Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS13420

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_RS13410 and BPHYT_RS13415 are separated by 26 nucleotidesBPHYT_RS13415 and BPHYT_RS13420 are separated by 124 nucleotidesBPHYT_RS13420 and BPHYT_RS13425 overlap by 4 nucleotidesBPHYT_RS13425 and BPHYT_RS13430 are separated by 2 nucleotides BPHYT_RS13410: BPHYT_RS13410 - FAD-dependent oxidoreductase, at 3,063,017 to 3,064,306 _RS13410 BPHYT_RS13415: BPHYT_RS13415 - hypothetical protein, at 3,064,333 to 3,064,617 _RS13415 BPHYT_RS13420: BPHYT_RS13420 - hypothetical protein, at 3,064,742 to 3,065,725 _RS13420 BPHYT_RS13425: BPHYT_RS13425 - histone acetyltransferase, at 3,065,722 to 3,066,333 _RS13425 BPHYT_RS13430: BPHYT_RS13430 - radical SAM protein, at 3,066,336 to 3,067,406 _RS13430 Position (kb) 3064 3065 3066Strain fitness (log2 ratio) -2 -1 0 1at 3064.033 kb on - strand, within BPHYT_RS13410at 3064.267 kb on - strandat 3064.515 kb on - strand, within BPHYT_RS13415at 3064.886 kb on + strand, within BPHYT_RS13420at 3065.059 kb on + strand, within BPHYT_RS13420at 3065.451 kb on + strand, within BPHYT_RS13420at 3065.455 kb on + strand, within BPHYT_RS13420at 3066.151 kb on - strand, within BPHYT_RS13425at 3066.347 kb on - strandat 3066.607 kb on + strand, within BPHYT_RS13430at 3066.665 kb on - strand, within BPHYT_RS13430

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
3,064,033 - BPHYT_RS13410 0.79 -0.4
3,064,267 - +0.2
3,064,515 - BPHYT_RS13415 0.64 -2.0
3,064,886 + BPHYT_RS13420 0.15 -0.9
3,065,059 + BPHYT_RS13420 0.32 -0.2
3,065,451 + BPHYT_RS13420 0.72 +0.2
3,065,455 + BPHYT_RS13420 0.72 -1.7
3,066,151 - BPHYT_RS13425 0.70 +0.5
3,066,347 - -2.2
3,066,607 + BPHYT_RS13430 0.25 +0.3
3,066,665 - BPHYT_RS13430 0.31 +0.8

Or see this region's nucleotide sequence