Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4609 and PP_4610 overlap by 1 nucleotidesPP_4610 and PP_5699 overlap by 4 nucleotidesPP_5699 and PP_4611 are separated by 139 nucleotidesPP_4611 and PP_4612 overlap by 4 nucleotides PP_4609: PP_4609 - conserved membrane protein of unknown function, at 5,230,792 to 5,231,118 _4609 PP_4610: PP_4610 - conserved protein of unknown function containing PepSY-associated TM helix domain, at 5,231,118 to 5,232,695 _4610 PP_5699: PP_5699 - putative iron uptake protein, at 5,232,692 to 5,232,997 _5699 PP_4611: PP_4611 - RNA polymerase sigma-70 factor, ECF subfamily, at 5,233,137 to 5,233,649 _4611 PP_4612: PP_4612 - putative FecR protein, at 5,233,646 to 5,234,572 _4612
Group Condition PP_4609 PP_4610 PP_5699 PP_4611 PP_4612
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.9 -3.1 -1.9 +0.1 +0.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.8 -2.4 -2.0 +0.1 +0.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X -2.0 -2.6 -1.7 -0.1 +0.2
stress R2A with Fusaric 480 ug/mL -0.8 -1.4 -1.3 +0.3 -0.0
stress R2A with Fusaric 480 ug/mL -0.5 -0.8 -1.2 +0.2 -0.2
stress R2A with Fusaric 480 ug/mL -0.3 -0.9 -1.2 +0.2 -0.1
stress R2A with Fusaric 480 ug/mL -0.6 -1.1 -0.8 +0.2 -0.1
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X -0.6 -1.0 -0.7 -0.0 -0.0
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X -0.7 -1.1 -0.6 +0.0 +0.0
nitrogen source NAG (N); with MOPS -1.3 +0.1 -1.0 -0.1 +0.1
stress R2A with Fusaric 480 ug/mL -0.7 -0.8 -0.6 +0.2 -0.1
mixed carbon source mixed (C)s Trisodium citrate 10 mM and 3-Chloro-L-tyrosine 10 mM -0.2 +0.1 -0.3 -1.6 +0.1
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X -0.4 -1.1 -0.4 +0.1 -0.0
stress Geraniol 1 vol% -0.5 -0.4 -0.9 +0.2 -0.2
stress R2A with Polymyxin B sulfate 0.002 mg/ml -1.7 +0.1 +0.4 -0.3 -0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs -1.2 +0.2 +0.1 -0.2 -0.5
pH LB 0.1x with 55.5 mM D-Glucose; pH 4.6 -0.7 -0.6 -0.6 +0.4 +0.0
stress Growth with Chloride 200 mM; with MOPS -0.9 +0.3 -0.3 -0.6 +0.1
carbon source M9 minimal media_noCarbon with Trisodium citrate 10 mM; 30C; then outgrowth in LB -0.2 +0.1 +0.5 -1.3 -0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs -1.4 -0.2 +0.5 -0.0 -0.3
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.8 +0.1 -0.8 +0.3 -0.1
pH pH 6 -1.0 -0.3 -0.8 +0.8 +0.2
carbon source 3-methyl-1-butanol 0.1 vol% (C) -0.3 +0.7 +0.7 -1.6 -0.5
carbon source M9 minimal media_noCarbon with Trisodium citrate 10 mM; 30C -0.3 +0.2 +0.5 -1.0 -0.3
carbon source Tween 20 (C) -1.5 -0.0 +0.0 +0.4 +0.3
carbon source 3-methyl-1-butanol (C) +0.4 +0.5 +0.6 -1.3 -1.0
carbon source 3-methyl-1-butanol (C) -0.1 +0.4 +0.4 -0.6 -0.8
carbon source carbon source 2-Deoxy-D-glucose 100 mM -0.5 -0.1 -0.4 +1.1 +0.1
carbon source carbon source 2-Deoxy-D-glucose 50 mM -0.2 -0.1 -0.4 +1.3 +0.1
pH pH 7 +0.7 -0.2 -0.5 +1.0 +0.3
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