Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS02705

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

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntBPHYT_RS02695 and BPHYT_RS02700 are separated by 67 nucleotidesBPHYT_RS02700 and BPHYT_RS02705 are separated by 265 nucleotidesBPHYT_RS02705 and BPHYT_RS02710 are separated by 52 nucleotidesBPHYT_RS02710 and BPHYT_RS02715 are separated by 11 nucleotides BPHYT_RS02695: BPHYT_RS02695 - photosynthetic protein synthase I, at 605,154 to 605,771 _RS02695 BPHYT_RS02700: BPHYT_RS02700 - hypothetical protein, at 605,839 to 606,129 _RS02700 BPHYT_RS02705: BPHYT_RS02705 - membrane protein, at 606,395 to 608,269 _RS02705 BPHYT_RS02710: BPHYT_RS02710 - hypothetical protein, at 608,322 to 608,507 _RS02710 BPHYT_RS02715: BPHYT_RS02715 - dioxygenase, at 608,519 to 609,331 _RS02715 Position (kb) 606 607 608 609Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2at 605.526 kb on + strand, within BPHYT_RS02695at 605.527 kb on - strand, within BPHYT_RS02695at 605.527 kb on - strand, within BPHYT_RS02695at 605.650 kb on - strand, within BPHYT_RS02695at 605.650 kb on - strand, within BPHYT_RS02695at 605.676 kb on + strand, within BPHYT_RS02695at 605.676 kb on + strand, within BPHYT_RS02695at 605.677 kb on - strand, within BPHYT_RS02695at 605.677 kb on - strand, within BPHYT_RS02695at 606.107 kb on + strandat 606.107 kb on + strandat 606.108 kb on - strandat 606.111 kb on + strandat 606.112 kb on - strandat 606.125 kb on + strandat 606.125 kb on + strandat 606.126 kb on - strandat 606.126 kb on - strandat 606.298 kb on - strandat 606.298 kb on - strandat 606.298 kb on - strandat 606.305 kb on + strandat 606.328 kb on - strandat 606.414 kb on + strandat 606.415 kb on - strandat 606.415 kb on - strandat 606.415 kb on - strandat 606.416 kb on - strandat 606.761 kb on + strand, within BPHYT_RS02705at 606.860 kb on + strand, within BPHYT_RS02705at 606.860 kb on + strand, within BPHYT_RS02705at 606.860 kb on + strand, within BPHYT_RS02705at 606.861 kb on - strand, within BPHYT_RS02705at 606.861 kb on - strand, within BPHYT_RS02705at 606.861 kb on - strand, within BPHYT_RS02705at 606.935 kb on + strand, within BPHYT_RS02705at 606.936 kb on - strand, within BPHYT_RS02705at 607.370 kb on - strand, within BPHYT_RS02705at 608.333 kb on - strandat 608.339 kb on - strandat 608.352 kb on - strand, within BPHYT_RS02710at 608.499 kb on + strandat 608.717 kb on + strand, within BPHYT_RS02715at 608.718 kb on - strand, within BPHYT_RS02715at 608.783 kb on + strand, within BPHYT_RS02715at 608.784 kb on - strand, within BPHYT_RS02715at 608.813 kb on + strand, within BPHYT_RS02715at 608.813 kb on + strand, within BPHYT_RS02715at 608.840 kb on + strand, within BPHYT_RS02715at 608.840 kb on + strand, within BPHYT_RS02715at 608.840 kb on + strand, within BPHYT_RS02715at 608.840 kb on + strand, within BPHYT_RS02715at 608.840 kb on + strand, within BPHYT_RS02715at 608.841 kb on - strand, within BPHYT_RS02715at 608.841 kb on - strand, within BPHYT_RS02715at 608.841 kb on - strand, within BPHYT_RS02715at 608.841 kb on - strand, within BPHYT_RS02715at 608.841 kb on - strand, within BPHYT_RS02715at 608.861 kb on + strand, within BPHYT_RS02715at 609.011 kb on - strand, within BPHYT_RS02715at 609.187 kb on + strand, within BPHYT_RS02715at 609.226 kb on + strand, within BPHYT_RS02715at 609.227 kb on - strand, within BPHYT_RS02715at 609.264 kb on - strand

download strain data

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
remove
605,526 + BPHYT_RS02695 0.60 -2.6
605,527 - BPHYT_RS02695 0.60 -3.6
605,527 - BPHYT_RS02695 0.60 -1.9
605,650 - BPHYT_RS02695 0.80 -1.1
605,650 - BPHYT_RS02695 0.80 +0.4
605,676 + BPHYT_RS02695 0.84 -1.7
605,676 + BPHYT_RS02695 0.84 -0.5
605,677 - BPHYT_RS02695 0.85 -0.5
605,677 - BPHYT_RS02695 0.85 -2.0
606,107 + +0.7
606,107 + +1.2
606,108 - -6.4
606,111 + +0.6
606,112 - -0.3
606,125 + +0.9
606,125 + +0.7
606,126 - +1.0
606,126 - +0.1
606,298 - -1.0
606,298 - +0.6
606,298 - -2.3
606,305 + +0.2
606,328 - +0.7
606,414 + +0.2
606,415 - -0.6
606,415 - +1.0
606,415 - +0.3
606,416 - -3.1
606,761 + BPHYT_RS02705 0.20 -0.3
606,860 + BPHYT_RS02705 0.25 -0.5
606,860 + BPHYT_RS02705 0.25 -0.8
606,860 + BPHYT_RS02705 0.25 -0.8
606,861 - BPHYT_RS02705 0.25 +2.6
606,861 - BPHYT_RS02705 0.25 +0.3
606,861 - BPHYT_RS02705 0.25 -0.7
606,935 + BPHYT_RS02705 0.29 -0.5
606,936 - BPHYT_RS02705 0.29 -0.4
607,370 - BPHYT_RS02705 0.52 +0.5
608,333 - -0.1
608,339 - -0.4
608,352 - BPHYT_RS02710 0.16 +0.1
608,499 + +0.2
608,717 + BPHYT_RS02715 0.24 -0.3
608,718 - BPHYT_RS02715 0.24 +0.3
608,783 + BPHYT_RS02715 0.32 +1.3
608,784 - BPHYT_RS02715 0.33 -0.8
608,813 + BPHYT_RS02715 0.36 +2.3
608,813 + BPHYT_RS02715 0.36 -0.0
608,840 + BPHYT_RS02715 0.39 +1.5
608,840 + BPHYT_RS02715 0.39 +0.5
608,840 + BPHYT_RS02715 0.39 +0.1
608,840 + BPHYT_RS02715 0.39 -0.3
608,840 + BPHYT_RS02715 0.39 +1.0
608,841 - BPHYT_RS02715 0.40 -2.7
608,841 - BPHYT_RS02715 0.40 -0.1
608,841 - BPHYT_RS02715 0.40 +0.2
608,841 - BPHYT_RS02715 0.40 -1.1
608,841 - BPHYT_RS02715 0.40 -0.1
608,861 + BPHYT_RS02715 0.42 +0.3
609,011 - BPHYT_RS02715 0.61 +0.3
609,187 + BPHYT_RS02715 0.82 +0.5
609,226 + BPHYT_RS02715 0.87 -0.7
609,227 - BPHYT_RS02715 0.87 -1.4
609,264 - -0.2

Or see this region's nucleotide sequence