Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS02075

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_RS02070 and BPHYT_RS02075 are separated by 700 nucleotidesBPHYT_RS02075 and BPHYT_RS02080 are separated by 205 nucleotides BPHYT_RS02070: BPHYT_RS02070 - hypothetical protein, at 474,239 to 474,784 _RS02070 BPHYT_RS02075: BPHYT_RS02075 - porin, at 475,485 to 476,570 _RS02075 BPHYT_RS02080: BPHYT_RS02080 - LysR family transcriptional regulator, at 476,776 to 477,714 _RS02080 Position (kb) 475 476 477Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 474.699 kb on - strand, within BPHYT_RS02070at 475.291 kb on + strandat 475.316 kb on - strandat 475.316 kb on - strandat 475.330 kb on - strandat 475.360 kb on + strandat 475.593 kb on + strandat 475.593 kb on + strandat 475.594 kb on - strand, within BPHYT_RS02075at 475.773 kb on + strand, within BPHYT_RS02075at 475.773 kb on + strand, within BPHYT_RS02075at 475.815 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strand, within BPHYT_RS02075at 475.944 kb on + strandat 475.971 kb on + strand, within BPHYT_RS02075at 475.971 kb on + strand, within BPHYT_RS02075at 476.068 kb on - strand, within BPHYT_RS02075at 476.068 kb on - strand, within BPHYT_RS02075at 476.068 kb on - strand, within BPHYT_RS02075at 476.068 kb on - strand, within BPHYT_RS02075at 476.125 kb on - strand, within BPHYT_RS02075at 476.125 kb on - strand, within BPHYT_RS02075at 476.157 kb on + strand, within BPHYT_RS02075at 476.158 kb on - strand, within BPHYT_RS02075at 476.158 kb on - strand, within BPHYT_RS02075at 476.158 kb on - strand, within BPHYT_RS02075at 476.163 kb on + strand, within BPHYT_RS02075at 476.164 kb on - strand, within BPHYT_RS02075at 476.164 kb on - strand, within BPHYT_RS02075at 476.263 kb on - strand, within BPHYT_RS02075at 476.295 kb on + strand, within BPHYT_RS02075at 476.295 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strand, within BPHYT_RS02075at 476.301 kb on + strandat 476.302 kb on - strand, within BPHYT_RS02075at 476.302 kb on - strand, within BPHYT_RS02075at 476.307 kb on + strand, within BPHYT_RS02075at 476.308 kb on - strand, within BPHYT_RS02075at 476.308 kb on - strand, within BPHYT_RS02075at 476.308 kb on - strand, within BPHYT_RS02075at 476.308 kb on - strand, within BPHYT_RS02075at 476.458 kb on - strand, within BPHYT_RS02075at 476.491 kb on - strandat 476.491 kb on - strandat 476.499 kb on + strandat 476.499 kb on + strandat 476.500 kb on - strandat 476.500 kb on - strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.505 kb on + strandat 476.506 kb on - strandat 476.506 kb on - strandat 476.506 kb on - strandat 476.506 kb on - strandat 476.506 kb on - strandat 476.541 kb on + strandat 476.615 kb on + strandat 476.729 kb on - strandat 476.782 kb on - strandat 476.972 kb on - strand, within BPHYT_RS02080at 477.149 kb on + strand, within BPHYT_RS02080at 477.149 kb on + strand, within BPHYT_RS02080at 477.150 kb on - strand, within BPHYT_RS02080at 477.346 kb on + strand, within BPHYT_RS02080at 477.346 kb on + strand, within BPHYT_RS02080at 477.347 kb on - strand, within BPHYT_RS02080at 477.347 kb on - strand, within BPHYT_RS02080

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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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474,699 - BPHYT_RS02070 0.84 -0.1
475,291 + +0.1
475,316 - +1.5
475,316 - -1.0
475,330 - -0.1
475,360 + -1.4
475,593 + -0.6
475,593 + +0.8
475,594 - BPHYT_RS02075 0.10 +0.8
475,773 + BPHYT_RS02075 0.27 +0.1
475,773 + BPHYT_RS02075 0.27 -1.8
475,815 + BPHYT_RS02075 0.30 -1.2
475,944 + BPHYT_RS02075 0.42 +0.3
475,944 + BPHYT_RS02075 0.42 +1.1
475,944 + BPHYT_RS02075 0.42 +0.1
475,944 + BPHYT_RS02075 0.42 +0.3
475,944 + BPHYT_RS02075 0.42 +1.0
475,944 + -0.3
475,971 + BPHYT_RS02075 0.45 -0.9
475,971 + BPHYT_RS02075 0.45 -0.4
476,068 - BPHYT_RS02075 0.54 +4.1
476,068 - BPHYT_RS02075 0.54 +0.1
476,068 - BPHYT_RS02075 0.54 +1.4
476,068 - BPHYT_RS02075 0.54 +1.9
476,125 - BPHYT_RS02075 0.59 -0.0
476,125 - BPHYT_RS02075 0.59 +1.8
476,157 + BPHYT_RS02075 0.62 +0.3
476,158 - BPHYT_RS02075 0.62 -0.1
476,158 - BPHYT_RS02075 0.62 -0.5
476,158 - BPHYT_RS02075 0.62 +1.2
476,163 + BPHYT_RS02075 0.62 -0.6
476,164 - BPHYT_RS02075 0.63 +0.2
476,164 - BPHYT_RS02075 0.63 -0.3
476,263 - BPHYT_RS02075 0.72 -0.8
476,295 + BPHYT_RS02075 0.75 -1.0
476,295 + BPHYT_RS02075 0.75 +0.8
476,301 + BPHYT_RS02075 0.75 -0.5
476,301 + BPHYT_RS02075 0.75 -0.3
476,301 + BPHYT_RS02075 0.75 -1.2
476,301 + BPHYT_RS02075 0.75 -0.5
476,301 + BPHYT_RS02075 0.75 -0.5
476,301 + +3.8
476,302 - BPHYT_RS02075 0.75 -0.1
476,302 - BPHYT_RS02075 0.75 +1.8
476,307 + BPHYT_RS02075 0.76 +0.8
476,308 - BPHYT_RS02075 0.76 -0.5
476,308 - BPHYT_RS02075 0.76 -0.6
476,308 - BPHYT_RS02075 0.76 +0.4
476,308 - BPHYT_RS02075 0.76 +3.4
476,458 - BPHYT_RS02075 0.90 +0.4
476,491 - +0.4
476,491 - -0.3
476,499 + +0.1
476,499 + +0.4
476,500 - +0.1
476,500 - -1.0
476,505 + +1.1
476,505 + +0.0
476,505 + -0.4
476,505 + -1.9
476,505 + -0.8
476,505 + -0.4
476,505 + -0.7
476,506 - -0.5
476,506 - -2.2
476,506 - +0.6
476,506 - -0.8
476,506 - +1.1
476,541 + -1.1
476,615 + +3.7
476,729 - -0.5
476,782 - -0.2
476,972 - BPHYT_RS02080 0.21 +1.5
477,149 + BPHYT_RS02080 0.40 -0.1
477,149 + BPHYT_RS02080 0.40 -1.8
477,150 - BPHYT_RS02080 0.40 +0.5
477,346 + BPHYT_RS02080 0.61 +0.4
477,346 + BPHYT_RS02080 0.61 -0.9
477,347 - BPHYT_RS02080 0.61 +0.5
477,347 - BPHYT_RS02080 0.61 -0.0

Or see this region's nucleotide sequence