Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS18975

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_RS18970 and BPHYT_RS18975 are separated by 5 nucleotidesBPHYT_RS18975 and BPHYT_RS18980 overlap by 4 nucleotidesBPHYT_RS18980 and BPHYT_RS18985 overlap by 4 nucleotides BPHYT_RS18970: BPHYT_RS18970 - chemotaxis protein, at 4,260,362 to 4,261,450 _RS18970 BPHYT_RS18975: BPHYT_RS18975 - chemotaxis protein CheD, at 4,261,456 to 4,262,271 _RS18975 BPHYT_RS18980: BPHYT_RS18980 - chemotaxis protein CheR, at 4,262,268 to 4,263,224 _RS18980 BPHYT_RS18985: BPHYT_RS18985 - hypothetical protein, at 4,263,221 to 4,263,412 _RS18985 Position (kb) 4261 4262 4263Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 4260.491 kb on - strand, within BPHYT_RS18970at 4260.491 kb on - strand, within BPHYT_RS18970at 4260.520 kb on - strand, within BPHYT_RS18970at 4260.520 kb on - strand, within BPHYT_RS18970at 4260.689 kb on - strand, within BPHYT_RS18970at 4260.689 kb on - strand, within BPHYT_RS18970at 4260.689 kb on - strand, within BPHYT_RS18970at 4260.690 kb on + strand, within BPHYT_RS18970at 4260.690 kb on + strand, within BPHYT_RS18970at 4260.691 kb on - strand, within BPHYT_RS18970at 4260.691 kb on - strand, within BPHYT_RS18970at 4260.691 kb on - strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.741 kb on + strand, within BPHYT_RS18970at 4260.742 kb on - strand, within BPHYT_RS18970at 4260.742 kb on - strand, within BPHYT_RS18970at 4260.742 kb on - strand, within BPHYT_RS18970at 4260.742 kb on - strand, within BPHYT_RS18970at 4260.742 kb on - strand, within BPHYT_RS18970at 4260.784 kb on + strand, within BPHYT_RS18970at 4260.791 kb on - strand, within BPHYT_RS18970at 4260.847 kb on + strand, within BPHYT_RS18970at 4260.847 kb on + strand, within BPHYT_RS18970at 4260.847 kb on + strand, within BPHYT_RS18970at 4260.848 kb on - strand, within BPHYT_RS18970at 4260.848 kb on - strand, within BPHYT_RS18970at 4260.848 kb on - strand, within BPHYT_RS18970at 4261.096 kb on - strand, within BPHYT_RS18970at 4261.903 kb on + strand, within BPHYT_RS18975at 4261.903 kb on + strand, within BPHYT_RS18975at 4261.904 kb on - strand, within BPHYT_RS18975at 4262.018 kb on + strand, within BPHYT_RS18975at 4262.183 kb on + strand, within BPHYT_RS18975at 4262.237 kb on + strandat 4262.237 kb on + strandat 4262.238 kb on - strandat 4262.238 kb on - strandat 4262.271 kb on + strandat 4262.271 kb on + strandat 4262.272 kb on - strandat 4262.365 kb on + strand, within BPHYT_RS18980at 4262.366 kb on - strand, within BPHYT_RS18980at 4262.404 kb on + strand, within BPHYT_RS18980at 4262.405 kb on - strand, within BPHYT_RS18980at 4262.504 kb on - strand, within BPHYT_RS18980at 4262.704 kb on + strand, within BPHYT_RS18980at 4262.705 kb on - strand, within BPHYT_RS18980at 4262.705 kb on - strand, within BPHYT_RS18980at 4263.058 kb on + strand, within BPHYT_RS18980at 4263.059 kb on - strand, within BPHYT_RS18980at 4263.243 kb on + strand, within BPHYT_RS18985at 4263.243 kb on + strand, within BPHYT_RS18985

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
4,260,491 - BPHYT_RS18970 0.12 -2.7
4,260,491 - BPHYT_RS18970 0.12 -3.3
4,260,520 - BPHYT_RS18970 0.15 -3.8
4,260,520 - BPHYT_RS18970 0.15 -1.6
4,260,689 - BPHYT_RS18970 0.30 -3.0
4,260,689 - BPHYT_RS18970 0.30 -2.2
4,260,689 - BPHYT_RS18970 0.30 -2.0
4,260,690 + BPHYT_RS18970 0.30 -2.5
4,260,690 + BPHYT_RS18970 0.30 -2.9
4,260,691 - BPHYT_RS18970 0.30 -1.5
4,260,691 - BPHYT_RS18970 0.30 -5.1
4,260,691 - BPHYT_RS18970 0.30 -3.5
4,260,741 + BPHYT_RS18970 0.35 -1.2
4,260,741 + BPHYT_RS18970 0.35 -2.1
4,260,741 + BPHYT_RS18970 0.35 -2.0
4,260,741 + BPHYT_RS18970 0.35 -2.3
4,260,741 + BPHYT_RS18970 0.35 -2.2
4,260,741 + BPHYT_RS18970 0.35 -1.7
4,260,742 - BPHYT_RS18970 0.35 -3.0
4,260,742 - BPHYT_RS18970 0.35 -0.8
4,260,742 - BPHYT_RS18970 0.35 -5.0
4,260,742 - BPHYT_RS18970 0.35 -1.4
4,260,742 - BPHYT_RS18970 0.35 -2.4
4,260,784 + BPHYT_RS18970 0.39 -0.6
4,260,791 - BPHYT_RS18970 0.39 -1.4
4,260,847 + BPHYT_RS18970 0.45 -3.6
4,260,847 + BPHYT_RS18970 0.45 -3.5
4,260,847 + BPHYT_RS18970 0.45 -2.2
4,260,848 - BPHYT_RS18970 0.45 -2.1
4,260,848 - BPHYT_RS18970 0.45 -4.0
4,260,848 - BPHYT_RS18970 0.45 -3.0
4,261,096 - BPHYT_RS18970 0.67 -4.2
4,261,903 + BPHYT_RS18975 0.55 -0.5
4,261,903 + BPHYT_RS18975 0.55 +0.5
4,261,904 - BPHYT_RS18975 0.55 -1.2
4,262,018 + BPHYT_RS18975 0.69 -0.4
4,262,183 + BPHYT_RS18975 0.89 -1.2
4,262,237 + -1.4
4,262,237 + -0.1
4,262,238 - +0.2
4,262,238 - -0.4
4,262,271 + -0.1
4,262,271 + -1.1
4,262,272 - -1.5
4,262,365 + BPHYT_RS18980 0.10 +0.6
4,262,366 - BPHYT_RS18980 0.10 +0.2
4,262,404 + BPHYT_RS18980 0.14 +0.1
4,262,405 - BPHYT_RS18980 0.14 -0.6
4,262,504 - BPHYT_RS18980 0.25 -0.8
4,262,704 + BPHYT_RS18980 0.46 -0.0
4,262,705 - BPHYT_RS18980 0.46 +0.7
4,262,705 - BPHYT_RS18980 0.46 +0.1
4,263,058 + BPHYT_RS18980 0.83 -0.2
4,263,059 - BPHYT_RS18980 0.83 +0.6
4,263,243 + BPHYT_RS18985 0.11 -1.1
4,263,243 + BPHYT_RS18985 0.11 -1.0

Or see this region's nucleotide sequence