Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_3163 and PP_3164 are separated by 134 nucleotidesPP_3164 and PP_3165 are separated by 57 nucleotidesPP_3165 and PP_3166 are separated by 29 nucleotidesPP_3166 and PP_3167 are separated by 74 nucleotides PP_3163: PP_3163 - benzoate 1,2-dioxygenase electron transfer component, at 3,583,843 to 3,584,853 _3163 PP_3164: PP_3164 - 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase, at 3,584,988 to 3,585,749 _3164 PP_3165: PP_3165 - benzoate MFS transporter, at 3,585,807 to 3,587,135 _3165 PP_3166: PP_3166 - catechol 1,2-dioxygenase, at 3,587,165 to 3,588,079 _3166 PP_3167: PP_3167 - benzoate transport protein, at 3,588,154 to 3,589,425 _3167
Group Condition PP_3163 PP_3164 PP_3165 PP_3166 PP_3167
carbon source benzoic (C) -3.7 -7.9 -0.1 -0.5 +0.0
carbon source benzoic (C) -3.5 -7.8 -0.0 -0.4 +0.1
carbon source benzoic (C) -0.7 -3.8 -0.9 -1.0 +0.2
phage P. putida Missley MOI 0.1 +0.4 -5.8 +0.7 +0.2 +0.6
temperature Growth at 30C; with MOPS -0.3 -1.9 -0.2 -0.0 -0.4
pH Growth at pH6 and (C) D-Glucose +0.2 -2.2 -0.1 +0.0 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs -0.1 -0.5 -0.8 -0.5 -0.3
nitrogen source Urea (N); with MOPS +0.1 -1.8 +0.2 -0.1 -0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs +0.4 -1.9 -0.1 -0.1 -0.2
reactor 24hr timepoint of 1L M9/1% dextrose CONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat, feed rate 1g/hr dextrose, set to 30% DO. +0.2 -1.8 -0.2 -0.3 +0.0
pH Growth at pH6 and (C) D-Glucose -0.1 -0.6 -0.4 -0.2 -0.7
nitrogen source NAG (N); with MOPS +0.4 -1.6 +0.1 +0.0 -1.0
temperature shift Temperature shift 10_to_34; with MOPS -0.1 -1.6 -0.1 +0.1 -0.3
pH Growth at pH6 and (C) Trisodium citrate -0.2 -1.8 -0.0 +0.1 -0.1
carbon source D-Glucose (C) +0.0 -1.9 -0.1 -0.2 +0.2
carbon source D-Lysine 10 mM (C) +0.1 -1.2 -0.4 -0.2 -0.2
temperature Growth at 25C -0.7 -0.8 -0.2 -0.3 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.1 -1.2 -0.6 -0.2 +0.1
carbon source D-Glucose (C); with MOPS +0.2 -0.9 -1.0 -0.1 +0.0
carbon source 1,3-Butandiol (C) +0.2 -1.6 -0.5 -0.2 +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.3 -1.0 -0.1 -0.5 -0.2
nitrogen source Urea (N) +0.1 -1.3 +0.2 -0.4 +0.0
temperature shift Temperature shift 30_to_21; with MOPS +0.1 -1.6 -0.0 -0.2 +0.3
temperature shift Temperature shift 30_to_34; with MOPS +0.2 -1.5 -0.1 +0.3 +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 +0.6 -1.2 +0.6 -0.2 -0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.1 +0.9 -0.5 -0.4 +0.1
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.1 +1.3 -0.1 -0.5 -0.2
nitrogen source D-2-Aminobutyric (N) +0.2 +0.8 +0.3 +0.2 -0.7
phage P. putida Sci small MOI 0.1 +0.5 +0.7 +0.3 +0.6 -0.8
stress R2A with Polymyxin B sulfate 0.002 mg/ml +0.1 +1.1 +0.3 -0.4 +0.4
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