Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1906 and PP_1907 are separated by 3 nucleotidesPP_1907 and PP_1908 are separated by 6 nucleotidesPP_1908 and PP_1909 are separated by 209 nucleotidesPP_1909 and PP_1910 are separated by 60 nucleotides PP_1906: PP_1906 - ribosomal large subunit pseudouridine synthase C, at 2,151,317 to 2,152,273 _1906 PP_1907: PP_1907 - Hydrolase, haloacid dehalogenase-like family, at 2,152,277 to 2,152,951 _1907 PP_1908: PP_1908 - putative Peptidase, at 2,152,958 to 2,153,947 _1908 PP_1909: PP_1909 - putative septum formation protein, at 2,154,157 to 2,154,771 _1909 PP_1910: PP_1910 - conserved protein of unknown function, at 2,154,832 to 2,155,359 _1910
Group Condition PP_1906 PP_1907 PP_1908 PP_1909 PP_1910
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -1.9 -0.8 -0.1 -1.5 N.D.
phage P. putida Sci Big MOI 0.1 -1.9 -1.0 -0.4 -0.7 N.D.
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -3.0 -0.1 -0.1 -0.6 N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -2.5 -0.3 -0.2 -0.7 N.D.
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.8 +0.0 +0.2 -0.9 N.D.
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -2.0 -0.5 -0.1 -0.9 N.D.
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.9 +0.1 +0.2 -0.8 N.D.
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -2.4 +0.2 -0.4 -0.7 N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days -2.4 +0.2 -0.1 -0.9 N.D.
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.1 -0.1 -0.0 -1.0 N.D.
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -2.1 -0.0 -0.2 -0.8 N.D.
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -1.5 +0.1 -0.3 -1.4 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -3.2 +0.4 +0.1 -0.3 N.D.
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.9 +0.0 -0.1 -0.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -3.1 -0.2 -0.1 +0.4 N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -2.6 -0.1 -0.1 -0.2 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -1.5 -0.9 +0.1 -0.6 N.D.
nitrogen source no extra (N); with MOPS -3.3 +0.1 -0.2 +0.4 N.D.
phage P. putida Missley MOI 0.1 -2.9 +0.2 -0.1 -0.1 N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -2.2 +0.0 -0.1 -0.5 N.D.
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -2.6 -0.3 -0.1 +0.2 N.D.
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -1.8 -0.9 +0.2 -0.2 N.D.
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 +0.2 -0.1 -1.1 N.D.
nitrogen source nitrate (N) -1.5 +0.4 -0.4 -0.5 N.D.
carbon source 4-Hydroxyvalerate (C) (40mM) -1.8 -0.6 +0.3 +0.3 N.D.
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant -0.5 +0.6 -0.2 -1.5 N.D.
nitrogen source nitrite (N) -2.0 +0.3 -0.1 +0.5 N.D.
pH pH 4 -2.3 +0.2 +0.1 +0.7 N.D.
pH Growth at pH6 and (C) D-Glucose -2.3 +0.4 -0.0 +0.6 N.D.
carbon source ferulate (C); with MOPS +0.2 +0.6 +0.5 +1.8 N.D.
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