Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_3052 and PP_3053 are separated by 2 nucleotidesPP_3053 and PP_3054 overlap by 4 nucleotidesPP_3054 and PP_3055 overlap by 4 nucleotidesPP_3055 and PP_3056 overlap by 4 nucleotides PP_3052: PP_3052 - conserved protein of unknown function, at 3,434,494 to 3,434,763 _3052 PP_3053: PP_3053 - Pyocin R2_PP, baseplate protein, at 3,434,766 to 3,435,092 _3053 PP_3054: PP_3054 - Pyocin R2_PP, baseplate/tail fiber protein, at 3,435,089 to 3,436,069 _3054 PP_3055: PP_3055 - Pyocin R2_PP, tail formation protein, at 3,436,066 to 3,436,878 _3055 PP_3056: PP_3056 - putative Pyocin R2_PP, tail fiber protein, at 3,436,875 to 3,437,753 _3056
Group Condition PP_3052 PP_3053 PP_3054 PP_3055 PP_3056
carbon source Trisodium citrate (C) -5.5 N.D. -0.0 +0.3 -0.6
temperature Growth at 30C; with MOPS -5.4 N.D. +0.1 -0.1 -0.2
phage P. putida Sci Big MOI 0.1 -3.7 N.D. -0.7 -0.8 +0.2
carbon source L-Leucine (C) -4.6 N.D. -0.1 +0.2 -0.0
carbon source Valerolactone (C) -3.3 N.D. -0.6 -0.3 -0.3
reactor 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. -3.7 N.D. -0.2 -0.4 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -5.3 N.D. +0.8 +0.0 +0.2
phage P. put South MOI 10 -3.6 N.D. -0.1 +0.4 -0.1
nitrogen source Propandiamine (N) -2.4 N.D. -0.4 -0.5 -0.0
nitrogen source nitrogen source nitrate 5mM -3.3 N.D. -0.2 +0.1 +0.3
phage P. putida Missley MOI 0.1 -1.8 N.D. -0.7 -0.4 -0.1
temperature Growth at 30C -2.2 N.D. +0.1 -0.3 -0.4
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -2.1 N.D. -0.3 -0.5 +0.1
carbon source L-Phenylalanine 5 mM (C) -1.7 N.D. -0.4 -0.6 +0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -2.6 N.D. -0.1 -0.0 +0.1
pH pH 6 -2.4 N.D. +0.9 -0.5 -0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -2.8 N.D. +0.2 -0.0 +0.3
carbon source carbon source 2-Deoxy-D-glucose 10 mM -1.8 N.D. +0.4 -0.4 -0.4
temperature shift Temperature shift 30_to_25 -2.7 N.D. +0.0 +0.5 +0.0
carbon source carbon source 4-vinylphenol 0.1 mM -1.6 N.D. +0.3 -0.6 -0.2
phage P. putida PUT 7 MOI 1 +0.9 N.D. -1.0 -0.2 -1.6
carbon source 4-Aminobutyric 10 mM (C) -1.9 N.D. -0.8 +0.7 +0.1
pH pH 8 -3.0 N.D. +0.6 +0.5 +0.2
carbon source carbon source 2-Deoxy-D-glucose 100 mM -1.4 N.D. +0.7 -0.6 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.6 N.D. +0.2 -1.8 -0.3
pH pH 5 -1.1 N.D. +0.6 -0.9 +0.2
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 -0.9 N.D. +0.1 +1.6 -0.3
agar plate interaction control Parafilmed volatile agar plate with no fungus +1.5 N.D. -0.6 -0.2 +0.5
r2a control R2A control +1.5 N.D. -0.9 +0.5 +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 +2.1 N.D. +0.7 +0.4 +0.1
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