Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5042 and PP_5043 are separated by 98 nucleotidesPP_5043 and PP_5044 are separated by 185 nucleotidesPP_5044 and PP_5045 are separated by 128 nucleotidesPP_5045 and PP_5046 are separated by 470 nucleotides PP_5042: PP_5042 - conserved protein of unknown function, at 5,746,031 to 5,746,453 _5042 PP_5043: PP_5043 - putative PhoPQ-activated pathogenicity-related protein, at 5,746,552 to 5,747,973 _5043 PP_5044: PP_5044 - ribosome associated GTPase, at 5,748,159 to 5,749,979 _5044 PP_5045: PP_5045 - tRNA sulfurtransferase, at 5,750,108 to 5,751,562 _5045 PP_5046: PP_5046 - glutamine synthetase, at 5,752,033 to 5,753,439 _5046
Group Condition PP_5042 PP_5043 PP_5044 PP_5045 PP_5046
micoeukaryotes Acanthamoeba sp., muxed culture-1 -0.3 +0.0 N.D. -3.4 N.D.
temperature shift Temperature shift 30_to_25; with MOPS -1.9 -0.0 N.D. -0.9 N.D.
stress Growth with Chloride 500 mM; with MOPS -0.7 +0.1 N.D. -2.1 N.D.
phage PUT8 MOI 0.1 -0.6 +0.1 N.D. -2.2 N.D.
nitrogen source DL-2-Aminobutyric (N) -0.6 +0.2 N.D. -2.1 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -0.0 -0.2 N.D. -2.3 N.D.
stress Geraniol 1 vol% +0.1 +0.1 N.D. -2.6 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 +0.5 +0.2 N.D. -3.1 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 -0.4 +0.4 N.D. -2.3 N.D.
carbon source Vanillin (C) -0.3 +0.1 N.D. -2.0 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.2 +0.1 N.D. -2.0 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 -0.6 +0.2 N.D. -1.7 N.D.
carbon source Soil Extract with D-Glucose 10 mM; 30C; then outgrowth in LB -0.7 +0.2 N.D. -1.5 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.1 +0.2 N.D. -1.9 N.D.
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.1 +0.2 N.D. -2.0 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs +0.2 +0.2 N.D. -2.1 N.D.
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.5 +0.0 N.D. -2.1 N.D.
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +0.3 +0.1 N.D. -1.9 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 +0.6 +0.3 N.D. -2.1 N.D.
nitrogen source D-2-Aminobutyric (N) +1.0 +0.1 N.D. -2.2 N.D.
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.5 +0.1 N.D. -1.7 N.D.
nitrogen source L-Methionine (N) -0.3 +0.0 N.D. +2.2 N.D.
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. +0.0 -0.2 N.D. +2.1 N.D.
nitrogen source Propiolactam (N) +0.5 -0.2 N.D. +1.7 N.D.
carbon source Delta-Dodecalactone (C) -0.2 +0.1 N.D. +2.2 N.D.
carbon source Delta-Dodecalactone (C) +0.1 +0.1 N.D. +2.0 N.D.
nitrogen source Propiolactam (N) +0.4 -0.1 N.D. +1.9 N.D.
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v oleyl alcohol overlay +0.2 +0.0 N.D. +2.1 N.D.
nitrogen source L-Methionine (N) +0.0 -0.0 N.D. +2.5 N.D.
carbon source Delta-Decalactone (C) +0.5 +0.3 N.D. +1.9 N.D.
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