Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0802 and PP_0803 are separated by 92 nucleotidesPP_0803 and PP_0804 overlap by 4 nucleotidesPP_0804 and PP_0805 overlap by 4 nucleotidesPP_0805 and PP_0806 are separated by 63 nucleotides PP_0802: PP_0802 - putative chemotaxis protein, at 920,851 to 921,750 _0802 PP_0803: PP_0803 - Protein secretion ABC efflux system, membrane fusion protein, at 921,843 to 923,027 _0803 PP_0804: PP_0804 - Protein secretion ABC efflux system, permease and ATP-binding protein, at 923,024 to 925,192 _0804 PP_0805: PP_0805 - Outer membrane efflux protein, at 925,189 to 926,625 _0805 PP_0806: PP_0806 - putative Surface adhesion protein, at 926,689 to 945,621 _0806
Group Condition PP_0802 PP_0803 PP_0804 PP_0805 PP_0806
temperature shift Temperature shift 30_to_21 -0.3 +1.5 +1.6 +1.6 +1.6
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.1 +1.6 +1.8 +1.5 +1.5
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days +0.1 +1.4 +1.5 +1.6 +1.6
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.2 +1.5 +1.7 +1.8 +1.6
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.1 +1.7 +1.5 +1.8 +1.5
temperature shift Temperature shift 30_to_21 -0.0 +1.7 +1.6 +1.6 +1.6
temperature shift Temperature shift 30_to_21 -0.1 +1.6 +1.8 +1.6 +1.6
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. -0.3 +1.6 +1.7 +1.8 +1.7
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. +0.4 +1.5 +1.8 +1.5 +1.7
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.3 +1.7 +1.6 +2.1 +1.7
nitrogen source no extra (N) +0.1 +1.7 +1.8 +1.5 +1.6
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days -0.2 +1.9 +1.7 +1.9 +1.8
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.1 +1.6 +1.7 +1.8 +1.9
temperature shift Temperature shift 30_to_34 -0.4 +2.0 +2.0 +1.8 +1.8
reactor 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. +0.2 +1.6 +1.8 +1.9 +1.7
nitrogen source 6-aminocaproic (N) +0.3 +1.6 +1.8 +1.7 +1.8
temperature shift Temperature shift 30_to_34 -0.1 +1.7 +2.0 +1.8 +1.8
nitrogen source 6-aminocaproic (N) -0.2 +1.8 +1.9 +2.0 +1.9
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days +0.1 +1.8 +2.1 +1.8 +1.7
pH Valerolactone (C) pH 6.5 -0.2 +1.9 +1.9 +1.9 +1.9
nitrogen source Propiolactam (N) -0.3 +1.8 +2.0 +2.0 +2.0
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 +2.0 +1.9 +1.7 +1.8
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.5 +1.7 +2.0 +1.8 +1.7
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.3 +1.9 +2.3 +1.8 +1.8
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days +0.2 +1.9 +2.1 +1.9 +2.0
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 -0.5 +2.1 +2.0 +2.5 +2.4
in planta Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.3 +2.4 +2.4 +1.8 +2.1
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 +0.4 +2.2 +2.0 +2.1 +2.2
nitrogen source 2,6-diaminopimelic (N) -0.1 +2.5 +2.8 +2.1 +2.4
nitrogen source 2,6-diaminopimelic (N) +0.0 +3.0 +3.0 +2.7 +3.0
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