Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_4326 and PP_4327 overlap by 4 nucleotidesPP_4327 and PP_4328 are separated by 170 nucleotidesPP_4328 and PP_4329 overlap by 4 nucleotidesPP_4329 and PP_4330 are separated by 98 nucleotides PP_4326: PP_4326 - protoheme IX ABC transporter - permease subunit, at 4,916,134 to 4,916,802 _4326 PP_4327: PP_4327 - Cytochrome c biogenesis ATP-binding export protein CcmA, at 4,916,799 to 4,917,431 _4327 PP_4328: PP_4328 - conserved protein of unknown function, at 4,917,602 to 4,919,158 _4328 PP_4329: PP_4329 - FlhB domain protein, at 4,919,155 to 4,919,493 _4329 PP_4330: PP_4330 - putative toxin-related protein, at 4,919,592 to 4,922,273 _4330
Group Condition PP_4326 PP_4327 PP_4328 PP_4329 PP_4330
nitrogen source nitrogen source nitrite 0.5mM N.D. N.D. +0.9 -4.4 +0.0
carbon source ferulate (C); with MOPS N.D. N.D. -1.1 -2.2 +0.0
pH Growth at pH9 and (C) Trisodium citrate N.D. N.D. -0.7 -2.1 +0.1
phage P. putida Sci small MOI 0.1 N.D. N.D. -0.2 -1.7 -0.5
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 N.D. N.D. -1.2 -1.2 +0.1
pH Growth at pH7 and (C) Trisodium citrate N.D. N.D. +0.4 -2.7 +0.0
nitrogen source nitrate (N) N.D. N.D. -0.0 -2.2 +0.1
carbon source carbon source D-Glucose 55.5 mM N.D. N.D. -0.7 -1.3 -0.0
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days N.D. N.D. -0.7 -1.3 -0.0
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days N.D. N.D. -0.4 -1.5 -0.1
phage P. putida PUT 7 MOI 1 N.D. N.D. -0.5 -1.3 -0.1
reactor 40hr timepoint of 1L M9/1% dextrose CONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat, feed rate 2.15g/hr dextrose, set to 30% DO. N.D. N.D. -0.7 -1.4 +0.2
carbon source acetate (C) N.D. N.D. -1.3 -0.7 +0.0
pH Growth at pH6 and (C) Trisodium citrate N.D. N.D. -1.0 -0.8 +0.0
biofilm mediium pdms biofilm mediium PDMS; 7 hours N.D. N.D. -0.5 -1.4 +0.2
carbon source butyrate (C) N.D. N.D. -0.8 -1.0 +0.2
carbon source benzoic (C) N.D. N.D. -0.3 -1.3 +0.1
carbon source Valerolactone (C) N.D. N.D. -1.9 +0.4 -0.1
phage P. putida Sci small MOI 0.1 N.D. N.D. -0.9 +0.2 -0.9
carbon source ferulate (C); with MOPS N.D. N.D. +0.1 -1.6 -0.1
pH Valerolactone (C) pH 6.5 N.D. N.D. -1.7 +0.1 +0.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs N.D. N.D. +0.3 -1.6 +0.1
carbon source 1,3-Butandiol (C) N.D. N.D. +0.6 -1.8 +0.0
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs N.D. N.D. -1.6 +0.6 +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 N.D. N.D. +0.3 -1.3 +0.1
nitrogen source NAG (N); with MOPS N.D. N.D. +0.6 -1.2 -0.0
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days N.D. N.D. +0.7 -1.2 +0.1
in planta Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days N.D. N.D. -0.9 +1.6 +0.1
nitrogen source Propiolactam (N) N.D. N.D. +0.9 +1.1 +0.1
micoeukaryotes Tetrahymena sp., Mixed culture-2 N.D. N.D. -0.1 +1.8 +0.4
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