Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0976 and PP_0977 are separated by 178 nucleotidesPP_0977 and PP_0978 are separated by 83 nucleotidesPP_0978 and PP_0979 are separated by 5 nucleotidesPP_0979 and PP_0980 are separated by 50 nucleotides PP_0976: PP_0976 - Ribosomal RNA large subunit methyltransferase F, at 1,113,853 to 1,114,806 _0976 PP_0977: PP_0977 - valine--tRNA ligase, at 1,114,985 to 1,117,831 _0977 PP_0978: PP_0978 - conserved protein of unknown function, at 1,117,915 to 1,118,280 _0978 PP_0979: PP_0979 - DNA polymerase III subunit chi, at 1,118,286 to 1,118,714 _0979 PP_0980: PP_0980 - Probable cytosol aminopeptidase, at 1,118,765 to 1,120,258 _0980
Group Condition PP_0976 PP_0977 PP_0978 PP_0979 PP_0980
nitrogen source DL-2-Aminobutyric (N) -0.2 N.D. -1.7 -0.0 -3.6
nitrogen source DL-2-Aminobutyric (N) -0.2 N.D. -1.4 +0.2 -3.9
micoeukaryotes Acanthamoeba sp., muxed culture-2 +0.3 N.D. -1.7 -1.1 -1.6
dilutelb LB 0.1x with 55.5 mM D-Glucose -0.3 N.D. -2.5 -0.0 -1.2
pH pH 8 -0.1 N.D. -1.9 -0.4 -1.2
micoeukaryotes Tetrahymena sp., Mixed culture-2 -0.1 N.D. -2.7 +0.2 -1.0
carbon source 3-methyl-1-butanol 0.25 vol% (C) +0.1 N.D. -1.2 -0.6 -1.8
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.1 N.D. -0.8 -1.6 -1.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs +0.0 N.D. -2.7 -0.5 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs -0.0 N.D. -1.3 -0.8 -1.1
nitrogen source D-2-Aminobutyric (N) +0.3 N.D. +0.1 +0.0 -3.6
micoeukaryotes Tetrahymena sp., Mixed culture-1 +0.1 N.D. -1.8 +0.1 -1.3
carbon source carbon source Glycerol 108.6 mM +0.5 N.D. -0.9 -0.7 -1.7
pH Growth at pH6 and (C) Trisodium citrate -0.4 N.D. -0.6 -1.1 -0.8
nitrogen source nitrogen source nitrate 5mM +0.0 N.D. -0.3 +0.1 -2.6
carbon source D-Glucose (C); with MOPS +0.2 N.D. -0.8 -1.5 -0.5
reactor 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO. +0.0 N.D. -1.8 +0.3 -1.1
supernatant LB 0.1x with 55.5 mM D-Glucose with Supernatant: Acinetobacter -0.1 N.D. -2.0 +0.2 -0.6
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.3 N.D. -0.8 -0.6 -1.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs +0.4 N.D. -0.5 -0.1 -2.2
no stress control Growth with no stress +0.2 N.D. -1.9 -0.7 +0.1
carbon source Tween 20 (C) +0.4 N.D. -0.3 -1.2 -1.2
nitrogen source nitrogen source nitrite 1mM -0.2 N.D. +0.4 +0.4 -2.8
nitrogen source D-2-Aminobutyric (N) +0.1 N.D. +0.4 +0.8 -3.4
micoeukaryotes C.elegans, mixed culture-2 +0.4 N.D. -1.6 +0.7 -1.7
nitrogen source Ammonium chloride and TNT (N) -0.2 N.D. +0.4 -0.1 -2.3
pH Growth at pH6 and (C) D-Glucose +0.4 N.D. -2.3 +0.0 -0.2
temperature shift Temperature shift 30_to_34; with MOPS +0.4 N.D. -1.1 -1.1 +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -0.2 N.D. -1.0 +1.0 -0.8
carbon source Trisodium citrate (C) +0.6 N.D. +1.0 -0.7 -0.8
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