Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_2302 and PP_2303 are separated by 152 nucleotidesPP_2303 and PP_2304 are separated by 181 nucleotidesPP_2304 and PP_2305 are separated by 116 nucleotidesPP_2305 and PP_2306 are separated by 171 nucleotides PP_2302: PP_2302 - DNA-binding, ATP-dependent protease, at 2,630,536 to 2,632,932 _2302 PP_2303: PP_2303 - DNA binding regulator, beta subunit B, at 2,633,085 to 2,633,357 _2303 PP_2304: PP_2304 - putative Peptidyl-prolyl cis-trans isomerase D, at 2,633,539 to 2,635,410 _2304 PP_2305: PP_2305 - conserved protein of unknown function, at 2,635,527 to 2,636,573 _2305 PP_2306: PP_2306 - conserved exported protein of unknown function, at 2,636,745 to 2,637,023 _2306
Group Condition PP_2302 PP_2303 PP_2304 PP_2305 PP_2306
carbon source ferulate (C); with MOPS -3.3 N.D. +0.1 -0.7 -2.1
carbon source Myristic (C) -2.4 N.D. -0.3 +0.5 -3.4
carbon source Delta-Decalactone (C) -1.8 N.D. -2.0 -1.3 -0.3
carbon source 3-methyl-1-butanol (C) -3.6 N.D. -1.1 -0.0 -0.3
carbon source Delta-Decalactone (C) -2.5 N.D. -2.7 -0.3 +0.5
temperature shift Temperature shift 30_to_21; with MOPS -0.7 N.D. +0.4 +0.2 -4.9
pH Growth at pH6 and (C) Trisodium citrate -1.3 N.D. -0.1 +0.1 -3.6
nitrogen source Propandiamine (N) -2.3 N.D. -1.1 +0.5 -2.0
carbon source 3-methyl-1-butanol (C) -4.1 N.D. -0.5 -0.2 +0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI -1.7 N.D. -0.1 +0.0 -2.8
carbon source Tween 20 (C) -1.6 N.D. -1.0 +0.0 -2.0
phage P. putida Sci Big MOI 0.1 +0.3 N.D. -0.3 -1.0 -3.5
stress R2A with Fusaric 480 ug/mL -2.8 N.D. -1.3 +0.0 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -1.5 N.D. -1.4 +0.3 -1.5
carbon source Levulinic Acid (C) -3.2 N.D. -0.5 -0.1 -0.4
nitrogen source NAG (N); with MOPS -3.2 N.D. -0.4 -0.1 -0.4
carbon source 4-Methyl-2-oxopentanoic (C) -3.4 N.D. +0.1 -0.2 -0.3
carbon source Levulinic Acid (C) -3.2 N.D. -0.1 +0.2 -0.7
stress R2A with Fusaric 480 ug/mL -2.8 N.D. -1.5 -0.2 +0.7
carbon source 4-Methyl-2-oxopentanoic (C) -2.9 N.D. -0.3 -0.8 +0.4
nitrogen source Hydantoin (N) -1.5 N.D. -0.0 +0.4 -2.3
carbon source Delta-Undecalactone (C) -3.1 N.D. -0.5 -0.1 +0.7
carbon source ferulate (C); with MOPS -2.4 N.D. -0.4 -1.0 +1.0
carbon source Delta-Undecalactone (C) -3.0 N.D. -0.3 -0.1 +0.7
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs -2.1 N.D. -0.3 -1.1 +0.9
stress Growth with Chloride 500 mM -3.0 N.D. +0.1 -0.1 +0.9
carbon source 3-methyl-1-butanol 0.1 vol% (C) -2.7 N.D. +1.1 -0.3 +0.2
nitrogen source nitrogen source nitrite 1mM -1.9 N.D. +0.2 +0.7 +1.1
nitrogen source DL-2-Aminobutyric (N) -2.3 N.D. +1.2 +0.3 +0.9
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO with 20% v/v oleyl alcohol overlay +2.3 N.D. +0.4 +0.6 +1.0
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