Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2983 and PP_2984 overlap by 20 nucleotidesPP_2984 and PP_5545 are separated by 28 nucleotidesPP_5545 and PP_5546 are separated by 214 nucleotidesPP_5546 and PP_5547 are separated by 0 nucleotides PP_2983: PP_2983 - conserved protein of unknown function, at 3,381,355 to 3,382,011 _2983 PP_2984: PP_2984 - conserved protein of unknown function, at 3,381,992 to 3,382,471 _2984 PP_5545: PP_5545 - protein of unknown function, at 3,382,500 to 3,382,667 _5545 PP_5546: PP_5546 - conserved protein of unknown function, at 3,382,882 to 3,383,193 _5546 PP_5547: PP_5547 - protein of unknown function, at 3,383,194 to 3,383,496 _5547
Group Condition PP_2983 PP_2984 PP_5545 PP_5546 PP_5547
carbon source 3-methyl-1-butanol 0.25 vol% (C) -0.2 N.D. -0.0 -6.2 -0.1
temperature shift Temperature shift 30_to_34; with MOPS +0.2 N.D. -0.3 -3.4 -0.2
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.3 N.D. -0.4 -2.3 -0.2
pH pH 4 -0.7 N.D. -0.4 -1.4 -0.2
nitrogen source no extra (N) -0.3 N.D. -0.2 -1.8 -0.3
carbon source carbon source D-Xylose 66.6 mM and Glycerol 108.6 mM -0.1 N.D. -0.3 -1.6 -0.5
nitrogen source D-2-Aminobutyric (N) -0.5 N.D. -0.8 -1.6 +0.4
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -0.1 N.D. -0.5 -1.6 -0.3
lb outgrowth control more dilute start LB outgrowth control more dilute start -0.4 N.D. -0.1 -1.8 -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 +0.2 N.D. -0.6 -1.7 -0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs +0.0 N.D. -0.3 -2.4 +0.2
carbon source carbon source D-Glucose 55.5 mM -0.1 N.D. -0.5 -0.4 -1.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant +0.4 N.D. -0.4 -3.0 +0.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 N.D. -0.8 -1.9 +0.1
stress R2A with Fusaric 480 ug/mL -0.1 N.D. +0.1 -2.3 +0.2
stress R2A with Fusaric 120 ug/mL -0.1 N.D. +0.1 -1.9 -0.3
carbon source D-Glucose (C) -0.0 N.D. -0.3 -2.0 +0.2
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.3 N.D. +0.5 -2.9 +0.0
biofilm mediium pdms biofilm mediium PDMS; 5.5 hours -0.6 N.D. +0.3 -1.3 -0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.2 N.D. +0.3 -2.2 +0.0
no phage control Time6-nophage +0.0 N.D. +0.4 -1.2 -0.6
pH Growth at pH7 and (C) Trisodium citrate -0.3 N.D. -0.7 -0.8 +0.5
phage P. putida Sci Big MOI 0.1 +0.6 N.D. -0.6 -1.5 +0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 N.D. +0.4 -2.0 +0.7
nitrogen source 2,6-diaminopimelic (N) +0.4 N.D. -0.2 +0.8 -1.3
phage PUT 8 MOI 1 +0.2 N.D. +0.5 -1.5 +0.6
carbon source Myristic (C) +0.1 N.D. -0.9 +1.1 +0.3
pH Growth at pH6 and (C) D-Glucose +0.6 N.D. -0.5 +1.0 +0.7
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI +0.1 N.D. +0.5 +1.3 +0.5
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -0.2 N.D. -0.2 +3.1 +0.2
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