Fitness for 5 genes in Pseudomonas simiae WCS417

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500 ntPS417_18375 and PS417_18380 are separated by 25 nucleotidesPS417_18380 and PS417_18385 overlap by 4 nucleotidesPS417_18385 and PS417_18390 are separated by 23 nucleotidesPS417_18390 and PS417_18395 are separated by 3 nucleotides PS417_18375: PS417_18375 - hypothetical protein, at 4,000,717 to 4,001,745 _18375 PS417_18380: PS417_18380 - ribose pyranase, at 4,001,771 to 4,002,175 _18380 PS417_18385: PS417_18385 - ribokinase, at 4,002,172 to 4,003,089 _18385 PS417_18390: PS417_18390 - LacI family transcriptional regulator, at 4,003,113 to 4,004,135 _18390 PS417_18395: PS417_18395 - D-ribose ABC transporter, permease component RbsC (from data), at 4,004,139 to 4,005,116 _18395
Group Condition PS417_18375 PS417_18380 PS417_18385 PS417_18390 PS417_18395
carbon source Uridine (C) -0.4 N.D. N.D. -2.1 -4.2
carbon source Uridine (C) -0.1 N.D. N.D. -1.9 -4.1
carbon source Cytidine (C) +0.1 N.D. N.D. -2.2 -3.9
carbon source D-Ribose (C) +0.0 N.D. N.D. -1.6 -4.0
carbon source Inosine (C) -0.4 N.D. N.D. -1.9 -3.2
carbon source D-Ribose (C) -0.0 N.D. N.D. -1.7 -3.2
carbon source Inosine (C) -0.6 N.D. N.D. -1.5 -2.8
carbon source Cytidine (C) +0.0 N.D. N.D. -1.9 -2.6
root root sample 6; outgrowth in LB -0.2 N.D. N.D. -3.6 -0.4
soil soil sample 4; outgrowth in LB +0.3 N.D. N.D. -3.6 -0.1
rhizosphere rhizosphere sample 1; outgrowth in LB -0.1 N.D. N.D. -3.1 -0.0
soil soil sample 5; outgrowth in LB -0.0 N.D. N.D. -3.8 +1.0
soil soil sample 7; outgrowth in LB -0.0 N.D. N.D. -1.9 -0.7
in planta Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days -0.1 N.D. N.D. -2.0 -0.5
rhizosphere rhizosphere sample 8; outgrowth in LB -0.3 N.D. N.D. -2.5 +0.3
stress R2A with Polymyxin B sulfate 0.003 mg/ml -0.1 N.D. N.D. -0.0 -2.3
soil soil sample 3; outgrowth in LB -0.2 N.D. N.D. -2.1 -0.1
nitrogen source Adenosine (N) -1.3 N.D. N.D. -0.5 -0.6
soil soil sample 6; outgrowth in LB +0.2 N.D. N.D. -2.7 +0.2
rhizosphere rhizosphere sample 2; outgrowth in LB +0.2 N.D. N.D. -1.8 -0.6
in planta Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days +0.0 N.D. N.D. -1.3 -0.9
soil soil sample 8; outgrowth in LB +0.3 N.D. N.D. -2.2 -0.2
soil soil sample 2; outgrowth in LB +0.3 N.D. N.D. -1.9 +0.1
seeds Growth on radish seeds for 72 hours -0.2 N.D. N.D. -1.1 +1.1
motility_chemotaxis Chemotaxis:Motility:: Method=Plug_approach; Chemical=L-Proline; Chemical_conc=5mM; Distance=2cm; Sample=outer; Collection=outgrowth_in_LBkan50 +0.1 N.D. N.D. +1.2 -1.1
supernatant LB 0.5x with Supernatant; Trichoderma harzanium TH1 grown as spores in 0.5x MS_media_noCarbon with Brachypodium distachyon roots for 27 days 0.5x -0.7 N.D. N.D. +1.7 -0.6
carbon source Gly-Glu (C) -0.0 N.D. N.D. +3.8 +1.0
carbon source Gly-Glu (C) -0.0 N.D. N.D. +4.3 +0.7
carbon source 2'-Deoxyinosine 5 mM (C) +0.1 N.D. N.D. +5.3 +0.4
carbon source 2'-Deoxyinosine 5 mM (C) -0.0 N.D. N.D. +5.4 +1.6
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