Strain Fitness in Pseudomonas putida KT2440 around PP_4547

Experiment: Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_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_4546 and PP_4547 are separated by 503 nucleotidesPP_4547 and PP_4548 are separated by 24 nucleotides PP_4546: PP_4546 - ATP-dependent helicase HrpA, at 5,163,974 to 5,167,879 _4546 PP_4547: PP_4547 - putative Glutamine synthetase, at 5,168,383 to 5,169,747 _4547 PP_4548: PP_4548 - putative Oxidoreductase, at 5,169,772 to 5,171,079 _4548 Position (kb) 5168 5169 5170Strain fitness (log2 ratio) -2 -1 0 1 2 3at 5167.399 kb on + strand, within PP_4546at 5167.400 kb on - strand, within PP_4546at 5167.400 kb on - strand, within PP_4546at 5167.492 kb on + strandat 5167.617 kb on - strandat 5167.617 kb on - strandat 5167.688 kb on + strandat 5167.689 kb on - strandat 5167.890 kb on - strandat 5168.009 kb on - strandat 5168.076 kb on + strandat 5168.109 kb on - strandat 5168.367 kb on + strandat 5168.368 kb on - strandat 5168.399 kb on + strandat 5168.400 kb on - strandat 5168.522 kb on - strand, within PP_4547at 5168.522 kb on - strand, within PP_4547at 5168.633 kb on - strand, within PP_4547at 5168.788 kb on + strand, within PP_4547at 5168.788 kb on + strand, within PP_4547at 5168.788 kb on + strand, within PP_4547at 5168.789 kb on - strand, within PP_4547at 5168.821 kb on + strand, within PP_4547at 5168.822 kb on - strand, within PP_4547at 5168.822 kb on - strand, within PP_4547at 5168.822 kb on - strand, within PP_4547at 5168.908 kb on + strand, within PP_4547at 5168.908 kb on + strand, within PP_4547at 5168.909 kb on - strand, within PP_4547at 5168.909 kb on - strand, within PP_4547at 5168.957 kb on - strand, within PP_4547at 5168.957 kb on - strand, within PP_4547at 5169.080 kb on - strand, within PP_4547at 5169.346 kb on + strand, within PP_4547at 5169.346 kb on + strand, within PP_4547at 5169.347 kb on - strand, within PP_4547at 5169.347 kb on - strand, within PP_4547at 5169.347 kb on - strand, within PP_4547at 5169.347 kb on - strand, within PP_4547at 5169.467 kb on - strand, within PP_4547at 5169.553 kb on + strand, within PP_4547at 5169.554 kb on - strand, within PP_4547at 5169.730 kb on + strandat 5169.753 kb on + strandat 5169.753 kb on + strandat 5169.754 kb on - strandat 5169.757 kb on + strandat 5169.757 kb on + strandat 5169.758 kb on - strandat 5169.758 kb on - strandat 5169.758 kb on - strandat 5169.758 kb on - strandat 5169.817 kb on + strandat 5169.817 kb on + strandat 5169.817 kb on + strandat 5169.818 kb on - strandat 5169.818 kb on - strandat 5169.820 kb on + strandat 5169.820 kb on + strandat 5169.820 kb on + strandat 5169.820 kb on + strandat 5169.820 kb on + strandat 5169.821 kb on - strandat 5169.821 kb on - strandat 5169.821 kb on - strandat 5169.821 kb on - strandat 5169.907 kb on - strand, within PP_4548at 5170.312 kb on + strand, within PP_4548at 5170.312 kb on + strand, within PP_4548at 5170.313 kb on - strand, within PP_4548at 5170.516 kb on + strand, within PP_4548at 5170.516 kb on + strand, within PP_4548at 5170.517 kb on - strand, within PP_4548at 5170.517 kb on - strand, within PP_4548at 5170.636 kb on + strand, within PP_4548at 5170.637 kb on - strand, within PP_4548at 5170.637 kb on - strand, within PP_4548at 5170.660 kb on + strand, within PP_4548at 5170.660 kb on + strand, within PP_4548at 5170.661 kb on - strand, within PP_4548at 5170.661 kb on - strand, within PP_4548at 5170.663 kb on + strand, within PP_4548at 5170.663 kb on + strand, within PP_4548at 5170.664 kb on - strand, within PP_4548at 5170.711 kb on + strand, within PP_4548at 5170.711 kb on + strand, within PP_4548at 5170.712 kb on - strand, within PP_4548at 5170.712 kb on - strand, within PP_4548at 5170.712 kb on - strand, within PP_4548at 5170.712 kb on - strand, within PP_4548

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=20h_outgrowth_LB; Time=7_days
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5,167,399 + PP_4546 0.88 -0.5
5,167,400 - PP_4546 0.88 -2.7
5,167,400 - PP_4546 0.88 +0.0
5,167,492 + -1.3
5,167,617 - -0.2
5,167,617 - -1.0
5,167,688 + -1.0
5,167,689 - +0.2
5,167,890 - -0.5
5,168,009 - +0.1
5,168,076 + -2.5
5,168,109 - -0.6
5,168,367 + -0.3
5,168,368 - -0.3
5,168,399 + -0.3
5,168,400 - -1.0
5,168,522 - PP_4547 0.10 +3.5
5,168,522 - PP_4547 0.10 +0.4
5,168,633 - PP_4547 0.18 +0.4
5,168,788 + PP_4547 0.30 -0.0
5,168,788 + PP_4547 0.30 +0.9
5,168,788 + PP_4547 0.30 -0.6
5,168,789 - PP_4547 0.30 +2.1
5,168,821 + PP_4547 0.32 -0.7
5,168,822 - PP_4547 0.32 +1.9
5,168,822 - PP_4547 0.32 +0.8
5,168,822 - PP_4547 0.32 -0.9
5,168,908 + PP_4547 0.38 +0.3
5,168,908 + PP_4547 0.38 +0.0
5,168,909 - PP_4547 0.39 -0.3
5,168,909 - PP_4547 0.39 +0.7
5,168,957 - PP_4547 0.42 +0.6
5,168,957 - PP_4547 0.42 -0.7
5,169,080 - PP_4547 0.51 +0.5
5,169,346 + PP_4547 0.71 -0.4
5,169,346 + PP_4547 0.71 +0.7
5,169,347 - PP_4547 0.71 +3.2
5,169,347 - PP_4547 0.71 +0.4
5,169,347 - PP_4547 0.71 -0.2
5,169,347 - PP_4547 0.71 -0.3
5,169,467 - PP_4547 0.79 -0.1
5,169,553 + PP_4547 0.86 -0.3
5,169,554 - PP_4547 0.86 +0.2
5,169,730 + +0.4
5,169,753 + +1.8
5,169,753 + -0.3
5,169,754 - +0.8
5,169,757 + -0.6
5,169,757 + +0.2
5,169,758 - +0.0
5,169,758 - +0.1
5,169,758 - +0.8
5,169,758 - +0.4
5,169,817 + -0.6
5,169,817 + -0.4
5,169,817 + -0.0
5,169,818 - -0.6
5,169,818 - +0.3
5,169,820 + -0.6
5,169,820 + -0.6
5,169,820 + +1.0
5,169,820 + -0.4
5,169,820 + +0.1
5,169,821 - +0.1
5,169,821 - -1.9
5,169,821 - +0.0
5,169,821 - +1.0
5,169,907 - PP_4548 0.10 -1.0
5,170,312 + PP_4548 0.41 -0.4
5,170,312 + PP_4548 0.41 -0.7
5,170,313 - PP_4548 0.41 -1.5
5,170,516 + PP_4548 0.57 +0.1
5,170,516 + PP_4548 0.57 +0.4
5,170,517 - PP_4548 0.57 -1.1
5,170,517 - PP_4548 0.57 -0.0
5,170,636 + PP_4548 0.66 -0.0
5,170,637 - PP_4548 0.66 -1.5
5,170,637 - PP_4548 0.66 +0.8
5,170,660 + PP_4548 0.68 -0.4
5,170,660 + PP_4548 0.68 +0.6
5,170,661 - PP_4548 0.68 +0.9
5,170,661 - PP_4548 0.68 -0.2
5,170,663 + PP_4548 0.68 +1.5
5,170,663 + PP_4548 0.68 -0.2
5,170,664 - PP_4548 0.68 -0.0
5,170,711 + PP_4548 0.72 +0.7
5,170,711 + PP_4548 0.72 +0.6
5,170,712 - PP_4548 0.72 -0.1
5,170,712 - PP_4548 0.72 +0.4
5,170,712 - PP_4548 0.72 -0.3
5,170,712 - PP_4548 0.72 +0.3

Or see this region's nucleotide sequence