Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS04135

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_RS04130 and BPHYT_RS04135 are separated by 310 nucleotidesBPHYT_RS04135 and BPHYT_RS04140 are separated by 200 nucleotides BPHYT_RS04130: BPHYT_RS04130 - alpha/beta hydrolase, at 945,030 to 946,925 _RS04130 BPHYT_RS04135: BPHYT_RS04135 - glycosyl transferase family 1, at 947,236 to 948,408 _RS04135 BPHYT_RS04140: BPHYT_RS04140 - polysaccharide biosynthesis protein, at 948,609 to 949,868 _RS04140 Position (kb) 947 948 949Strain fitness (log2 ratio) -1 0 1at 946.587 kb on - strand, within BPHYT_RS04130at 946.661 kb on + strand, within BPHYT_RS04130at 946.666 kb on + strand, within BPHYT_RS04130at 946.667 kb on - strand, within BPHYT_RS04130at 946.822 kb on - strandat 947.049 kb on - strandat 948.037 kb on + strand, within BPHYT_RS04135at 948.192 kb on - strand, within BPHYT_RS04135at 948.391 kb on - strandat 948.419 kb on - strandat 948.587 kb on + strandat 948.732 kb on + strandat 949.174 kb on + strand, within BPHYT_RS04140at 949.287 kb on + strand, within BPHYT_RS04140

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
946,587 - BPHYT_RS04130 0.82 -1.7
946,661 + BPHYT_RS04130 0.86 -0.2
946,666 + BPHYT_RS04130 0.86 +0.5
946,667 - BPHYT_RS04130 0.86 +0.1
946,822 - +0.1
947,049 - +0.4
948,037 + BPHYT_RS04135 0.68 +0.4
948,192 - BPHYT_RS04135 0.82 +1.7
948,391 - +0.1
948,419 - +0.6
948,587 + -0.5
948,732 + -0.9
949,174 + BPHYT_RS04140 0.45 +1.1
949,287 + BPHYT_RS04140 0.54 -1.1

Or see this region's nucleotide sequence