Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5029 and PP_5030 are separated by 10 nucleotidesPP_5030 and PP_5031 are separated by 15 nucleotidesPP_5031 and PP_5032 are separated by 156 nucleotidesPP_5032 and PP_5033 are separated by 108 nucleotides PP_5029: PP_5029 - N-formylglutamate deformylase, at 5,730,536 to 5,731,339 _5029 PP_5030: PP_5030 - Imidazolonepropionase, at 5,731,350 to 5,732,555 _5030 PP_5031: PP_5031 - proline (histidine) APC transporter, at 5,732,571 to 5,733,974 _5031 PP_5032: PP_5032 - Histidine ammonia-lyase, at 5,734,131 to 5,735,663 _5032 PP_5033: PP_5033 - Urocanate hydratase, at 5,735,772 to 5,737,445 _5033
Group Condition PP_5029 PP_5030 PP_5031 PP_5032 PP_5033
carbon source L-Histidine (C) -5.8 -4.9 -4.5 -4.7 -5.6
nitrogen source L-Histidine (N) -3.9 -2.6 -0.6 -0.8 -0.7
nitrogen source L-Histidine (N) -4.0 -2.5 -0.5 -0.5 -0.7
carbon source carbon source 2-Deoxy-D-glucose 100 mM -0.3 -0.9 -0.2 -0.3 -0.1
temperature shift Temperature shift 30_to_21; with MOPS -0.0 -2.0 +0.2 +0.3 -0.1
carbon source carbon source 4-vinylphenol 0.01 mM -0.2 -0.8 +0.2 -0.3 -0.4
temperature Growth at 25C -0.4 +0.2 -0.1 -0.9 -0.1
carbon source carbon source D-Glucose 55.5 mM -0.2 -1.1 +0.1 +0.2 -0.2
micoeukaryotes C.elegans, mixed culture-1 -0.8 -0.5 +0.1 -0.2 +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -0.4 -1.3 -0.2 +0.5 +0.4
micoeukaryotes Acanthamoeba sp., muxed culture-2 -0.7 +0.3 -0.0 -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 -0.5 -0.5 -0.2 +0.2 +0.2
pH Growth at pH6 and (C) Trisodium citrate +0.2 -0.6 +0.2 -0.3 -0.3
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.4 +0.5 -0.2 -0.7 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -0.5 +0.3 -0.1 -0.6 +0.2
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.3 -0.5 +0.5 +0.2 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -0.5 -0.2 +0.2 +0.5 +0.2
pH Growth at pH6 and (C) D-Glucose +0.1 +0.3 -0.1 +0.8 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.3 +0.8 +0.4 +0.5 -0.2
phage P. putida Sci small MOI 0.1 +0.2 -0.1 +0.2 +0.8 +0.3
carbon source D-Glucose (C); with MOPS +0.0 +0.6 +0.6 +0.7 -0.2
nitrogen source Ammonium chloride and TNT (N) +0.6 +0.3 +0.0 +0.4 +0.3
nitrogen source Ammonium chloride and TNT (N) +0.8 +0.5 -0.0 +0.2 +0.2
phage P. putida Sci small MOI 0.1 +0.1 +0.5 +0.3 +0.6 +0.4
nitrogen source Ammonium chloride and TNT (N) +0.8 +0.2 +0.0 +0.5 +0.4
nitrogen source L-Threonine (N) +0.2 +0.4 +0.2 -0.2 +1.3
phage P. putida Missley MOI 0.1 +0.1 +0.9 +0.3 +0.2 +0.5
phage P. putida PUT 7 MOI 1 +0.2 +0.7 +0.3 +0.3 +0.5
nitrogen source Ammonium chloride and TNT (N) +0.8 +0.4 +0.2 +0.6 +0.3
nitrogen source L-Threonine (N) +0.1 +0.4 +0.3 +0.2 +1.3
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