Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0885 and PP_0886 are separated by 380 nucleotidesPP_0886 and PP_0887 are separated by 106 nucleotidesPP_0887 and PP_0888 overlap by 1 nucleotidesPP_0888 and PP_0889 are separated by 51 nucleotides PP_0885: PP_0885 - dipeptide ABC transporter - periplasmic binding protein, at 1,027,114 to 1,028,739 _0885 PP_0886: PP_0886 - conserved exported protein of unknown function, at 1,029,120 to 1,029,836 _0886 PP_0887: PP_0887 - Sensor histidine kinase, at 1,029,943 to 1,031,295 _0887 PP_0888: PP_0888 - Photosynthetic apparatus regulatory protein RegA, at 1,031,295 to 1,031,855 _0888 PP_0889: PP_0889 - conserved exported protein of unknown function, at 1,031,907 to 1,033,043 _0889
Group Condition PP_0885 PP_0886 PP_0887 PP_0888 PP_0889
nitrogen source Propandiamine (N) -0.1 -0.5 -0.7 -4.6 -0.0
nitrogen source Propandiamine (N) -0.0 +0.2 -0.9 -4.4 -0.0
nitrogen source NAG (N); with MOPS +0.3 -1.0 -0.4 -3.9 -0.1
temperature Growth at 30C; with MOPS -0.2 -0.5 -0.1 -4.1 +0.0
carbon source ferulate (C); with MOPS +0.4 -0.7 -0.9 -3.5 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.0 -0.6 -0.9 -3.4 +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant +0.2 -0.1 -1.4 -3.2 -0.2
nitrogen source Putrescine (N) -0.1 -0.1 -0.5 -3.8 -0.1
nitrogen source Ammonium chloride (N) -0.1 +0.0 -0.4 -4.1 +0.1
carbon source Glutaric (C) -0.2 -0.1 -0.7 -3.5 -0.1
carbon source D-Glucose (C); with MOPS -0.1 -0.4 +0.1 -4.1 -0.0
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant -0.2 -0.5 -1.2 -2.6 +0.2
toxin pUC18_phdP1_pSU18T_docP1 +0.1 +0.2 -2.0 -2.5 +0.1
nitrogen source NAG (N); with MOPS +0.0 +0.4 -0.5 -3.9 -0.0
pH Growth at pH7 and (C) D-Glucose -0.2 +0.4 -0.4 -4.0 +0.2
temperature Growth at 25C -0.2 -1.1 -0.2 -2.7 +0.2
carbon source propionate (C) +0.2 -0.2 -0.2 -3.6 +0.0
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=no_outgrowth_LB; Time=7_days -0.2 +0.5 -1.4 -2.7 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.1 +0.7 -0.4 -4.3 +0.3
carbon source Tween 20 (C) +0.0 +0.4 -0.0 -4.1 +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant +0.2 +0.0 -1.0 -3.0 +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant +0.1 +0.6 -0.5 -3.4 -0.1
carbon source acetate (C) +0.2 +0.2 +0.3 -3.9 -0.0
micoeukaryotes Tetrahymena sp., Mixed culture-1 -0.2 +1.1 -1.1 -2.7 -0.1
micoeukaryotes Acanthamoeba sp., muxed culture-2 -0.3 +0.7 -0.2 -3.0 -0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.1 +0.7 -0.2 -3.0 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.1 +0.8 -0.6 -3.0 +0.2
agar plate interaction control Parafilmed volatile agar plate with no fungus +0.2 +0.9 -0.8 -2.6 -0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI +0.2 +1.2 -0.8 -2.7 +0.0
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +0.1 +0.8 +0.5 -3.0 +0.3
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