Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1170 and PP_1171 are separated by 22 nucleotidesPP_1171 and PP_1173 are separated by 403 nucleotidesPP_1173 and PP_1174 are separated by 753 nucleotidesPP_1174 and PP_1176 are separated by 976 nucleotides PP_1170: PP_1170 - D-glucaro-1,5-lactonase UxuL (from data), at 1,345,182 to 1,346,063 _1170 PP_1171: PP_1171 - Uronate dehydrogenase (EC 1.1.1.203) (from data), at 1,346,086 to 1,346,892 _1171 PP_1173: PP_1173 - porin-like protein, at 1,347,296 to 1,348,534 _1173 PP_1174: PP_1174 - conserved protein of unknown function, at 1,349,288 to 1,349,422 _1174 PP_1176: PP_1176 - conserved protein of unknown function, at 1,350,399 to 1,350,533 _1176
Group Condition PP_1170 PP_1171 PP_1173 PP_1174 PP_1176
carbon source D-Galacturonic Acid (C) -6.1 -6.1 -0.3 +0.2 -1.5
carbon source D-Galacturonic Acid (C) -5.0 -5.9 -0.3 +0.1 -0.4
carbon source D-Glucuronic gamma lactone (C) -4.9 -5.6 +0.2 -0.2 +0.0
carbon source D-Glucuronic gamma lactone (C) -4.5 -6.0 +0.2 -0.2 +0.4
carbon source Rhamnogalacturonan - from potato (C) -2.2 -1.6 -0.3 +0.0 -0.9
carbon source D-Glucose (C); with MOPS +0.0 -0.1 -0.0 -0.4 -4.3
carbon source D-Glucuronic Acid (C) -2.5 -2.7 +0.4 +0.4 -0.2
carbon source Rhamnogalacturonan - from potato (C) -1.6 -1.7 -0.2 -0.0 -0.8
temperature shift Temperature shift 30_to_21; with MOPS -0.3 +0.2 -0.1 -0.0 -4.0
phage P. putida Missley MOI 0.1 +0.2 +0.3 +0.1 +0.5 -5.0
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant -0.1 -0.2 +0.1 +0.0 -3.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.2 +0.2 -0.0 -0.1 -3.7
carbon source D-Glucose (C) -0.0 -0.2 -0.2 +0.2 -2.9
nitrogen source no extra (N); with MOPS -0.6 -0.1 +0.1 -0.5 -1.9
carbon source carbon source D-Glucose 55.5 mM -0.7 -0.1 -0.4 -0.5 -0.9
carbon source carbon source Glycerol 108.6 mM -0.5 -0.2 +0.0 -0.4 -1.6
carbon source carbon source D-Xylose 66.6 mM and Glycerol 108.6 mM -0.2 +0.0 -0.2 -0.5 -1.7
microaerobic m9 microaerobic M9 -0.4 -0.1 +0.2 +0.1 -2.4
temperature shift Temperature shift 10_to_30 +0.3 -0.3 -0.1 -0.1 -2.3
phage PUT8 MOI 0.1 +0.2 +0.1 +0.1 +0.0 -3.0
temperature Growth at 25C +0.2 -0.2 -0.1 -0.8 -1.6
pH Growth at pH6 and (C) D-Glucose +0.2 -0.1 +0.1 +0.1 -2.7
r2a control R2A control +0.1 +0.0 -0.2 +0.1 -2.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.4 -0.0 +0.3 +0.0 -2.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=72_hrs -0.1 +0.1 +0.1 +0.4 -2.2
reactor 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. -0.3 +0.2 +0.3 +0.1 -1.9
nitrogen source Urea (N) -0.0 -0.3 +0.4 +0.2 -1.8
stress R2A with Polymyxin B sulfate 0.002 mg/ml +0.4 +0.5 -0.6 -0.0 -1.7
carbon source carbon source 4-vinylphenol 0.01 mM -0.7 -0.4 -0.3 -0.2 +1.1
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.5 +0.4 +0.1 +0.6 -1.7
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