Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_3565 and PP_3566 are separated by 48 nucleotidesPP_3566 and PP_3567 are separated by 106 nucleotidesPP_3567 and PP_3568 are separated by 117 nucleotidesPP_3568 and PP_3569 are separated by 262 nucleotides PP_3565: PP_3565 - Transporter, LysE family, at 4,043,848 to 4,044,459 _3565 PP_3566: PP_3566 - Major facilitator family transporter, at 4,044,508 to 4,045,707 _3566 PP_3567: PP_3567 - Transcriptional regulator, LysR family, at 4,045,814 to 4,046,719 _3567 PP_3568: PP_3568 - conserved protein of unknown function, at 4,046,837 to 4,047,187 _3568 PP_3569: PP_3569 - quinate dehydrogenase (quinone), at 4,047,450 to 4,049,867 _3569
Group Condition PP_3565 PP_3566 PP_3567 PP_3568 PP_3569
nitrogen source nitrate (N) -0.8 -0.4 -0.5 N.D. -0.2
phage P. putida PUT 7 MOI 1 -0.6 -0.2 -0.8 N.D. +0.1
phage P. putida South MOI 10 -0.4 -0.3 -0.5 N.D. -0.1
carbon source acetate (C) -0.2 -0.2 -0.6 N.D. -0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant -0.3 -0.1 -0.4 N.D. -0.3
carbon source Quinic Acid (C) -0.2 -0.2 -0.3 N.D. -0.4
stress Growth with Chloride 500 mM; with MOPS -0.1 -0.3 -0.5 N.D. -0.3
pH Growth at pH6 and (C) D-Glucose -0.6 -0.2 -0.3 N.D. -0.1
nitrogen source nitrate (N) -0.5 +0.1 -0.3 N.D. -0.3
carbon source ferulate (C); with MOPS -0.4 -0.5 +0.2 N.D. -0.3
nitrogen source Propiolactam (N) -0.7 -0.0 -0.2 N.D. +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant -0.4 +0.2 -0.6 N.D. +0.0
carbon source Valeric (C) -0.6 -0.5 +0.1 N.D. +0.3
carbon source ferulate (C); with MOPS +0.3 -0.1 -0.6 N.D. -0.2
temperature shift Temperature shift 30_to_21; with MOPS +0.2 -0.1 -0.5 N.D. -0.3
nitrogen source Urea (N) -0.7 -0.2 +0.3 N.D. +0.0
carbon source Valerolactone (C) +0.1 -0.2 -0.5 N.D. +0.2
temperature shift Temperature shift 30_to_25; with MOPS +0.4 -0.4 -0.2 N.D. -0.3
nitrogen source 2,6-diaminopimelic (N) +0.3 -0.6 -0.3 N.D. +0.1
reactor 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v dodecane overlay -0.2 +0.1 -0.5 N.D. +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.4 -0.1 -0.2 N.D. -0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant -0.4 +0.4 -0.4 N.D. +0.2
carbon source Valerolactone (C) +0.5 -0.2 -0.3 N.D. +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.5 +0.0 +0.2 N.D. -0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.3 -0.1 +0.4 N.D. -0.3
phage P. putida Missley MOI 0.1 -0.6 +0.2 +0.5 N.D. +0.2
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.1 +0.5 -0.3 N.D. +0.4
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.8 -0.3 +0.3 N.D. -0.2
pH pH 6 +0.3 +0.2 +0.3 N.D. +0.3
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.4 +0.2 +0.4 N.D. +0.1
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