Strain Fitness in Pseudomonas putida KT2440 around PP_5164

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_5162 and PP_5163 overlap by 22 nucleotidesPP_5163 and PP_5164 are separated by 86 nucleotidesPP_5164 and PP_5165 are separated by 119 nucleotides PP_5162: PP_5162 - conserved exported protein of unknown function, at 5,887,145 to 5,887,714 _5162 PP_5163: PP_5163 - maltose acetyltransferase, at 5,887,693 to 5,888,259 _5163 PP_5164: PP_5164 - Penicillin amidase family protein, at 5,888,346 to 5,890,712 _5164 PP_5165: PP_5165 - NLPA lipoprotein, at 5,890,832 to 5,891,617 _5165 Position (kb) 5888 5889 5890 5891Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5 6 7 8at 5887.396 kb on + strand, within PP_5162at 5887.424 kb on - strand, within PP_5162at 5887.424 kb on - strand, within PP_5162at 5887.571 kb on + strand, within PP_5162at 5887.571 kb on + strand, within PP_5162at 5887.571 kb on + strand, within PP_5162at 5887.584 kb on - strand, within PP_5162at 5887.675 kb on + strandat 5887.694 kb on + strandat 5887.694 kb on + strandat 5887.695 kb on - strandat 5887.798 kb on - strand, within PP_5163at 5887.928 kb on + strand, within PP_5163at 5887.928 kb on + strand, within PP_5163at 5887.929 kb on - strand, within PP_5163at 5887.929 kb on - strand, within PP_5163at 5887.929 kb on - strand, within PP_5163at 5887.929 kb on - strand, within PP_5163at 5887.929 kb on - strandat 5888.017 kb on - strand, within PP_5163at 5888.019 kb on + strand, within PP_5163at 5888.019 kb on + strand, within PP_5163at 5888.019 kb on + strand, within PP_5163at 5888.020 kb on - strand, within PP_5163at 5888.039 kb on + strand, within PP_5163at 5888.040 kb on - strand, within PP_5163at 5888.040 kb on - strand, within PP_5163at 5888.045 kb on + strand, within PP_5163at 5888.055 kb on - strand, within PP_5163at 5888.153 kb on + strand, within PP_5163at 5888.195 kb on - strand, within PP_5163at 5888.195 kb on - strand, within PP_5163at 5888.195 kb on - strand, within PP_5163at 5888.279 kb on + strandat 5888.279 kb on + strandat 5888.280 kb on - strandat 5888.280 kb on - strandat 5888.378 kb on - strandat 5888.413 kb on - strandat 5888.553 kb on + strandat 5888.593 kb on + strand, within PP_5164at 5888.594 kb on - strand, within PP_5164at 5888.594 kb on - strand, within PP_5164at 5888.749 kb on - strand, within PP_5164at 5888.862 kb on + strand, within PP_5164at 5888.871 kb on + strand, within PP_5164at 5888.872 kb on - strand, within PP_5164at 5888.913 kb on + strand, within PP_5164at 5888.941 kb on - strand, within PP_5164at 5889.037 kb on + strand, within PP_5164at 5889.180 kb on + strand, within PP_5164at 5889.180 kb on + strand, within PP_5164at 5889.181 kb on - strand, within PP_5164at 5889.181 kb on - strand, within PP_5164at 5889.181 kb on - strand, within PP_5164at 5889.555 kb on + strand, within PP_5164at 5889.556 kb on - strand, within PP_5164at 5889.804 kb on + strand, within PP_5164at 5889.804 kb on + strand, within PP_5164at 5889.804 kb on + strand, within PP_5164at 5889.804 kb on + strand, within PP_5164at 5889.804 kb on + strand, within PP_5164at 5889.805 kb on - strand, within PP_5164at 5889.806 kb on + strand, within PP_5164at 5889.806 kb on + strand, within PP_5164at 5889.807 kb on - strand, within PP_5164at 5889.807 kb on - strand, within PP_5164at 5889.822 kb on + strand, within PP_5164at 5889.822 kb on + strand, within PP_5164at 5889.823 kb on - strand, within PP_5164at 5889.823 kb on - strand, within PP_5164at 5889.858 kb on + strand, within PP_5164at 5889.858 kb on + strand, within PP_5164at 5889.859 kb on - strand, within PP_5164at 5889.967 kb on - strand, within PP_5164at 5889.994 kb on + strand, within PP_5164at 5890.117 kb on - strand, within PP_5164at 5890.128 kb on + strand, within PP_5164at 5890.129 kb on - strand, within PP_5164at 5890.157 kb on + strand, within PP_5164at 5890.157 kb on + strand, within PP_5164at 5890.512 kb on + strandat 5890.513 kb on - strandat 5890.513 kb on - strandat 5890.513 kb on - strandat 5890.632 kb on + strandat 5890.632 kb on + strandat 5890.633 kb on - strandat 5890.633 kb on - strandat 5890.633 kb on - strandat 5890.633 kb on - strandat 5890.647 kb on + strandat 5890.647 kb on + strandat 5890.690 kb on + strandat 5890.690 kb on + strandat 5890.710 kb on + strandat 5890.710 kb on + strandat 5890.711 kb on - strandat 5890.750 kb on + strandat 5890.750 kb on + strandat 5890.750 kb on + strandat 5890.751 kb on - strandat 5890.751 kb on - strandat 5890.751 kb on - strandat 5890.751 kb on - strandat 5890.751 kb on - strandat 5890.811 kb on + strandat 5890.811 kb on + strandat 5890.811 kb on + strandat 5890.812 kb on - strandat 5890.812 kb on - strandat 5890.812 kb on - strandat 5890.812 kb on - strandat 5890.812 kb on - strandat 5890.812 kb on - strandat 5890.848 kb on - strandat 5890.860 kb on + strandat 5890.860 kb on + strandat 5890.968 kb on + strand, within PP_5165at 5890.968 kb on + strand, within PP_5165at 5890.969 kb on - strand, within PP_5165at 5891.034 kb on + strand, within PP_5165at 5891.034 kb on + strand, within PP_5165at 5891.035 kb on - strand, within PP_5165at 5891.176 kb on + strand, within PP_5165at 5891.177 kb on - strand, within PP_5165at 5891.177 kb on - strand, within PP_5165at 5891.309 kb on + strand, within PP_5165at 5891.309 kb on + strand, within PP_5165at 5891.309 kb on + strand, within PP_5165at 5891.309 kb on + strand, within PP_5165at 5891.310 kb on - strand, within PP_5165at 5891.310 kb on - strand, within PP_5165at 5891.310 kb on - strand, within PP_5165at 5891.315 kb on + strand, within PP_5165at 5891.316 kb on - strand, within PP_5165at 5891.316 kb on - strand, within PP_5165at 5891.370 kb on + strandat 5891.701 kb on + strand

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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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5,887,396 + PP_5162 0.44 +1.7
5,887,424 - PP_5162 0.49 +0.7
5,887,424 - PP_5162 0.49 -0.6
5,887,571 + PP_5162 0.75 +1.7
5,887,571 + PP_5162 0.75 +1.7
5,887,571 + PP_5162 0.75 +0.2
5,887,584 - PP_5162 0.77 -0.6
5,887,675 + +0.2
5,887,694 + +0.6
5,887,694 + +2.2
5,887,695 - -0.8
5,887,798 - PP_5163 0.19 -0.9
5,887,928 + PP_5163 0.41 -0.5
5,887,928 + PP_5163 0.41 +0.5
5,887,929 - PP_5163 0.42 +0.5
5,887,929 - PP_5163 0.42 +0.9
5,887,929 - PP_5163 0.42 -0.7
5,887,929 - PP_5163 0.42 -0.5
5,887,929 - +2.3
5,888,017 - PP_5163 0.57 -0.3
5,888,019 + PP_5163 0.57 -1.4
5,888,019 + PP_5163 0.57 +0.2
5,888,019 + PP_5163 0.57 -0.0
5,888,020 - PP_5163 0.58 -0.3
5,888,039 + PP_5163 0.61 +0.3
5,888,040 - PP_5163 0.61 -0.4
5,888,040 - PP_5163 0.61 +0.3
5,888,045 + PP_5163 0.62 +0.2
5,888,055 - PP_5163 0.64 +0.3
5,888,153 + PP_5163 0.81 +0.1
5,888,195 - PP_5163 0.89 +0.1
5,888,195 - PP_5163 0.89 -0.5
5,888,195 - PP_5163 0.89 +0.2
5,888,279 + -0.2
5,888,279 + -1.1
5,888,280 - -0.1
5,888,280 - +1.7
5,888,378 - -0.5
5,888,413 - +0.2
5,888,553 + +0.1
5,888,593 + PP_5164 0.10 -0.3
5,888,594 - PP_5164 0.10 -1.4
5,888,594 - PP_5164 0.10 +0.1
5,888,749 - PP_5164 0.17 -0.1
5,888,862 + PP_5164 0.22 -0.3
5,888,871 + PP_5164 0.22 -0.8
5,888,872 - PP_5164 0.22 -0.7
5,888,913 + PP_5164 0.24 -1.1
5,888,941 - PP_5164 0.25 +0.3
5,889,037 + PP_5164 0.29 +0.8
5,889,180 + PP_5164 0.35 +0.5
5,889,180 + PP_5164 0.35 -0.0
5,889,181 - PP_5164 0.35 +0.2
5,889,181 - PP_5164 0.35 +0.0
5,889,181 - PP_5164 0.35 +0.4
5,889,555 + PP_5164 0.51 +7.9
5,889,556 - PP_5164 0.51 -2.3
5,889,804 + PP_5164 0.62 +0.1
5,889,804 + PP_5164 0.62 +0.5
5,889,804 + PP_5164 0.62 -0.7
5,889,804 + PP_5164 0.62 -2.3
5,889,804 + PP_5164 0.62 -0.3
5,889,805 - PP_5164 0.62 -0.0
5,889,806 + PP_5164 0.62 +0.4
5,889,806 + PP_5164 0.62 +0.8
5,889,807 - PP_5164 0.62 -1.0
5,889,807 - PP_5164 0.62 -0.2
5,889,822 + PP_5164 0.62 +1.1
5,889,822 + PP_5164 0.62 -0.4
5,889,823 - PP_5164 0.62 +0.9
5,889,823 - PP_5164 0.62 +0.9
5,889,858 + PP_5164 0.64 +0.5
5,889,858 + PP_5164 0.64 +0.1
5,889,859 - PP_5164 0.64 +1.7
5,889,967 - PP_5164 0.68 -0.6
5,889,994 + PP_5164 0.70 +0.4
5,890,117 - PP_5164 0.75 +0.7
5,890,128 + PP_5164 0.75 +0.2
5,890,129 - PP_5164 0.75 +0.2
5,890,157 + PP_5164 0.77 -0.6
5,890,157 + PP_5164 0.77 +0.7
5,890,512 + -0.4
5,890,513 - -0.2
5,890,513 - -0.8
5,890,513 - -0.1
5,890,632 + +0.4
5,890,632 + -0.0
5,890,633 - -0.4
5,890,633 - +0.4
5,890,633 - +0.8
5,890,633 - +0.4
5,890,647 + -0.0
5,890,647 + +0.5
5,890,690 + +1.1
5,890,690 + -0.7
5,890,710 + +0.7
5,890,710 + -0.6
5,890,711 - -1.1
5,890,750 + +1.2
5,890,750 + +0.2
5,890,750 + +0.3
5,890,751 - -0.5
5,890,751 - -0.3
5,890,751 - +0.3
5,890,751 - +0.4
5,890,751 - -0.8
5,890,811 + +0.2
5,890,811 + +1.4
5,890,811 + +0.9
5,890,812 - -0.3
5,890,812 - +0.9
5,890,812 - +0.0
5,890,812 - +0.7
5,890,812 - -1.4
5,890,812 - -0.7
5,890,848 - -0.9
5,890,860 + +1.1
5,890,860 + +0.1
5,890,968 + PP_5165 0.17 -0.0
5,890,968 + PP_5165 0.17 -0.1
5,890,969 - PP_5165 0.17 +0.5
5,891,034 + PP_5165 0.26 +0.3
5,891,034 + PP_5165 0.26 +0.5
5,891,035 - PP_5165 0.26 +0.2
5,891,176 + PP_5165 0.44 +0.3
5,891,177 - PP_5165 0.44 -0.8
5,891,177 - PP_5165 0.44 +0.0
5,891,309 + PP_5165 0.61 -0.7
5,891,309 + PP_5165 0.61 +0.0
5,891,309 + PP_5165 0.61 +0.2
5,891,309 + PP_5165 0.61 +0.5
5,891,310 - PP_5165 0.61 -0.6
5,891,310 - PP_5165 0.61 -0.1
5,891,310 - PP_5165 0.61 -1.1
5,891,315 + PP_5165 0.61 +0.1
5,891,316 - PP_5165 0.62 -0.6
5,891,316 - PP_5165 0.62 +1.0
5,891,370 + +0.7
5,891,701 + +1.6

Or see this region's nucleotide sequence