Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4328 and PP_4329 overlap by 4 nucleotidesPP_4329 and PP_4330 are separated by 98 nucleotidesPP_4330 and PP_4331 are separated by 107 nucleotidesPP_4331 and PP_4332 are separated by 1 nucleotides PP_4328: PP_4328 - conserved protein of unknown function, at 4,917,602 to 4,919,158 _4328 PP_4329: PP_4329 - FlhB domain protein, at 4,919,155 to 4,919,493 _4329 PP_4330: PP_4330 - putative toxin-related protein, at 4,919,592 to 4,922,273 _4330 PP_4331: PP_4331 - conserved protein of unknown function, at 4,922,381 to 4,922,776 _4331 PP_4332: PP_4332 - Chemotaxis protein CheW, at 4,922,778 to 4,923,257 _4332
Group Condition PP_4328 PP_4329 PP_4330 PP_4331 PP_4332
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 -1.6 +0.1 -2.2 -4.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.6 -0.1 +0.3 -0.7 -3.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.8 -0.4 -0.1 -0.1 -2.7
carbon source ferulate (C); with MOPS -1.1 -2.2 +0.0 -0.2 -0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.2 -0.4 -0.0 -0.7 -2.8
phage P. putida Missley MOI 0.1 -0.2 -0.9 -0.3 +0.0 -2.1
biofilm mediium pdms biofilm mediium PDMS; 24 hours +0.2 +0.4 -0.0 -1.7 -2.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs -0.6 -1.1 +0.0 -0.3 -1.5
nitrogen source nitrogen source nitrite 0.5mM +0.9 -4.4 +0.0 +0.4 -0.3
phage P. putida Sci small MOI 0.1 -0.2 -1.7 -0.5 -0.4 -0.5
carbon source benzoic (C) -0.3 -1.3 +0.1 -0.8 -0.9
biofilm mediium pdms biofilm mediium PDMS; 24 hours +0.2 -0.5 -0.1 -1.1 -1.8
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.9 -0.2 +0.1 -1.1 -1.1
pH Growth at pH9 and (C) Trisodium citrate -0.7 -2.1 +0.1 -0.2 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.1 +0.1 +0.1 -0.3 -3.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.2 -0.7 +0.1 -1.2 -1.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.2 +0.8 +0.1 -0.8 -3.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -1.3 -0.2 +0.2 -0.4 -1.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs +0.3 -0.2 -0.0 -1.0 -1.9
nitrogen source NAG (N) -0.6 -0.9 -0.0 +0.3 -1.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.7 -0.1 +0.0 -0.9 -2.4
pH Growth at pH7 and (C) Trisodium citrate +0.4 -2.7 +0.0 -0.6 +0.5
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -1.0 +0.6 +0.1 -0.3 -1.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.1 +1.0 +0.0 -0.6 -2.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -1.6 +0.6 +0.1 +0.3 -0.8
micoeukaryotes Tetrahymena sp., Mixed culture-2 -0.1 +1.8 +0.4 +0.4 -1.3
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.9 +1.6 +0.1 +1.4 -0.4
stress 3-methyl-1-butanol 0.4 vol% +0.0 -0.7 -0.1 +2.0 +2.2
stress 1-Pentanol 0.3 vol% -0.5 +1.0 -0.0 +1.7 +1.5
stress Geraniol 1 vol% -0.0 -0.4 -0.0 +3.0 +2.0
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