Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4868 and PP_4869 are separated by 3 nucleotidesPP_4869 and PP_4870 are separated by 102 nucleotidesPP_4870 and PP_4871 are separated by 347 nucleotidesPP_4871 and PP_4872 are separated by 120 nucleotides PP_4868: PP_4868 - Nicotinate phosphoribosyltransferase, at 5,534,984 to 5,536,192 _4868 PP_4869: PP_4869 - NH(3)-dependent NAD(+) synthetase, at 5,536,196 to 5,537,023 _4869 PP_4870: PP_4870 - Azurin, at 5,537,126 to 5,537,575 _4870 PP_4871: PP_4871 - putative lysine decarboxylase family protein, at 5,537,923 to 5,538,510 _4871 PP_4872: PP_4872 - putative enzyme of unknown function, at 5,538,631 to 5,540,985 _4872
Group Condition PP_4868 PP_4869 PP_4870 PP_4871 PP_4872
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. +0.1 -3.9 -0.1
pH Growth at pH7 and (C) Trisodium citrate -0.1 N.D. -2.8 -0.9 +0.1
nitrogen source Propandiamine (N) -0.6 N.D. -1.2 -0.8 -0.4
pH Growth at pH7 and (C) D-Glucose +0.0 N.D. -2.9 +0.3 +0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -0.4 N.D. -1.1 -0.5 -0.2
nitrogen source D-2-Aminobutyric (N) -0.0 N.D. -2.3 +0.1 +0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant -0.2 N.D. -0.7 -1.1 -0.1
stress MOPS minimal media_Glucose20mM with Poly(3-hydroxybutyric) 0.1 mg/mL -0.1 N.D. -2.2 +0.1 +0.2
carbon source 4-Aminobutyric 10 mM (C) -0.0 N.D. -0.9 -0.9 +0.1
nitrogen source nitrite (N) -0.5 N.D. -0.3 -1.2 +0.3
nitrogen source Ammonium chloride (N) -0.1 N.D. -0.5 -1.1 +0.1
carbon source carbon source 4-vinylphenol 0.01 mM +0.5 N.D. -1.8 -0.0 -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 -0.3 N.D. +0.7 -1.6 -0.1
pH Growth at pH6 and (C) Trisodium citrate -0.1 N.D. -1.8 +0.4 +0.1
carbon source 1,3-Hexanediol (C) +0.4 N.D. -1.9 +0.2 +0.1
carbon source Delta-Nonalactone (C) +0.4 N.D. -1.1 -0.5 +0.0
pH Growth at pH6 and (C) Trisodium citrate -0.2 N.D. -1.4 +0.3 +0.1
carbon source carbon source 4-vinylphenol 0.1 mM +1.0 N.D. -1.1 -0.8 -0.0
carbon source carbon source Bisabolol 45 mM +0.6 N.D. -1.1 -0.2 -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 +0.8 N.D. -0.8 -0.1 -0.2
pH Growth at pH6 and (C) Trisodium citrate -0.2 N.D. -1.1 +0.7 +0.3
phage P. putida South MOI 10 -0.7 N.D. +0.6 +0.5 -0.4
carbon source 3-methyl-1-butanol 0.1 vol% (C) -0.0 N.D. +1.4 -0.6 +0.1
pH Growth at pH8 and (C) D-Glucose -0.7 N.D. +0.9 +0.4 +0.3
nitrogen source 2,6-diaminopimelic (N) -0.5 N.D. +0.2 +1.0 +0.4
phage PUT 8 MOI 1 +0.3 N.D. +0.1 +1.1 -0.5
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +1.4 N.D. +0.3 -0.2 +0.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +1.4 N.D. +0.4 -0.0 +0.2
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.6 N.D. +0.9 +0.6 -0.1
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +1.2 N.D. +0.6 +0.4 +0.2
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