Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS00385

Experiment: Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10

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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 ntBPHYT_RS00375 and BPHYT_RS00380 are separated by 134 nucleotidesBPHYT_RS00380 and BPHYT_RS00385 overlap by 4 nucleotidesBPHYT_RS00385 and BPHYT_RS00390 are separated by 229 nucleotides BPHYT_RS00375: BPHYT_RS00375 - sugar ABC transporter, at 94,579 to 95,499 _RS00375 BPHYT_RS00380: BPHYT_RS00380 - 3-octaprenyl-4-hydroxybenzoate carboxy-lyase, at 95,634 to 96,227 _RS00380 BPHYT_RS00385: BPHYT_RS00385 - decarboxylase, at 96,224 to 97,567 _RS00385 BPHYT_RS00390: BPHYT_RS00390 - AraC family transcriptional regulator, at 97,797 to 98,831 _RS00390 Position (kb) 96 97 98Strain fitness (log2 ratio) -2 -1 0 1 2at 95.397 kb on + strand, within BPHYT_RS00375at 95.398 kb on - strand, within BPHYT_RS00375at 95.405 kb on + strand, within BPHYT_RS00375at 95.406 kb on - strand, within BPHYT_RS00375at 95.504 kb on - strandat 95.704 kb on - strand, within BPHYT_RS00380at 95.965 kb on - strand, within BPHYT_RS00380at 95.965 kb on - strand, within BPHYT_RS00380at 96.164 kb on - strand, within BPHYT_RS00380at 96.382 kb on - strand, within BPHYT_RS00385at 96.382 kb on - strand, within BPHYT_RS00385at 96.419 kb on - strand, within BPHYT_RS00385at 96.468 kb on + strand, within BPHYT_RS00385at 96.468 kb on + strand, within BPHYT_RS00385at 96.468 kb on + strand, within BPHYT_RS00385at 96.469 kb on - strand, within BPHYT_RS00385at 96.469 kb on - strand, within BPHYT_RS00385at 96.510 kb on + strand, within BPHYT_RS00385at 96.565 kb on - strand, within BPHYT_RS00385at 96.589 kb on + strand, within BPHYT_RS00385at 96.590 kb on - strand, within BPHYT_RS00385at 96.623 kb on + strand, within BPHYT_RS00385at 96.623 kb on + strand, within BPHYT_RS00385at 96.623 kb on + strand, within BPHYT_RS00385at 96.623 kb on + strand, within BPHYT_RS00385at 96.624 kb on - strand, within BPHYT_RS00385at 96.654 kb on + strand, within BPHYT_RS00385at 96.654 kb on + strand, within BPHYT_RS00385at 96.655 kb on - strand, within BPHYT_RS00385at 96.658 kb on + strand, within BPHYT_RS00385at 96.789 kb on + strand, within BPHYT_RS00385at 96.790 kb on - strand, within BPHYT_RS00385at 96.790 kb on - strand, within BPHYT_RS00385at 96.790 kb on - strand, within BPHYT_RS00385at 96.832 kb on + strand, within BPHYT_RS00385at 96.993 kb on - strand, within BPHYT_RS00385at 97.218 kb on + strand, within BPHYT_RS00385at 97.557 kb on + strandat 97.557 kb on + strandat 97.690 kb on + strandat 97.758 kb on + strandat 97.918 kb on + strand, within BPHYT_RS00390at 97.918 kb on + strand, within BPHYT_RS00390at 97.919 kb on - strand, within BPHYT_RS00390at 97.919 kb on - strand, within BPHYT_RS00390at 97.919 kb on - strand, within BPHYT_RS00390at 97.920 kb on + strand, within BPHYT_RS00390at 97.920 kb on + strand, within BPHYT_RS00390at 97.920 kb on + strand, within BPHYT_RS00390at 97.971 kb on - strand, within BPHYT_RS00390at 98.176 kb on - strand, within BPHYT_RS00390at 98.235 kb on + strand, within BPHYT_RS00390at 98.409 kb on + strand, within BPHYT_RS00390at 98.434 kb on + strand, within BPHYT_RS00390at 98.498 kb on - strand, within BPHYT_RS00390at 98.498 kb on - strand, within BPHYT_RS00390

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10
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95,397 + BPHYT_RS00375 0.89 -0.3
95,398 - BPHYT_RS00375 0.89 +1.6
95,405 + BPHYT_RS00375 0.90 -0.0
95,406 - BPHYT_RS00375 0.90 -1.7
95,504 - -0.4
95,704 - BPHYT_RS00380 0.12 -1.1
95,965 - BPHYT_RS00380 0.56 -0.1
95,965 - BPHYT_RS00380 0.56 -0.9
96,164 - BPHYT_RS00380 0.89 +1.1
96,382 - BPHYT_RS00385 0.12 +0.5
96,382 - BPHYT_RS00385 0.12 -1.9
96,419 - BPHYT_RS00385 0.15 +0.2
96,468 + BPHYT_RS00385 0.18 +0.4
96,468 + BPHYT_RS00385 0.18 +0.5
96,468 + BPHYT_RS00385 0.18 -0.1
96,469 - BPHYT_RS00385 0.18 +0.1
96,469 - BPHYT_RS00385 0.18 -1.0
96,510 + BPHYT_RS00385 0.21 +0.0
96,565 - BPHYT_RS00385 0.25 -0.5
96,589 + BPHYT_RS00385 0.27 -1.5
96,590 - BPHYT_RS00385 0.27 +1.7
96,623 + BPHYT_RS00385 0.30 +0.3
96,623 + BPHYT_RS00385 0.30 +1.1
96,623 + BPHYT_RS00385 0.30 -0.9
96,623 + BPHYT_RS00385 0.30 -0.7
96,624 - BPHYT_RS00385 0.30 -0.0
96,654 + BPHYT_RS00385 0.32 +0.5
96,654 + BPHYT_RS00385 0.32 +0.5
96,655 - BPHYT_RS00385 0.32 +1.8
96,658 + BPHYT_RS00385 0.32 +0.7
96,789 + BPHYT_RS00385 0.42 +0.4
96,790 - BPHYT_RS00385 0.42 +0.4
96,790 - BPHYT_RS00385 0.42 -0.2
96,790 - BPHYT_RS00385 0.42 +0.8
96,832 + BPHYT_RS00385 0.45 +0.6
96,993 - BPHYT_RS00385 0.57 -0.8
97,218 + BPHYT_RS00385 0.74 +0.1
97,557 + -1.0
97,557 + +0.1
97,690 + -1.1
97,758 + -1.3
97,918 + BPHYT_RS00390 0.12 +0.4
97,918 + BPHYT_RS00390 0.12 -0.1
97,919 - BPHYT_RS00390 0.12 +0.2
97,919 - BPHYT_RS00390 0.12 -0.2
97,919 - BPHYT_RS00390 0.12 +1.6
97,920 + BPHYT_RS00390 0.12 -0.3
97,920 + BPHYT_RS00390 0.12 -1.0
97,920 + BPHYT_RS00390 0.12 +0.0
97,971 - BPHYT_RS00390 0.17 -0.3
98,176 - BPHYT_RS00390 0.37 -1.0
98,235 + BPHYT_RS00390 0.42 +1.5
98,409 + BPHYT_RS00390 0.59 +0.8
98,434 + BPHYT_RS00390 0.62 -1.4
98,498 - BPHYT_RS00390 0.68 +1.4
98,498 - BPHYT_RS00390 0.68 -1.8

Or see this region's nucleotide sequence