Strain Fitness in Pseudomonas putida KT2440 around PP_0259

Experiment: Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntPP_0257 and PP_0258 are separated by 175 nucleotidesPP_0258 and PP_0259 are separated by 50 nucleotidesPP_0259 and PP_0260 are separated by 64 nucleotidesPP_0260 and PP_0261 are separated by 14 nucleotides PP_0257: PP_0257 - protein sulfur transferase, at 312,381 to 313,211 _0257 PP_0258: PP_0258 - regulator of murein cross-linking, at 313,387 to 313,827 _0258 PP_0259: PP_0259 - purine nucleotidase, at 313,878 to 314,540 _0259 PP_0260: PP_0260 - ADP-sugar pyrophosphorylase, at 314,605 to 315,171 _0260 PP_0261: PP_0261 - adenosine-3'(2'),5'-bisphosphate nucleotidase, at 315,186 to 315,986 _0261 Position (kb) 313 314 315Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5at 312.925 kb on + strand, within PP_0257at 312.926 kb on - strand, within PP_0257at 312.926 kb on - strand, within PP_0257at 312.926 kb on - strand, within PP_0257at 313.069 kb on + strand, within PP_0257at 313.069 kb on + strand, within PP_0257at 313.069 kb on + strand, within PP_0257at 313.069 kb on + strand, within PP_0257at 313.070 kb on - strand, within PP_0257at 313.070 kb on - strand, within PP_0257at 313.139 kb on - strandat 313.144 kb on + strandat 313.144 kb on + strandat 313.145 kb on - strandat 313.145 kb on - strandat 313.241 kb on + strandat 313.289 kb on + strandat 313.290 kb on - strandat 313.299 kb on + strandat 313.300 kb on - strandat 313.300 kb on - strandat 313.336 kb on - strandat 313.472 kb on + strand, within PP_0258at 313.472 kb on + strand, within PP_0258at 313.473 kb on - strandat 313.527 kb on - strand, within PP_0258at 313.723 kb on + strand, within PP_0258at 313.724 kb on - strand, within PP_0258at 313.741 kb on + strand, within PP_0258at 313.742 kb on - strand, within PP_0258at 313.841 kb on + strandat 313.841 kb on + strandat 313.879 kb on + strandat 313.880 kb on - strandat 313.887 kb on + strandat 313.893 kb on + strandat 314.110 kb on + strand, within PP_0259at 314.110 kb on + strand, within PP_0259at 314.111 kb on - strand, within PP_0259at 314.140 kb on + strand, within PP_0259at 314.140 kb on + strand, within PP_0259at 314.140 kb on + strand, within PP_0259at 314.140 kb on + strand, within PP_0259at 314.141 kb on - strand, within PP_0259at 314.141 kb on - strand, within PP_0259at 314.141 kb on - strand, within PP_0259at 314.247 kb on - strand, within PP_0259at 314.313 kb on + strand, within PP_0259at 314.313 kb on + strand, within PP_0259at 314.314 kb on - strand, within PP_0259at 314.314 kb on - strand, within PP_0259at 314.341 kb on + strand, within PP_0259at 314.410 kb on - strand, within PP_0259at 314.467 kb on + strand, within PP_0259at 314.468 kb on - strand, within PP_0259at 314.468 kb on - strand, within PP_0259at 314.572 kb on + strandat 314.572 kb on + strandat 314.572 kb on + strandat 314.572 kb on + strandat 314.573 kb on - strandat 314.573 kb on - strandat 314.574 kb on + strandat 314.574 kb on + strandat 314.574 kb on + strandat 314.574 kb on + strandat 314.574 kb on + strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.575 kb on - strandat 314.577 kb on + strandat 314.624 kb on + strandat 314.675 kb on + strand, within PP_0260at 314.675 kb on + strand, within PP_0260at 314.710 kb on + strand, within PP_0260at 314.710 kb on + strand, within PP_0260at 314.710 kb on + strand, within PP_0260at 314.710 kb on + strand, within PP_0260at 314.711 kb on - strand, within PP_0260at 314.711 kb on - strand, within PP_0260at 314.711 kb on - strand, within PP_0260at 314.711 kb on - strand, within PP_0260at 314.800 kb on + strand, within PP_0260at 314.801 kb on - strand, within PP_0260at 314.821 kb on + strand, within PP_0260at 314.822 kb on - strand, within PP_0260at 314.822 kb on - strand, within PP_0260at 314.959 kb on + strand, within PP_0260at 314.960 kb on - strand, within PP_0260at 314.960 kb on - strand, within PP_0260at 314.960 kb on - strand, within PP_0260at 314.960 kb on - strand, within PP_0260at 315.167 kb on + strandat 315.167 kb on + strandat 315.167 kb on + strandat 315.167 kb on + strandat 315.167 kb on + strandat 315.167 kb on + strandat 315.167 kb on + strandat 315.168 kb on - strandat 315.301 kb on + strand, within PP_0261at 315.380 kb on + strand, within PP_0261at 315.380 kb on + strand, within PP_0261at 315.380 kb on + strand, within PP_0261at 315.381 kb on - strand, within PP_0261at 315.381 kb on - strand, within PP_0261at 315.381 kb on - strand, within PP_0261at 315.381 kb on - strand, within PP_0261

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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312,925 + PP_0257 0.65 +1.1
312,926 - PP_0257 0.66 +0.8
312,926 - PP_0257 0.66 +0.3
312,926 - PP_0257 0.66 -2.1
313,069 + PP_0257 0.83 -0.4
313,069 + PP_0257 0.83 -1.4
313,069 + PP_0257 0.83 +0.9
313,069 + PP_0257 0.83 -0.9
313,070 - PP_0257 0.83 +0.2
313,070 - PP_0257 0.83 -1.0
313,139 - +0.5
313,144 + +0.5
313,144 + -1.4
313,145 - +0.1
313,145 - +1.7
313,241 + +0.6
313,289 + +0.8
313,290 - +0.7
313,299 + -0.2
313,300 - +3.2
313,300 - -0.1
313,336 - -0.6
313,472 + PP_0258 0.19 -1.1
313,472 + PP_0258 0.19 -0.4
313,473 - +2.7
313,527 - PP_0258 0.32 +2.3
313,723 + PP_0258 0.76 -0.1
313,724 - PP_0258 0.76 -1.0
313,741 + PP_0258 0.80 +1.1
313,742 - PP_0258 0.80 +1.1
313,841 + +0.0
313,841 + +1.1
313,879 + -2.3
313,880 - -1.1
313,887 + +2.5
313,893 + +1.6
314,110 + PP_0259 0.35 +0.4
314,110 + PP_0259 0.35 +0.4
314,111 - PP_0259 0.35 +2.1
314,140 + PP_0259 0.40 +0.5
314,140 + PP_0259 0.40 -1.7
314,140 + PP_0259 0.40 -0.2
314,140 + PP_0259 0.40 -0.1
314,141 - PP_0259 0.40 -1.5
314,141 - PP_0259 0.40 -1.0
314,141 - PP_0259 0.40 -0.7
314,247 - PP_0259 0.56 +3.3
314,313 + PP_0259 0.66 +4.4
314,313 + PP_0259 0.66 +1.4
314,314 - PP_0259 0.66 +1.1
314,314 - PP_0259 0.66 +2.7
314,341 + PP_0259 0.70 +1.4
314,410 - PP_0259 0.80 -0.5
314,467 + PP_0259 0.89 -0.7
314,468 - PP_0259 0.89 +0.1
314,468 - PP_0259 0.89 +0.6
314,572 + -1.2
314,572 + -1.0
314,572 + -1.3
314,572 + +0.2
314,573 - +1.4
314,573 - +0.7
314,574 + -2.0
314,574 + -0.6
314,574 + -0.1
314,574 + -1.0
314,574 + -0.5
314,575 - +1.0
314,575 - -0.6
314,575 - -0.3
314,575 - +0.5
314,575 - +4.9
314,575 - -0.2
314,575 - +0.1
314,577 + -0.4
314,624 + +1.4
314,675 + PP_0260 0.12 +1.1
314,675 + PP_0260 0.12 +0.7
314,710 + PP_0260 0.19 -0.0
314,710 + PP_0260 0.19 -0.6
314,710 + PP_0260 0.19 -0.3
314,710 + PP_0260 0.19 -0.7
314,711 - PP_0260 0.19 +0.5
314,711 - PP_0260 0.19 +1.1
314,711 - PP_0260 0.19 -0.2
314,711 - PP_0260 0.19 -1.5
314,800 + PP_0260 0.34 +0.3
314,801 - PP_0260 0.35 +0.8
314,821 + PP_0260 0.38 -0.8
314,822 - PP_0260 0.38 +0.9
314,822 - PP_0260 0.38 -2.0
314,959 + PP_0260 0.62 -0.7
314,960 - PP_0260 0.63 -1.2
314,960 - PP_0260 0.63 -0.3
314,960 - PP_0260 0.63 +3.2
314,960 - PP_0260 0.63 +0.2
315,167 + +0.9
315,167 + +1.1
315,167 + +1.0
315,167 + +1.3
315,167 + -0.2
315,167 + -0.5
315,167 + -1.7
315,168 - +1.7
315,301 + PP_0261 0.14 -0.1
315,380 + PP_0261 0.24 +0.5
315,380 + PP_0261 0.24 -1.1
315,380 + PP_0261 0.24 +1.7
315,381 - PP_0261 0.24 -0.1
315,381 - PP_0261 0.24 +0.5
315,381 - PP_0261 0.24 -0.4
315,381 - PP_0261 0.24 -1.3

Or see this region's nucleotide sequence