Fitness for 5 genes in Pseudomonas putida KT2440

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500 ntPP_0851 and PP_0852 overlap by 4 nucleotidesPP_0852 and PP_0853 are separated by 3 nucleotidesPP_0853 and PP_0854 are separated by 25 nucleotidesPP_0854 and PP_0855 are separated by 39 nucleotides PP_0851: PP_0851 - Type IV pili biogenesis protein PilF, at 985,239 to 986,006 _0851 PP_0852: PP_0852 - Transcriptional regulator, Cro/CI family, at 986,003 to 987,010 _0852 PP_0853: PP_0853 - 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase, at 987,014 to 988,123 _0853 PP_0854: PP_0854 - Histidine--tRNA ligase, at 988,149 to 989,438 _0854 PP_0855: PP_0855 - conserved protein of unknown function, at 989,478 to 990,119 _0855
Group Condition PP_0851 PP_0852 PP_0853 PP_0854 PP_0855
micoeukaryotes Tetrahymena sp., Mixed culture-2 -0.1 -6.2 N.D. N.D. -2.3
micoeukaryotes Dictyostellum sp.mixed culture-1 +0.4 -3.1 N.D. N.D. -2.2
r2a control with 0.2% methanol R2A control with 0.2% methanol +0.1 -1.6 N.D. N.D. -3.3
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +0.2 -2.1 N.D. N.D. -2.9
stress R2A with Fusaric 480 ug/mL +0.2 +0.1 N.D. N.D. -5.0
pH pH 4 +0.0 -2.6 N.D. N.D. -2.1
micoeukaryotes Acanthamoeba sp., muxed culture-2 +0.9 -3.7 N.D. N.D. -1.5
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days +0.1 -2.2 N.D. N.D. -2.2
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -0.2 -1.4 N.D. N.D. -2.6
carbon source 3-methyl-1-butanol 0.25 vol% (C) -0.4 -1.3 N.D. N.D. -2.4
carbon source Octanoic (C) -0.3 -3.1 N.D. N.D. -0.6
nitrogen source D-2-Aminobutyric (N) -0.3 -3.1 N.D. N.D. -0.5
carbon source 2,3-Butanediol (C) -0.2 -2.2 N.D. N.D. -1.5
stress R2A with Fusaric 480 ug/mL -0.1 -0.7 N.D. N.D. -3.0
phage P. put South MOI 0.1 -0.1 -0.9 N.D. N.D. -2.8
stress Geraniol 1 vol% +0.1 -2.7 N.D. N.D. -1.1
micoeukaryotes C.elegans, mixed culture-1 +0.6 -4.0 N.D. N.D. -0.3
micoeukaryotes Tetrahymena sp., Mixed culture-1 -0.0 -2.6 N.D. N.D. -1.0
micoeukaryotes Dictyostellum sp.mixed culture-2 +0.2 -2.9 N.D. N.D. -0.9
stress MOPS minimal media_Glucose20mM with Carbenicillin 100 .g/mL -0.3 -2.6 N.D. N.D. -0.8
micoeukaryotes C.elegans, mixed culture-2 +0.6 -3.6 N.D. N.D. -0.4
nitrogen source NAG (N); with MOPS +0.1 -0.9 N.D. N.D. -2.6
supernatant Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.8X +0.2 -1.5 N.D. N.D. -2.2
carbon source Delta-Undecalactone (C) +0.1 -3.4 N.D. N.D. -0.1
stress R2A with Fusaric 480 ug/mL +0.0 -0.8 N.D. N.D. -2.6
carbon source Delta-Decalactone (C) +0.4 -2.7 N.D. N.D. -0.4
carbon source L-tyrosine 5 mM (C) +0.1 -2.9 N.D. N.D. +0.8
reactor 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO. +0.2 +1.7 N.D. N.D. +1.6
reactor 48hr timepoint of 1L M9/1% dextrose DISCONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat set to 10% DO. +0.1 +0.8 N.D. N.D. +2.8
carbon source Crotonic (C) +0.1 +1.5 N.D. N.D. +3.2
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