Strain Fitness in Pseudomonas putida KT2440 around PP_4164

Experiment: Plant=Zea_mays; PlantTreatment=Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_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_4162 and PP_4163 are separated by 12 nucleotidesPP_4163 and PP_4164 are separated by 109 nucleotidesPP_4164 and PP_4165 overlap by 4 nucleotidesPP_4165 and PP_4166 are separated by 17 nucleotides PP_4162: PP_4162 - conserved membrane protein of unknown function, at 4,705,439 to 4,706,491 _4162 PP_4163: PP_4163 - conserved exported protein of unknown function, at 4,706,504 to 4,707,298 _4163 PP_4164: PP_4164 - Alpha/beta hydrolase, at 4,707,408 to 4,708,262 _4164 PP_4165: PP_4165 - conserved protein of unknown function, at 4,708,259 to 4,709,122 _4165 PP_4166: PP_4166 - conserved protein of unknown function, at 4,709,140 to 4,709,514 _4166 Position (kb) 4707 4708 4709Strain fitness (log2 ratio) -2 -1 0 1at 4706.672 kb on + strand, within PP_4163at 4706.706 kb on + strand, within PP_4163at 4706.747 kb on - strand, within PP_4163at 4706.809 kb on - strand, within PP_4163at 4706.809 kb on - strand, within PP_4163at 4706.839 kb on - strand, within PP_4163at 4706.839 kb on - strand, within PP_4163at 4707.009 kb on - strand, within PP_4163at 4707.050 kb on - strand, within PP_4163at 4707.069 kb on + strand, within PP_4163at 4707.434 kb on + strandat 4707.434 kb on + strandat 4707.601 kb on + strand, within PP_4164at 4707.601 kb on + strand, within PP_4164at 4707.602 kb on - strand, within PP_4164at 4707.602 kb on - strand, within PP_4164at 4707.673 kb on + strand, within PP_4164at 4707.674 kb on - strand, within PP_4164at 4707.785 kb on - strand, within PP_4164at 4708.024 kb on + strand, within PP_4164at 4708.025 kb on - strand, within PP_4164at 4708.069 kb on + strand, within PP_4164at 4708.104 kb on + strand, within PP_4164at 4708.104 kb on + strand, within PP_4164at 4708.105 kb on - strand, within PP_4164at 4708.105 kb on - strand, within PP_4164at 4708.220 kb on + strandat 4708.347 kb on - strand, within PP_4165at 4708.357 kb on - strand, within PP_4165at 4708.357 kb on - strand, within PP_4165at 4708.372 kb on + strand, within PP_4165at 4708.372 kb on + strand, within PP_4165at 4708.491 kb on + strand, within PP_4165at 4708.492 kb on - strand, within PP_4165at 4708.563 kb on - strand, within PP_4165at 4708.566 kb on + strand, within PP_4165at 4708.566 kb on + strand, within PP_4165at 4708.566 kb on + strand, within PP_4165at 4708.566 kb on + strand, within PP_4165at 4708.566 kb on + strand, within PP_4165at 4708.567 kb on - strand, within PP_4165at 4708.620 kb on + strand, within PP_4165at 4708.783 kb on - strand, within PP_4165at 4708.962 kb on + strand, within PP_4165at 4708.963 kb on - strand, within PP_4165at 4708.995 kb on + strand, within PP_4165at 4708.995 kb on + strand, within PP_4165at 4708.996 kb on - strand, within PP_4165at 4709.113 kb on + strandat 4709.113 kb on + strandat 4709.193 kb on - strand, within PP_4166at 4709.240 kb on + strand, within PP_4166at 4709.240 kb on + strand, within PP_4166

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days
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4,706,672 + PP_4163 0.21 +0.1
4,706,706 + PP_4163 0.25 -0.4
4,706,747 - PP_4163 0.31 +0.5
4,706,809 - PP_4163 0.38 +1.0
4,706,809 - PP_4163 0.38 +0.0
4,706,839 - PP_4163 0.42 +1.7
4,706,839 - PP_4163 0.42 -0.2
4,707,009 - PP_4163 0.64 +0.7
4,707,050 - PP_4163 0.69 -0.6
4,707,069 + PP_4163 0.71 -0.5
4,707,434 + +0.6
4,707,434 + +0.4
4,707,601 + PP_4164 0.23 -0.5
4,707,601 + PP_4164 0.23 -0.7
4,707,602 - PP_4164 0.23 +0.5
4,707,602 - PP_4164 0.23 -0.4
4,707,673 + PP_4164 0.31 +0.0
4,707,674 - PP_4164 0.31 +0.8
4,707,785 - PP_4164 0.44 +0.8
4,708,024 + PP_4164 0.72 -0.3
4,708,025 - PP_4164 0.72 -0.8
4,708,069 + PP_4164 0.77 +0.2
4,708,104 + PP_4164 0.81 -0.0
4,708,104 + PP_4164 0.81 +0.3
4,708,105 - PP_4164 0.82 +0.4
4,708,105 - PP_4164 0.82 +0.4
4,708,220 + -0.4
4,708,347 - PP_4165 0.10 -0.2
4,708,357 - PP_4165 0.11 +0.4
4,708,357 - PP_4165 0.11 -0.2
4,708,372 + PP_4165 0.13 +0.3
4,708,372 + PP_4165 0.13 -0.0
4,708,491 + PP_4165 0.27 -0.1
4,708,492 - PP_4165 0.27 +0.3
4,708,563 - PP_4165 0.35 -0.5
4,708,566 + PP_4165 0.36 -1.6
4,708,566 + PP_4165 0.36 -0.7
4,708,566 + PP_4165 0.36 +1.1
4,708,566 + PP_4165 0.36 -0.1
4,708,566 + PP_4165 0.36 +0.7
4,708,567 - PP_4165 0.36 -2.1
4,708,620 + PP_4165 0.42 -0.1
4,708,783 - PP_4165 0.61 +0.3
4,708,962 + PP_4165 0.81 +0.4
4,708,963 - PP_4165 0.81 -0.4
4,708,995 + PP_4165 0.85 +0.5
4,708,995 + PP_4165 0.85 -0.0
4,708,996 - PP_4165 0.85 -0.1
4,709,113 + -0.3
4,709,113 + +0.0
4,709,193 - PP_4166 0.14 +1.0
4,709,240 + PP_4166 0.27 +0.0
4,709,240 + PP_4166 0.27 +0.1

Or see this region's nucleotide sequence