Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2023 and PP_2024 overlap by 10 nucleotidesPP_2024 and PP_2025 overlap by 4 nucleotidesPP_2025 and PP_5497 are separated by 330 nucleotidesPP_5497 and PP_2026 are separated by 164 nucleotides PP_2023: PP_2023 - Glutathione S-transferase family protein, at 2,295,887 to 2,296,486 _2023 PP_2024: PP_2024 - Exonuclease SbcC, at 2,296,477 to 2,300,121 _2024 PP_2025: PP_2025 - Exonuclease SbcD, at 2,300,118 to 2,301,356 _2025 PP_5497: PP_5497 - conserved protein of unknown function with rhs repeat-associated core domain, at 2,301,687 to 2,302,340 _5497 PP_2026: PP_2026 - conserved protein of unknown function, at 2,302,505 to 2,302,771 _2026
Group Condition PP_2023 PP_2024 PP_2025 PP_5497 PP_2026
phage P. putida PUT 7 MOI 1 +0.2 -0.3 -2.0 -1.2 -1.6
phage P. putida Sci small MOI 0.1 -0.5 -1.7 -1.7 -0.3 -0.1
nitrogen source Propandiamine (N) -1.1 -0.6 -1.6 +0.1 -0.3
carbon source Myristic (C) -0.9 -0.3 -1.6 -0.0 -0.6
nitrogen source nitrogen source nitrite 0.5mM -0.3 -0.5 -1.7 +0.3 -0.4
phage P. putida Sci small MOI 0.1 +0.4 -0.6 -0.6 -0.3 -1.6
nitrogen source 2,6-diaminopimelic (N) +0.6 -0.1 -1.5 -0.6 -0.9
carbon source Tween 20 (C) +0.6 -0.4 -1.7 -0.1 -0.9
phage P. putida Missley MOI 0.1 -0.8 +0.2 +0.0 -0.7 -1.1
agar plate interaction control Parafilmed volatile agar plate with no fungus -0.8 +0.2 +0.3 -0.2 -1.3
temperature shift Temperature shift 10_to_25; with MOPS +0.4 +0.1 -1.0 +0.2 -0.7
nitrogen source D-2-Aminobutyric (N) -1.4 +0.1 +0.8 +0.3 -0.3
temperature shift Temperature shift 10_to_25; with MOPS +0.5 +0.2 -1.2 +0.1 +0.4
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -1.0 +0.0 +1.0 +0.4 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.9 -0.1 -1.0 +0.2 +0.2
pH pH 7 -1.0 -0.3 +1.8 -0.1 +0.2
pH pH 8 -0.6 -0.4 +1.7 +0.1 -0.0
nitrogen source NAG (N); with MOPS +0.9 +0.3 +0.6 -0.3 -0.5
pH pH 5 +0.3 -0.6 +1.3 +0.2 +0.0
carbon source carbon source D-Glucose 55.5 mM -0.3 -0.5 +2.0 +0.1 +0.3
carbon source carbon source Bisabolol 45 mM +0.0 -0.3 +1.9 -0.1 +0.1
carbon source carbon source 2-Deoxy-D-glucose 50 mM -0.2 -0.3 +2.2 +0.2 -0.0
carbon source carbon source 4-vinylphenol 0.1 mM +0.2 -0.1 +2.1 +0.2 -0.4
carbon source carbon source 3-O-methyl-glucose 10 mM +0.7 -0.1 +2.1 -0.4 -0.1
pH pH 4 +0.5 -0.2 +1.5 +0.1 +0.3
carbon source carbon source Glycerol 108.6 mM +0.2 -0.0 +2.0 +0.0 -0.1
carbon source carbon source 4-vinylphenol 0.01 mM +0.2 +0.2 +2.0 -0.3 +0.2
pH pH 9 +0.9 -0.2 +1.7 +0.3 -0.4
carbon source carbon source 2-Deoxy-D-glucose 100 mM +0.8 +0.0 +2.0 -0.3 +0.0
carbon source carbon source Bisabolene 48.9 mM +0.4 -0.2 +2.3 -0.0 +0.1
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