Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS02555

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_RS02550 and BPHYT_RS02555 are separated by 236 nucleotidesBPHYT_RS02555 and BPHYT_RS02560 are separated by 101 nucleotides BPHYT_RS02550: BPHYT_RS02550 - ammonia channel protein, at 578,436 to 579,944 _RS02550 BPHYT_RS02555: BPHYT_RS02555 - glutamate--cysteine ligase, at 580,181 to 581,470 _RS02555 BPHYT_RS02560: BPHYT_RS02560 - glutathione synthetase, at 581,572 to 582,528 _RS02560 Position (kb) 580 581 582Strain fitness (log2 ratio) -7 -6 -5 -4 -3 -2 -1 0 1at 579.353 kb on + strand, within BPHYT_RS02550at 579.353 kb on + strand, within BPHYT_RS02550at 579.354 kb on - strand, within BPHYT_RS02550at 579.822 kb on + strandat 579.840 kb on + strandat 579.841 kb on - strandat 579.841 kb on - strandat 579.942 kb on + strandat 579.943 kb on - strandat 579.943 kb on - strandat 579.985 kb on - strandat 580.041 kb on + strandat 580.041 kb on + strandat 580.048 kb on + strandat 580.048 kb on + strandat 580.048 kb on + strandat 580.049 kb on - strandat 580.069 kb on + strandat 580.070 kb on - strandat 580.070 kb on - strandat 580.081 kb on - strandat 580.149 kb on - strandat 580.194 kb on + strandat 580.195 kb on - strandat 580.195 kb on - strandat 580.308 kb on - strandat 580.505 kb on + strand, within BPHYT_RS02555at 580.757 kb on + strand, within BPHYT_RS02555at 580.757 kb on + strand, within BPHYT_RS02555at 580.758 kb on - strandat 580.758 kb on - strand, within BPHYT_RS02555at 580.792 kb on - strand, within BPHYT_RS02555at 580.820 kb on + strand, within BPHYT_RS02555at 580.883 kb on + strand, within BPHYT_RS02555at 580.884 kb on - strand, within BPHYT_RS02555at 580.884 kb on - strand, within BPHYT_RS02555at 580.983 kb on - strand, within BPHYT_RS02555at 581.012 kb on + strand, within BPHYT_RS02555at 581.012 kb on + strand, within BPHYT_RS02555at 581.012 kb on + strand, within BPHYT_RS02555at 581.013 kb on - strand, within BPHYT_RS02555at 581.013 kb on - strand, within BPHYT_RS02555at 581.043 kb on - strand, within BPHYT_RS02555at 581.171 kb on + strand, within BPHYT_RS02555at 581.171 kb on + strand, within BPHYT_RS02555at 581.172 kb on - strand, within BPHYT_RS02555at 581.216 kb on + strand, within BPHYT_RS02555at 581.216 kb on + strand, within BPHYT_RS02555at 581.216 kb on + strand, within BPHYT_RS02555at 581.231 kb on + strand, within BPHYT_RS02555at 581.384 kb on + strandat 581.385 kb on - strandat 581.385 kb on - strandat 581.385 kb on - strandat 581.386 kb on + strandat 581.386 kb on + strandat 581.386 kb on + strandat 581.387 kb on - strandat 581.387 kb on - strandat 581.387 kb on - strandat 581.387 kb on - strandat 581.390 kb on + strandat 581.390 kb on + strandat 581.390 kb on + strandat 581.390 kb on + strandat 581.390 kb on + strandat 581.391 kb on - strandat 581.391 kb on - strandat 581.468 kb on + strandat 581.469 kb on - strandat 581.525 kb on + strandat 581.527 kb on + strandat 581.527 kb on + strandat 581.527 kb on + strandat 581.527 kb on + strandat 581.527 kb on + strandat 581.528 kb on - strandat 581.528 kb on - strandat 581.532 kb on - strandat 581.617 kb on + strandat 581.632 kb on + strandat 581.674 kb on + strand, within BPHYT_RS02560at 581.674 kb on + strand, within BPHYT_RS02560at 581.675 kb on - strand, within BPHYT_RS02560at 581.675 kb on - strand, within BPHYT_RS02560at 581.675 kb on - strand, within BPHYT_RS02560at 581.739 kb on + strand, within BPHYT_RS02560at 581.739 kb on + strand, within BPHYT_RS02560at 581.740 kb on - strand, within BPHYT_RS02560at 581.740 kb on - strand, within BPHYT_RS02560at 581.866 kb on + strand, within BPHYT_RS02560at 581.867 kb on - strand, within BPHYT_RS02560at 581.867 kb on - strand, within BPHYT_RS02560at 581.867 kb on - strand, within BPHYT_RS02560at 581.867 kb on - strand, within BPHYT_RS02560at 581.867 kb on - strand, within BPHYT_RS02560

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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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579,353 + BPHYT_RS02550 0.61 -0.4
579,353 + BPHYT_RS02550 0.61 -1.1
579,354 - BPHYT_RS02550 0.61 -0.0
579,822 + +0.2
579,840 + -0.3
579,841 - -0.1
579,841 - -1.1
579,942 + -0.1
579,943 - +0.0
579,943 - +0.3
579,985 - -0.4
580,041 + +0.6
580,041 + -0.7
580,048 + -0.6
580,048 + +1.5
580,048 + +0.4
580,049 - +0.2
580,069 + +0.1
580,070 - -0.1
580,070 - -1.3
580,081 - -0.7
580,149 - +1.2
580,194 + -2.1
580,195 - -3.9
580,195 - -1.2
580,308 - -2.7
580,505 + BPHYT_RS02555 0.25 -2.1
580,757 + BPHYT_RS02555 0.45 -5.3
580,757 + BPHYT_RS02555 0.45 -3.5
580,758 - -2.0
580,758 - BPHYT_RS02555 0.45 -3.8
580,792 - BPHYT_RS02555 0.47 -1.3
580,820 + BPHYT_RS02555 0.50 -3.7
580,883 + BPHYT_RS02555 0.54 -2.7
580,884 - BPHYT_RS02555 0.54 -2.9
580,884 - BPHYT_RS02555 0.54 -1.7
580,983 - BPHYT_RS02555 0.62 -3.8
581,012 + BPHYT_RS02555 0.64 -6.7
581,012 + BPHYT_RS02555 0.64 -2.5
581,012 + BPHYT_RS02555 0.64 -3.7
581,013 - BPHYT_RS02555 0.64 -6.9
581,013 - BPHYT_RS02555 0.64 -4.5
581,043 - BPHYT_RS02555 0.67 -6.5
581,171 + BPHYT_RS02555 0.77 -4.1
581,171 + BPHYT_RS02555 0.77 -4.8
581,172 - BPHYT_RS02555 0.77 -1.8
581,216 + BPHYT_RS02555 0.80 -0.5
581,216 + BPHYT_RS02555 0.80 -1.0
581,216 + BPHYT_RS02555 0.80 -4.4
581,231 + BPHYT_RS02555 0.81 -3.7
581,384 + -2.7
581,385 - -4.4
581,385 - -4.8
581,385 - -6.2
581,386 + -4.6
581,386 + -4.2
581,386 + -4.3
581,387 - -2.1
581,387 - -6.2
581,387 - -4.2
581,387 - -1.7
581,390 + -4.7
581,390 + -4.0
581,390 + -2.7
581,390 + -2.3
581,390 + +0.3
581,391 - -5.3
581,391 - -4.7
581,468 + +0.3
581,469 - -0.3
581,525 + -1.6
581,527 + -1.6
581,527 + -0.0
581,527 + -0.4
581,527 + -0.2
581,527 + -0.5
581,528 - -2.3
581,528 - -1.1
581,532 - -0.6
581,617 + -3.1
581,632 + -3.1
581,674 + BPHYT_RS02560 0.11 -1.4
581,674 + BPHYT_RS02560 0.11 +0.3
581,675 - BPHYT_RS02560 0.11 -4.8
581,675 - BPHYT_RS02560 0.11 -2.7
581,675 - BPHYT_RS02560 0.11 +0.0
581,739 + BPHYT_RS02560 0.17 -3.5
581,739 + BPHYT_RS02560 0.17 -2.7
581,740 - BPHYT_RS02560 0.18 -3.9
581,740 - BPHYT_RS02560 0.18 -1.3
581,866 + BPHYT_RS02560 0.31 -2.6
581,867 - BPHYT_RS02560 0.31 -2.3
581,867 - BPHYT_RS02560 0.31 -1.0
581,867 - BPHYT_RS02560 0.31 -0.0
581,867 - BPHYT_RS02560 0.31 -2.7
581,867 - BPHYT_RS02560 0.31 -3.1

Or see this region's nucleotide sequence