Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_5454 and PP_0656 are separated by 61 nucleotidesPP_0656 and PP_0657 overlap by 4 nucleotidesPP_0657 and PP_0658 are separated by 61 nucleotidesPP_0658 and PP_0659 are separated by 167 nucleotides PP_5454: PP_5454 - conserved membrane protein of unknown function, at 763,278 to 763,637 _5454 PP_0656: PP_0656 - putative Amino acid ABC transporter, permease protein, at 763,699 to 764,520 _0656 PP_0657: PP_0657 - putative Amino acid ABC transporter, periplasmic amino acid-binding protein, at 764,517 to 765,344 _0657 PP_0658: PP_0658 - Homocysteine S-methyltransferase family protein, at 765,406 to 766,341 _0658 PP_0659: PP_0659 - Cystathionine gamma-synthase, at 766,509 to 767,780 _0659
Group Condition PP_5454 PP_0656 PP_0657 PP_0658 PP_0659
phage P. putida Sci small MOI 0.1 -0.4 -0.4 -1.1 -0.4 -0.5
phage P. putida Sci small MOI 0.1 -0.9 -0.5 -0.0 -0.2 -0.8
phage P. putida PUT 7 MOI 1 +0.0 -0.9 -0.8 -0.3 -0.4
phage P. putida Missley MOI 0.1 -0.7 -0.3 -0.3 -0.2 -0.4
nitrogen source 2,6-diaminopimelic (N) -0.6 -0.1 -0.6 -0.3 -0.1
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs +0.1 -0.5 -0.5 -0.4 +0.1
carbon source Valeric (C) +0.3 -0.4 -0.4 -0.6 -0.2
pH pH 9 +0.2 -0.6 -0.5 +0.0 -0.4
nitrogen source nitrite (N) +0.3 -1.1 -0.1 -0.2 -0.0
carbon source 2,3-Butanediol (C) -0.3 -0.5 -0.2 -0.3 +0.3
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.2 -0.9 +0.1 +0.2 -0.2
carbon source D-Glucose (C); with MOPS +0.3 -0.5 -0.7 +0.3 +0.1
carbon source ferulate (C); with MOPS -0.3 +0.5 -0.5 -0.2 +0.2
phage P. putida Sci Big MOI 0.1 +0.0 +0.6 -0.3 -0.2 -0.5
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.1 +0.5 -0.3 -0.5 -0.1
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant +0.2 -0.8 +0.6 -0.3 +0.1
nitrogen source NAG (N); with MOPS -0.7 +0.5 +0.2 +0.2 -0.2
nitrogen source nitrogen source Ammonium chloride 20mM +0.3 -0.5 +0.4 +0.1 -0.2
temperature shift Temperature shift 30_to_34; with MOPS +0.1 -0.6 +0.5 +0.4 -0.1
temperature shift Temperature shift 30_to_21; with MOPS +0.1 +0.5 -0.3 +0.4 -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 +0.5 +0.2 +0.4 -0.4 -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 -0.2 -0.3 +0.7 +0.8 -0.3
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs +0.3 -0.1 +0.6 +0.2 -0.4
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.3 -0.5 +0.8 +0.1 +0.1
nitrogen source nitrate (N) +0.3 -0.4 +0.6 +0.3 +0.0
agar plate interaction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant +0.3 -0.0 +0.7 +0.2 -0.3
stress R2A with Polymyxin B sulfate 0.001 mg/ml -0.1 +0.1 +0.6 +0.5 -0.1
nitrogen source D-2-Aminobutyric (N) +0.3 +0.5 +0.2 +0.4 -0.2
carbon source Tween 20 (C) +0.3 +0.4 +0.5 -0.1 +0.3
carbon source L-Alanine (C) -0.1 +0.1 -0.1 +0.1 +1.4
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