Strain Fitness in Paraburkholderia graminis OAS925 around ABIE53_003953

Experiment: Plant=switchgrass; PreTreatment=None; PlantTreatment=low_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=R2A_with_kan10; Time=21days

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 ntABIE53_003951 and ABIE53_003952 are separated by 10 nucleotidesABIE53_003952 and ABIE53_003953 are separated by 45 nucleotidesABIE53_003953 and ABIE53_003954 are separated by 52 nucleotides ABIE53_003951: ABIE53_003951 - dipeptide transport system substrate-binding protein, at 100,597 to 102,255 _003951 ABIE53_003952: ABIE53_003952 - polar amino acid transport system substrate-binding protein, at 102,266 to 103,174 _003952 ABIE53_003953: ABIE53_003953 - polar amino acid transport system permease protein, at 103,220 to 105,037 _003953 ABIE53_003954: ABIE53_003954 - FMN-dependent oxidoreductase (nitrilotriacetate monooxygenase family), at 105,090 to 106,412 _003954 Position (kb) 103 104 105 106Strain fitness (log2 ratio) -2 -1 0 1 2at 102.588 kb on + strand, within ABIE53_003952at 102.744 kb on + strand, within ABIE53_003952at 102.744 kb on + strand, within ABIE53_003952at 102.745 kb on - strand, within ABIE53_003952at 103.079 kb on - strand, within ABIE53_003952at 103.082 kb on + strand, within ABIE53_003952at 103.082 kb on + strand, within ABIE53_003952at 103.083 kb on - strand, within ABIE53_003952at 103.083 kb on - strand, within ABIE53_003952at 103.083 kb on - strand, within ABIE53_003952at 103.083 kb on - strand, within ABIE53_003952at 103.742 kb on + strand, within ABIE53_003953at 103.749 kb on + strand, within ABIE53_003953at 104.167 kb on - strand, within ABIE53_003953at 104.178 kb on + strand, within ABIE53_003953at 104.179 kb on - strand, within ABIE53_003953at 104.179 kb on - strand, within ABIE53_003953at 104.217 kb on + strand, within ABIE53_003953at 104.286 kb on + strand, within ABIE53_003953at 104.287 kb on - strand, within ABIE53_003953at 104.313 kb on + strand, within ABIE53_003953at 104.313 kb on + strand, within ABIE53_003953at 104.313 kb on + strand, within ABIE53_003953at 104.314 kb on - strand, within ABIE53_003953at 104.314 kb on - strand, within ABIE53_003953at 104.314 kb on - strand, within ABIE53_003953at 104.561 kb on - strand, within ABIE53_003953at 104.620 kb on - strand, within ABIE53_003953at 104.620 kb on - strand, within ABIE53_003953at 104.621 kb on + strand, within ABIE53_003953at 104.621 kb on + strand, within ABIE53_003953at 104.622 kb on - strand, within ABIE53_003953at 104.622 kb on - strand, within ABIE53_003953at 104.743 kb on + strand, within ABIE53_003953at 105.044 kb on + strandat 105.139 kb on - strandat 105.478 kb on + strand, within ABIE53_003954at 105.485 kb on + strand, within ABIE53_003954at 105.730 kb on + strand, within ABIE53_003954at 105.955 kb on + strand, within ABIE53_003954

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Plant=switchgrass; PreTreatment=None; PlantTreatment=low_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=R2A_with_kan10; Time=21days
remove
102,588 + ABIE53_003952 0.35 +0.3
102,744 + ABIE53_003952 0.53 -1.2
102,744 + ABIE53_003952 0.53 -1.2
102,745 - ABIE53_003952 0.53 -1.7
103,079 - ABIE53_003952 0.89 -2.0
103,082 + ABIE53_003952 0.90 +1.2
103,082 + ABIE53_003952 0.90 -1.5
103,083 - ABIE53_003952 0.90 +1.7
103,083 - ABIE53_003952 0.90 -2.5
103,083 - ABIE53_003952 0.90 -2.5
103,083 - ABIE53_003952 0.90 +1.7
103,742 + ABIE53_003953 0.29 -0.3
103,749 + ABIE53_003953 0.29 +1.2
104,167 - ABIE53_003953 0.52 -0.8
104,178 + ABIE53_003953 0.53 -1.8
104,179 - ABIE53_003953 0.53 +0.0
104,179 - ABIE53_003953 0.53 +0.2
104,217 + ABIE53_003953 0.55 -0.4
104,286 + ABIE53_003953 0.59 -2.3
104,287 - ABIE53_003953 0.59 -1.4
104,313 + ABIE53_003953 0.60 +0.4
104,313 + ABIE53_003953 0.60 -1.1
104,313 + ABIE53_003953 0.60 -0.9
104,314 - ABIE53_003953 0.60 +0.6
104,314 - ABIE53_003953 0.60 -0.1
104,314 - ABIE53_003953 0.60 -0.4
104,561 - ABIE53_003953 0.74 +2.2
104,620 - ABIE53_003953 0.77 +1.0
104,620 - ABIE53_003953 0.77 +0.6
104,621 + ABIE53_003953 0.77 -0.0
104,621 + ABIE53_003953 0.77 -0.9
104,622 - ABIE53_003953 0.77 -1.0
104,622 - ABIE53_003953 0.77 -1.5
104,743 + ABIE53_003953 0.84 -0.6
105,044 + -2.6
105,139 - -0.8
105,478 + ABIE53_003954 0.29 -2.3
105,485 + ABIE53_003954 0.30 +0.9
105,730 + ABIE53_003954 0.48 -0.0
105,955 + ABIE53_003954 0.65 -1.9

Or see this region's nucleotide sequence