Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2423 and PP_2424 are separated by 158 nucleotidesPP_2424 and PP_2425 are separated by 63 nucleotidesPP_2425 and PP_2426 are separated by 181 nucleotidesPP_2426 and PP_5521 are separated by 109 nucleotides PP_2423: PP_2423 - Fe(2+)/alpha-ketoglutarate-dependent dioxygenase, at 2,770,243 to 2,771,142 _2423 PP_2424: PP_2424 - putative 2'-5' RNA ligase, at 2,771,301 to 2,771,846 _2424 PP_2425: PP_2425 - putative transcriptional regulator, AraC family, at 2,771,910 to 2,772,815 _2425 PP_2426: PP_2426 - coniferyl alcohol dehydrogenase, at 2,772,997 to 2,774,049 _2426 PP_5521: PP_5521 - protein of unknown function, at 2,774,159 to 2,775,511 _5521
Group Condition PP_2423 PP_2424 PP_2425 PP_2426 PP_5521
nitrogen source Propandiamine (N) -0.6 -0.6 -1.8 -2.4 +0.2
phage P. putida Missley MOI 0.1 -0.7 -1.1 -0.1 -0.1 -0.9
carbon source L-Leucine (C) +0.0 -0.5 -0.8 -0.8 -0.3
nitrogen source Propandiamine (N) -0.1 -0.2 -0.5 -1.0 -0.0
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.2 -0.5 -0.2 -1.0 -0.2
temperature Growth at 30C; with MOPS -0.3 -0.6 -0.7 +0.4 -0.4
carbon source 4-Aminobutyric 10 mM (C) -0.2 +0.2 +0.0 -1.5 +0.1
phage P. putida Sci small MOI 0.1 +0.3 +0.0 -0.4 -1.0 -0.2
nitrogen source nitrogen source nitrite 1mM +0.3 -0.3 -0.2 -0.7 -0.1
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.2 -0.3 +0.4 -0.6 -0.4
pH Growth at pH7 and (C) D-Glucose -0.1 -0.8 -0.3 +0.4 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -0.2 +0.1 +0.0 -1.1 +0.3
phage P. putida Sci small MOI 0.1 -0.3 +0.3 -1.1 +0.5 -0.3
pH Growth at pH6 and (C) D-Glucose +0.3 -0.7 -0.4 +0.4 -0.5
temperature shift Temperature shift 30_to_25; with MOPS +0.4 -0.4 -0.8 +0.1 -0.0
carbon source D-Glucose (C) with 20AA_mix_minus_Cys +0.1 +0.3 -0.4 -0.5 -0.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +0.4 +0.1 +0.0 -0.9 -0.2
no stress control Growth with no stress +0.3 +0.1 -0.9 -0.2 +0.0
phage P. putida Sci Big MOI 0.1 -0.7 +0.2 +0.4 -0.1 -0.1
carbon source 4-Hydroxyvalerate (C) (40mM) +0.5 -0.4 -0.3 -0.5 +0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs -0.2 +0.2 -0.2 -0.5 +0.5
carbon source Nonanoic (C) +0.3 -0.2 +0.6 -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=144_hrs -0.2 +0.4 +0.3 -0.6 +0.1
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.1 +0.7 +0.3 -0.4 -0.3
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.3 +0.4 +0.3 -0.6 -0.0
nitrogen source 2,6-diaminopimelic (N) +0.0 +0.6 -0.5 +0.5 -0.1
nitrogen source D-2-Aminobutyric (N) +0.4 +0.7 +0.2 -0.2 -0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.3 +0.2 +0.5 +0.3 +0.3
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.2 +0.2 -0.1 +1.0 -0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant +0.3 +0.3 +0.4 +0.2 +0.4
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