Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0621 and PP_0622 are separated by 13 nucleotidesPP_0622 and PP_0623 are separated by 147 nucleotidesPP_0623 and PP_0624 overlap by 4 nucleotidesPP_0624 and PP_0625 are separated by 249 nucleotides PP_0621: PP_0621 - conserved protein of unknown function, at 727,020 to 727,331 _0621 PP_0622: PP_0622 - Outer membrane protein assembly factor BamD, at 727,345 to 728,364 _0622 PP_0623: PP_0623 - 23S rRNA pseudouridine(1911,1915,1917) synthase, at 728,512 to 729,474 _0623 PP_0624: PP_0624 - Uncharacterized protein YfiH, at 729,471 to 730,211 _0624 PP_0625: PP_0625 - Chaperone protein ClpB, at 730,461 to 733,025 _0625
Group Condition PP_0621 PP_0622 PP_0623 PP_0624 PP_0625
carbon source Vanillin (C) -1.5 N.D. N.D. -0.0 -0.4
in planta Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days -0.7 N.D. N.D. -0.6 -0.6
carbon source Vanillin (C) -1.5 N.D. N.D. -0.1 -0.2
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. -1.4 N.D. N.D. -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 N.D. N.D. -0.7 -0.7
micoeukaryotes C.elegans, mixed culture-1 -0.2 N.D. N.D. -0.9 -0.5
pH Growth at pH7 and (C) D-Glucose -0.8 N.D. N.D. -0.5 -0.3
temperature LB 42C -0.2 N.D. N.D. -0.2 -1.2
soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs -0.7 N.D. N.D. -0.7 -0.2
carbon source Vanillin (C) -1.5 N.D. N.D. +0.3 -0.4
nitrogen source Nicotinic Acid (N) +0.1 N.D. N.D. +0.0 -1.6
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 -0.3 N.D. N.D. -0.5 -0.7
temperature LB 42C -0.1 N.D. N.D. -0.3 -1.1
micoeukaryotes Dictyostellum sp.mixed culture-2 -0.3 N.D. N.D. -0.7 -0.4
nitrogen source Nicotinic Acid (N) +0.0 N.D. N.D. +0.1 -1.4
carbon source L-Leucine (C) +0.2 N.D. N.D. +0.1 -1.5
carbon source 3-Hydroxydecanoic (C) -0.4 N.D. N.D. -1.0 +0.4
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +0.4 N.D. N.D. -0.6 -0.6
agar plate interaction control Parafilmed volatile agar plate with no fungus +0.2 N.D. N.D. -1.0 +0.3
pH Growth at pH6 and (C) Trisodium citrate +0.4 N.D. N.D. -1.0 +0.1
nitrogen source 2,6-diaminopimelic (N) +0.8 N.D. N.D. -0.5 -0.2
no stress control Growth with no stress +0.7 N.D. N.D. -0.4 +0.4
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +1.0 N.D. N.D. +0.2 -0.5
in planta Plant=Zea_mays-bx1; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +1.2 N.D. N.D. -0.2 -0.4
phage P. put PUT 10 MOI 10 +0.2 N.D. N.D. +1.2 -0.3
phage P. putida PUT10 MOI 0.1 +0.7 N.D. N.D. +0.7 -0.2
phage P. put PUT 10 MOI 10 +0.3 N.D. N.D. +1.1 -0.2
phage P. putida South MOI 0.1 +0.5 N.D. N.D. +0.8 +0.2
phage P. putida PUT10 MOI 10 +0.5 N.D. N.D. +1.2 +0.1
phage P. putida PUT10 MOI 10 +0.5 N.D. N.D. +1.3 +0.2
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