Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS34520

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_RS34515 and BPHYT_RS34520 are separated by 56 nucleotidesBPHYT_RS34520 and BPHYT_RS34525 overlap by 4 nucleotides BPHYT_RS34515: BPHYT_RS34515 - MFS transporter, at 3,350,968 to 3,352,299 _RS34515 BPHYT_RS34520: BPHYT_RS34520 - hydroxymethylglutaryl-CoA lyase, at 3,352,356 to 3,353,312 _RS34520 BPHYT_RS34525: BPHYT_RS34525 - carnitine dehydratase, at 3,353,309 to 3,354,502 _RS34525 Position (kb) 3352 3353 3354Strain fitness (log2 ratio) -3 -2 -1 0 1at 3351.380 kb on - strand, within BPHYT_RS34515at 3351.402 kb on + strand, within BPHYT_RS34515at 3351.403 kb on - strand, within BPHYT_RS34515at 3351.404 kb on + strand, within BPHYT_RS34515at 3351.404 kb on + strand, within BPHYT_RS34515at 3351.405 kb on - strand, within BPHYT_RS34515at 3351.515 kb on + strand, within BPHYT_RS34515at 3351.516 kb on - strand, within BPHYT_RS34515at 3351.516 kb on - strand, within BPHYT_RS34515at 3351.841 kb on - strand, within BPHYT_RS34515at 3351.841 kb on - strand, within BPHYT_RS34515at 3351.841 kb on - strand, within BPHYT_RS34515at 3351.878 kb on + strand, within BPHYT_RS34515at 3352.034 kb on + strand, within BPHYT_RS34515at 3352.034 kb on + strand, within BPHYT_RS34515at 3352.071 kb on - strand, within BPHYT_RS34515at 3352.071 kb on - strand, within BPHYT_RS34515at 3352.350 kb on + strandat 3352.351 kb on - strandat 3352.375 kb on + strandat 3352.384 kb on - strandat 3352.628 kb on - strand, within BPHYT_RS34520at 3352.628 kb on - strand, within BPHYT_RS34520at 3352.798 kb on + strand, within BPHYT_RS34520at 3352.802 kb on + strand, within BPHYT_RS34520at 3352.803 kb on - strand, within BPHYT_RS34520at 3352.871 kb on + strand, within BPHYT_RS34520at 3353.066 kb on - strand, within BPHYT_RS34520at 3353.162 kb on + strand, within BPHYT_RS34520at 3353.180 kb on + strand, within BPHYT_RS34520at 3353.387 kb on - strandat 3353.448 kb on - strand, within BPHYT_RS34525at 3353.551 kb on - strand, within BPHYT_RS34525at 3353.795 kb on - strand, within BPHYT_RS34525at 3353.795 kb on - strand, within BPHYT_RS34525at 3353.859 kb on + strand, within BPHYT_RS34525

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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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3,351,380 - BPHYT_RS34515 0.31 -0.3
3,351,402 + BPHYT_RS34515 0.33 +1.4
3,351,403 - BPHYT_RS34515 0.33 +0.2
3,351,404 + BPHYT_RS34515 0.33 -1.4
3,351,404 + BPHYT_RS34515 0.33 +1.1
3,351,405 - BPHYT_RS34515 0.33 -2.8
3,351,515 + BPHYT_RS34515 0.41 +1.0
3,351,516 - BPHYT_RS34515 0.41 -0.4
3,351,516 - BPHYT_RS34515 0.41 +0.0
3,351,841 - BPHYT_RS34515 0.66 -1.4
3,351,841 - BPHYT_RS34515 0.66 -1.7
3,351,841 - BPHYT_RS34515 0.66 -0.8
3,351,878 + BPHYT_RS34515 0.68 +0.5
3,352,034 + BPHYT_RS34515 0.80 +0.7
3,352,034 + BPHYT_RS34515 0.80 +0.3
3,352,071 - BPHYT_RS34515 0.83 +0.7
3,352,071 - BPHYT_RS34515 0.83 -1.2
3,352,350 + +0.9
3,352,351 - +0.0
3,352,375 + +0.9
3,352,384 - -0.3
3,352,628 - BPHYT_RS34520 0.28 -0.1
3,352,628 - BPHYT_RS34520 0.28 -0.1
3,352,798 + BPHYT_RS34520 0.46 -1.0
3,352,802 + BPHYT_RS34520 0.47 -0.3
3,352,803 - BPHYT_RS34520 0.47 -0.4
3,352,871 + BPHYT_RS34520 0.54 +0.7
3,353,066 - BPHYT_RS34520 0.74 -0.9
3,353,162 + BPHYT_RS34520 0.84 -1.7
3,353,180 + BPHYT_RS34520 0.86 +0.8
3,353,387 - -1.4
3,353,448 - BPHYT_RS34525 0.12 -0.6
3,353,551 - BPHYT_RS34525 0.20 -0.6
3,353,795 - BPHYT_RS34525 0.41 -0.7
3,353,795 - BPHYT_RS34525 0.41 -1.5
3,353,859 + BPHYT_RS34525 0.46 -2.0

Or see this region's nucleotide sequence