Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4814 and PP_4815 are separated by 6 nucleotidesPP_4815 and PP_4816 overlap by 4 nucleotidesPP_4816 and PP_4817 are separated by 137 nucleotidesPP_4817 and PP_4818 are separated by 3 nucleotides PP_4814: PP_4814 - ATP-dependent protease La domain protein, at 5,477,199 to 5,477,792 _4814 PP_4815: PP_4815 - putative Membrane protein, at 5,477,799 to 5,478,515 _4815 PP_4816: PP_4816 - conserved protein of unknown function, at 5,478,512 to 5,478,880 _4816 PP_4817: PP_4817 - MaoC domain protein, at 5,479,018 to 5,479,473 _4817 PP_4818: PP_4818 - ribosomal protein L11 methyltransferase, at 5,479,477 to 5,480,469 _4818
Group Condition PP_4814 PP_4815 PP_4816 PP_4817 PP_4818
carbon source Delta-Undecalactone (C) -0.8 -0.1 +0.1 -6.5 -0.0
carbon source 5-Hydroxydodecanoate (C) -0.3 -0.1 -0.1 -5.6 -0.6
nitrogen source NAG (N); with MOPS -6.1 +0.1 -0.3 -0.7 +0.6
carbon source Delta-Dodecalactone (C) -0.9 +0.2 -0.0 -5.1 -0.1
carbon source 5-Hydroxydodecanoate (C) -0.5 -0.1 +0.1 -4.7 +0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -4.8 -0.3 +0.0 -0.3 +0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -2.3 +0.0 -0.0 -0.8 -0.9
carbon source Delta-Dodecalactone (C) -0.3 +0.3 +0.0 -4.1 +0.2
carbon source Delta-Undecalactone (C) -0.5 +0.2 +0.0 -3.5 -0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -1.7 -1.0 -0.9 +0.4 -0.4
carbon source Delta-Decalactone (C) -1.3 +0.2 -0.1 -2.0 +0.1
carbon source 3-Hydroxydecanoic (C) -1.3 -0.0 +0.1 -2.3 +0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -2.3 -0.1 -0.3 +0.3 -0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.1 -0.2 -0.1 -3.0 +0.6
carbon source Delta-Decalactone (C) -0.8 +0.5 -0.2 -2.5 +0.5
carbon source 3-Hydroxydecanoic (C) +0.1 -0.3 +0.5 -3.0 +0.4
nitrogen source Urea (N) -1.5 +0.3 +0.3 +0.1 -1.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.1 +0.3 -0.3 -0.2 +0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -0.6 +0.4 +0.1 +0.8 -2.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -1.2 -0.5 -0.6 +1.1 -0.5
dilutelb LB 0.1x with 55.5 mM D-Glucose +0.8 -0.0 +0.2 -0.4 -1.9
micoeukaryotes Tetrahymena sp., Mixed culture-2 -1.2 +0.8 +0.3 -0.4 -0.7
nitrogen source L-Leucine (N) -2.3 +0.6 +0.1 +0.7 -0.1
carbon source ferulate (C); with MOPS +1.7 -0.2 +0.1 -1.8 -0.6
nitrogen source L-Leucine (N) -1.9 +0.6 +0.0 +0.7 +0.1
carbon source L-Leucine (C) -3.8 +1.7 +0.4 +1.2 +0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.5 -0.5 -0.7 +0.5 +1.3
pH pH 9 +0.6 -0.3 +0.1 +1.0 -1.4
carbon source L-Leucine (C) -2.0 +1.5 +0.3 +1.5 -0.2
carbon source L-Leucine (C) -1.4 +2.0 +0.3 +1.1 +0.4
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