Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0480 and PP_0481 are separated by 172 nucleotidesPP_0481 and PP_0482 are separated by 163 nucleotidesPP_0482 and PP_0483 are separated by 72 nucleotidesPP_0483 and PP_0484 are separated by 129 nucleotides PP_0480: PP_0480 - 50S ribosomal protein L17, at 563,962 to 564,348 _0480 PP_0481: PP_0481 - Catalase, at 564,521 to 565,960 _0481 PP_0482: PP_0482 - bacterioferritin, at 566,124 to 566,588 _0482 PP_0483: PP_0483 - excinuclease (uvrABC system protein A), at 566,661 to 569,495 _0483 PP_0484: PP_0484 - transporter of an unknown substrate, at 569,625 to 571,019 _0484
Group Condition PP_0480 PP_0481 PP_0482 PP_0483 PP_0484
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X N.D. -0.4 -2.1 N.D. -3.0
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X N.D. -0.4 -1.9 N.D. -2.8
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X N.D. +0.1 -2.0 N.D. -2.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs N.D. +0.3 -0.2 N.D. -2.9
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. -0.1 +0.1 N.D. -2.2
pH Growth at pH6 and (C) D-Glucose N.D. +0.1 +0.1 N.D. -2.1
carbon source D-Glucose (C); with MOPS N.D. -0.2 -0.5 N.D. -1.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs N.D. +0.1 +0.0 N.D. -2.0
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. +0.1 +0.0 N.D. -2.0
temperature shift Temperature shift 30_to_4; with MOPS N.D. -0.1 +0.0 N.D. -1.8
agar plate interaction control Parafilmed volatile agar plate with no fungus N.D. -0.3 +0.0 N.D. -1.4
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. +0.1 -0.2 N.D. -1.6
carbon source 4-Hydroxyvalerate (C) (40mM) N.D. -0.4 +0.1 N.D. -1.3
nitrogen source NAG (N); with MOPS N.D. -0.1 +0.2 N.D. -1.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs N.D. +0.2 -0.1 N.D. -1.7
pH Growth at pH6 and (C) Trisodium citrate N.D. +0.2 +0.2 N.D. -1.9
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. +0.2 -0.0 N.D. -1.7
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. +0.0 +0.2 N.D. -1.7
nitrogen source NAG (N); with MOPS N.D. -0.4 +0.7 N.D. -1.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs N.D. +0.3 -0.4 N.D. -1.0
carbon source Levulinic Acid (C) N.D. +0.0 +0.6 N.D. -1.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs N.D. +0.3 +0.4 N.D. -1.2
carbon source Levulinic Acid (C) N.D. +0.3 +0.5 N.D. -1.2
carbon source 3-methyl-1-butanol (C) N.D. -0.5 +1.2 N.D. -0.7
carbon source 3-methyl-1-butanol 0.1 vol% (C) N.D. -0.9 +1.1 N.D. -0.1
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days N.D. +0.3 +0.6 N.D. -0.7
carbon source 3-methyl-1-butanol 0.25 vol% (C) N.D. +0.5 +0.6 N.D. -0.7
stress MOPS minimal media_Glucose20mM with Chloramphenicol 25 .g/mL N.D. -0.2 -0.4 N.D. +1.4
stress MOPS minimal media_Glucose20mM with Chloramphenicol 25 .g/mL N.D. -0.3 +0.2 N.D. +2.0
stress pinene 10 vol% N.D. +1.6 -0.1 N.D. +0.8
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