Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4036 and PP_4037 are separated by 135 nucleotidesPP_4037 and PP_4038 are separated by 0 nucleotidesPP_4038 and PP_4039 are separated by 180 nucleotidesPP_4039 and PP_4040 are separated by 97 nucleotides PP_4036: PP_4036 - D-hydantoinase/dihydropyrimidinase, at 4,547,689 to 4,549,128 _4036 PP_4037: PP_4037 - NADP-dependent dihydropyrimidine dehydrogenase subunit, at 4,549,264 to 4,550,631 _4037 PP_4038: PP_4038 - Dihydropyrimidine dehydrogenase (NADP(+)) (EC 1.3.1.2) (from data), at 4,550,632 to 4,551,906 _4038 PP_4039: PP_4039 - transcriptional regulator, TetR family, at 4,552,087 to 4,552,608 _4039 PP_4040: PP_4040 - putative enzyme of the glyoxalase family, at 4,552,706 to 4,553,062 _4040
Group Condition PP_4036 PP_4037 PP_4038 PP_4039 PP_4040
nitrogen source Uracil (N) -3.0 -3.3 -3.0 -0.2 -0.1
nitrogen source Uracil (N) -2.6 -3.1 -4.1 +0.1 +0.2
nitrogen source 3-aminobutyric (N) -1.8 -1.5 -2.3 +0.1 -0.0
nitrogen source 3-aminobutyric (N) -1.8 -1.7 -1.7 +0.1 +0.2
nitrogen source Cytosine (N) -0.4 -0.7 -0.4 -0.1 -0.1
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.7 -0.1 +0.3 -0.3 -0.6
nitrogen source Cytosine (N) -0.6 -0.6 -0.4 +0.1 -0.0
nitrogen source Propandiamine (N) -0.9 -0.3 -0.4 +0.2 -0.1
nitrogen source DL-3-Aminoisobutyric (N) -0.8 -0.6 -0.3 -0.1 +0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.3 -0.0 -0.7 -0.1 -0.7
nitrogen source 2,6-diaminopimelic (N) -0.2 +0.2 -1.2 +0.5 -0.0
nitrogen source Hydantoin (N) -1.4 +0.2 +0.0 +0.1 +0.4
nitrogen source Ammonium chloride (N) +0.4 +0.1 -0.6 -0.2 -0.3
nitrogen source Hydantoin (N) -1.0 -0.1 +0.4 +0.1 +0.1
nitrogen source Ammonium chloride (N) +0.3 +0.2 -0.4 +0.2 -0.6
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs +0.1 +0.2 +0.5 -0.3 -0.8
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI +0.4 +0.2 -0.7 -0.3 +0.4
pH Growth at pH7 and (C) Trisodium citrate +0.6 +0.2 -0.8 -0.1 +0.1
temperature shift Temperature shift 30_to_25; with MOPS +0.3 -0.2 +0.3 +0.3 -0.5
pH Growth at pH7 and (C) Trisodium citrate +0.3 +0.3 +0.5 -0.2 -0.6
carbon source 3-Hydroxydecanoic (C) +0.4 +0.1 +0.8 -0.1 -0.8
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days +0.3 +0.3 +0.3 +0.2 -0.5
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.3 +0.1 +0.7 -0.5 +0.1
nitrogen source D-2-Aminobutyric (N) +0.3 +0.5 -0.3 -0.1 +0.6
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.2 +0.4 +0.4 +0.5 -0.2
micoeukaryotes Tetrahymena sp., Mixed culture-2 +0.6 +0.2 +0.1 -0.2 +0.5
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.0 +0.1 +0.2 +0.2 +1.2
carbon source D-Mannose (C) +0.7 +0.6 +0.4 +0.0 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 +0.7 +1.2 +0.2 -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 +0.4 +1.1 +0.9 +0.4
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