodium citrate 10 mM; 30C; then outgrowth in LB -4.3 -0.3 -0.2 -0.3 N.D.
carbon source 4-Hydroxyvalerate (C) (40mM) -2.9 -1.1 -1.4 +0.4 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -3.1 -1.5 -0.3 +0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -3.0 -1.2 -0.6 -0.0 N.D.
carbon source Levulinic Acid (C) -2.7 -1.3 -0.6 -0.1 N.D.
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -1.6 -3.2 +0.0 +0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -3.6 -0.3 -0.5 -0.2 N.D.
micoeukaryotes Acanthamoeba sp., muxed culture-2 -3.9 -1.8 +1.0 +0.2 N.D.
micoeukaryotes C.elegans, mixed culture-1 -3.6 -2.1 +1.3 +0.0 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -2.6 -1.5 -0.4 +0.2 N.D.
micoeukaryotes Dictyostellum sp.mixed culture-1 -3.6 -1.5 +1.0 +0.0 N.D.
micoeukaryotes Dictyostellum sp.mixed culture-2 -3.5 -1.2 +0.8 +0.1 N.D.
micoeukaryotes C.elegans, mixed culture-2 -3.7 -0.9 +1.3 +0.2 N.D.
carbon source Delta-Nonalactone (C) -2.7 -0.1 -0.9 +0.9 N.D.
nitrogen source D-2-Aminobutyric (N) -2.4 +1.5 +0.6 +1.1 N.D.
nitrogen source D-2-Aminobutyric (N) -2.2 +2.2 +0.6 +0.9 N.D.
nitrogen source L-Methionine (N) +3.2 -0.1 -0.9 +0.6 N.D.
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