Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS00310

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_RS00305 and BPHYT_RS00310 are separated by 516 nucleotidesBPHYT_RS00310 and BPHYT_RS00315 are separated by 774 nucleotides BPHYT_RS00305: BPHYT_RS00305 - ABC transporter substrate-binding protein, at 75,327 to 76,892 _RS00305 BPHYT_RS00310: BPHYT_RS00310 - hypothetical protein, at 77,409 to 78,389 _RS00310 BPHYT_RS00315: BPHYT_RS00315 - hypothetical protein, at 79,164 to 79,841 _RS00315 Position (kb) 77 78 79Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.432 kb on - strand, within BPHYT_RS00305at 76.506 kb on + strandat 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.632 kb on - strand, within BPHYT_RS00305at 76.641 kb on + strand, within BPHYT_RS00305at 76.641 kb on + strand, within BPHYT_RS00305at 76.642 kb on - strand, within BPHYT_RS00305at 76.927 kb on - strandat 76.964 kb on + strandat 76.983 kb on + strandat 76.983 kb on + strandat 76.983 kb on + strandat 76.984 kb on - strandat 76.984 kb on - strandat 76.984 kb on - strandat 76.991 kb on + strandat 77.153 kb on + strandat 77.153 kb on + strandat 77.166 kb on + strandat 77.224 kb on + strandat 77.245 kb on + strandat 77.257 kb on + strandat 77.257 kb on + strandat 77.277 kb on - strandat 77.302 kb on + strandat 77.302 kb on + strandat 77.303 kb on - strandat 77.442 kb on + strandat 77.443 kb on - strandat 77.443 kb on - strandat 77.454 kb on + strandat 77.575 kb on + strand, within BPHYT_RS00310at 77.575 kb on + strand, within BPHYT_RS00310at 77.584 kb on + strand, within BPHYT_RS00310at 77.611 kb on - strand, within BPHYT_RS00310at 77.658 kb on + strand, within BPHYT_RS00310at 77.659 kb on - strand, within BPHYT_RS00310at 77.659 kb on - strand, within BPHYT_RS00310at 77.757 kb on - strand, within BPHYT_RS00310at 77.758 kb on + strand, within BPHYT_RS00310at 77.758 kb on + strand, within BPHYT_RS00310at 77.759 kb on - strand, within BPHYT_RS00310at 77.920 kb on + strand, within BPHYT_RS00310at 77.921 kb on - strand, within BPHYT_RS00310at 77.921 kb on - strand, within BPHYT_RS00310at 77.922 kb on + strand, within BPHYT_RS00310at 78.045 kb on + strand, within BPHYT_RS00310at 78.069 kb on - strand, within BPHYT_RS00310at 78.207 kb on + strand, within BPHYT_RS00310at 78.207 kb on + strand, within BPHYT_RS00310at 78.208 kb on - strand, within BPHYT_RS00310at 78.208 kb on - strand, within BPHYT_RS00310at 78.315 kb on + strandat 78.316 kb on - strandat 78.316 kb on - strandat 78.335 kb on - strandat 78.467 kb on - strandat 78.479 kb on - strandat 78.479 kb on - strandat 78.554 kb on + strandat 78.620 kb on + strandat 78.621 kb on - strandat 78.827 kb on + strandat 78.827 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
76,431 + BPHYT_RS00305 0.70 +1.1
76,431 + BPHYT_RS00305 0.70 -0.3
76,431 + BPHYT_RS00305 0.70 +0.1
76,431 + BPHYT_RS00305 0.70 +0.7
76,432 - BPHYT_RS00305 0.71 +0.1
76,506 + -0.9
76,600 + BPHYT_RS00305 0.81 -1.4
76,600 + BPHYT_RS00305 0.81 -0.8
76,600 + BPHYT_RS00305 0.81 -0.0
76,600 + BPHYT_RS00305 0.81 -0.3
76,601 - BPHYT_RS00305 0.81 -0.3
76,601 - BPHYT_RS00305 0.81 -0.7
76,601 - BPHYT_RS00305 0.81 +0.5
76,601 - BPHYT_RS00305 0.81 +0.3
76,601 - BPHYT_RS00305 0.81 +0.7
76,632 - BPHYT_RS00305 0.83 +0.8
76,641 + BPHYT_RS00305 0.84 -0.3
76,641 + BPHYT_RS00305 0.84 +0.0
76,642 - BPHYT_RS00305 0.84 +0.7
76,927 - +0.6
76,964 + -0.9
76,983 + +0.2
76,983 + -1.0
76,983 + -0.5
76,984 - -0.0
76,984 - -1.6
76,984 - +0.3
76,991 + -0.4
77,153 + -1.1
77,153 + +0.3
77,166 + +0.3
77,224 + +0.1
77,245 + +5.7
77,257 + +1.8
77,257 + -0.3
77,277 - +0.1
77,302 + +0.3
77,302 + +0.2
77,303 - +1.8
77,442 + -1.3
77,443 - +0.0
77,443 - -2.2
77,454 + -2.6
77,575 + BPHYT_RS00310 0.17 +1.4
77,575 + BPHYT_RS00310 0.17 -0.9
77,584 + BPHYT_RS00310 0.18 -1.4
77,611 - BPHYT_RS00310 0.21 +0.5
77,658 + BPHYT_RS00310 0.25 -1.8
77,659 - BPHYT_RS00310 0.25 -1.0
77,659 - BPHYT_RS00310 0.25 -0.7
77,757 - BPHYT_RS00310 0.35 -1.2
77,758 + BPHYT_RS00310 0.36 -0.9
77,758 + BPHYT_RS00310 0.36 -2.1
77,759 - BPHYT_RS00310 0.36 -1.0
77,920 + BPHYT_RS00310 0.52 -0.2
77,921 - BPHYT_RS00310 0.52 -1.6
77,921 - BPHYT_RS00310 0.52 -0.9
77,922 + BPHYT_RS00310 0.52 -0.9
78,045 + BPHYT_RS00310 0.65 -0.8
78,069 - BPHYT_RS00310 0.67 -2.5
78,207 + BPHYT_RS00310 0.81 -1.2
78,207 + BPHYT_RS00310 0.81 +0.1
78,208 - BPHYT_RS00310 0.81 -1.7
78,208 - BPHYT_RS00310 0.81 -1.8
78,315 + -3.4
78,316 - -1.0
78,316 - -3.5
78,335 - -0.3
78,467 - +0.6
78,479 - +0.9
78,479 - -0.1
78,554 + -0.6
78,620 + -0.9
78,621 - -0.1
78,827 + +0.6
78,827 + +0.2

Or see this region's nucleotide sequence