Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_1252 and PP_1253 are separated by 151 nucleotidesPP_1253 and PP_1254 are separated by 49 nucleotidesPP_1254 and PP_1255 are separated by 123 nucleotidesPP_1255 and PP_1256 are separated by 2 nucleotides PP_1252: PP_1252 - Group II intron-encoding maturase, at 1,429,963 to 1,431,384 _1252 PP_1253: PP_1253 - Transcriptional regulator, ArsR family, at 1,431,536 to 1,431,871 _1253 PP_1254: PP_1254 - XenA, at 1,431,921 to 1,433,012 _1254 PP_1255: PP_1255 - putative cis-4-hydroxy-D-proline oxidase, at 1,433,136 to 1,434,383 _1255 PP_1256: PP_1256 - putative alpha-ketoglutarate semialdehyde dehydrogenase, at 1,434,386 to 1,435,963 _1256
Group Condition PP_1252 PP_1253 PP_1254 PP_1255 PP_1256
carbon source Hydroxy-L-Proline (C) N.D. -0.4 -0.1 -8.5 -6.4
carbon source Hydroxy-L-Proline (C) N.D. -0.3 -0.2 -8.6 -5.5
nitrogen source Urea (N); with MOPS N.D. -0.8 -0.4 -1.0 -0.2
phage P. putida Sci Big MOI 0.1 N.D. -0.7 +0.3 -1.2 -0.3
pH Growth at pH6 and (C) Trisodium citrate N.D. +0.3 +0.2 -1.5 -0.9
nitrogen source D-2-Aminobutyric (N) N.D. -0.4 -0.5 -1.0 +0.2
carbon source carbon source 4-vinylphenol 0.01 mM N.D. -1.3 +0.6 +0.3 -0.9
phage P. putida Sci small MOI 0.1 N.D. +0.7 -0.2 -1.3 -0.6
stress Growth with Chloride 200 mM; with MOPS N.D. +0.3 -0.6 -0.6 -0.4
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs N.D. +0.3 +0.1 -1.0 -0.7
pH Growth at pH6 and (C) D-Glucose N.D. +0.2 +0.4 -1.2 -0.7
temperature shift Temperature shift 30_to_21; with MOPS N.D. +0.5 -0.2 -0.8 -0.8
nitrogen source NAG (N); with MOPS N.D. +0.3 +0.1 -0.8 -0.7
temperature shift Temperature shift 30_to_21; with MOPS N.D. +0.4 -0.2 -0.0 -1.2
nitrogen source 2,6-diaminopimelic (N) N.D. +0.2 -1.0 +0.4 -0.4
carbon source benzoic (C) N.D. -0.8 -0.1 +0.5 -0.4
carbon source ferulate (C); with MOPS N.D. -0.6 -0.8 +0.8 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs N.D. -1.4 -0.2 +0.5 +0.3
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. +0.5 -0.8 +0.1 -0.6
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. +0.8 -0.3 -2.1 +0.9
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days N.D. -0.8 +0.1 +0.5 -0.4
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. -0.8 +0.5 +0.2 -0.4
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. -0.8 +0.9 +0.2 -0.7
temperature shift Temperature shift 30_to_4; with MOPS N.D. +0.4 +0.3 -0.9 -0.3
nitrogen source NAG (N); with MOPS N.D. -0.0 +0.7 -0.0 -1.1
carbon source carbon source Glycerol 108.6 mM N.D. -0.9 +0.6 +0.3 -0.1
carbon source carbon source D-Glucose 55.5 mM N.D. -1.0 +0.1 +0.7 +0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant N.D. +0.4 +0.2 -0.9 +0.4
pH pH 9 N.D. -0.8 +0.9 +0.5 +0.1
temperature shift Temperature shift 30_to_25 N.D. +0.5 +0.5 +0.3 -0.5
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