Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS00520

Experiment: Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10

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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.

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500 ntBPHYT_RS00510 and BPHYT_RS00515 are separated by 54 nucleotidesBPHYT_RS00515 and BPHYT_RS00520 are separated by 193 nucleotidesBPHYT_RS00520 and BPHYT_RS00525 are separated by 369 nucleotides BPHYT_RS00510: BPHYT_RS00510 - S-(hydroxymethyl)glutathione dehydrogenase, at 123,622 to 124,731 _RS00510 BPHYT_RS00515: BPHYT_RS00515 - regulator, at 124,786 to 125,061 _RS00515 BPHYT_RS00520: BPHYT_RS00520 - glutamate--cysteine ligase, at 125,255 to 126,853 _RS00520 BPHYT_RS00525: BPHYT_RS00525 - aldehyde dismutase, at 127,223 to 128,437 _RS00525 Position (kb) 125 126 127Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 124.295 kb on - strand, within BPHYT_RS00510at 124.328 kb on + strand, within BPHYT_RS00510at 124.329 kb on - strand, within BPHYT_RS00510at 124.352 kb on + strand, within BPHYT_RS00510at 124.369 kb on - strand, within BPHYT_RS00510at 124.608 kb on + strand, within BPHYT_RS00510at 124.747 kb on - strandat 125.054 kb on + strandat 125.082 kb on - strandat 125.095 kb on + strandat 125.218 kb on - strandat 125.256 kb on + strandat 125.256 kb on + strandat 125.398 kb on + strandat 125.955 kb on + strand, within BPHYT_RS00520at 126.034 kb on - strand, within BPHYT_RS00520at 126.036 kb on - strand, within BPHYT_RS00520at 126.078 kb on + strand, within BPHYT_RS00520at 126.096 kb on + strand, within BPHYT_RS00520at 126.108 kb on - strand, within BPHYT_RS00520at 126.174 kb on + strand, within BPHYT_RS00520at 126.174 kb on + strand, within BPHYT_RS00520at 126.279 kb on + strand, within BPHYT_RS00520at 126.280 kb on - strand, within BPHYT_RS00520at 126.307 kb on + strand, within BPHYT_RS00520at 126.307 kb on + strand, within BPHYT_RS00520at 126.308 kb on - strand, within BPHYT_RS00520at 126.309 kb on + strand, within BPHYT_RS00520at 126.310 kb on - strand, within BPHYT_RS00520at 126.310 kb on - strand, within BPHYT_RS00520at 126.399 kb on + strand, within BPHYT_RS00520at 126.399 kb on + strand, within BPHYT_RS00520at 126.399 kb on + strand, within BPHYT_RS00520at 126.427 kb on + strand, within BPHYT_RS00520at 126.495 kb on + strand, within BPHYT_RS00520at 126.495 kb on + strandat 126.495 kb on + strand, within BPHYT_RS00520at 126.496 kb on - strand, within BPHYT_RS00520at 126.496 kb on - strand, within BPHYT_RS00520at 126.496 kb on - strand, within BPHYT_RS00520at 126.848 kb on - strandat 126.849 kb on + strandat 126.850 kb on - strandat 126.850 kb on - strandat 126.883 kb on - strandat 126.924 kb on + strandat 126.996 kb on - strandat 127.022 kb on - strandat 127.101 kb on - strandat 127.185 kb on + strandat 127.217 kb on - strandat 127.257 kb on + strandat 127.257 kb on + strandat 127.290 kb on + strandat 127.290 kb on + strandat 127.348 kb on - strand, within BPHYT_RS00525at 127.512 kb on + strand, within BPHYT_RS00525at 127.552 kb on - strand, within BPHYT_RS00525at 127.632 kb on + strand, within BPHYT_RS00525at 127.632 kb on + strand, within BPHYT_RS00525

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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
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124,295 - BPHYT_RS00510 0.61 -0.2
124,328 + BPHYT_RS00510 0.64 -0.1
124,329 - BPHYT_RS00510 0.64 -1.6
124,352 + BPHYT_RS00510 0.66 -1.1
124,369 - BPHYT_RS00510 0.67 +0.7
124,608 + BPHYT_RS00510 0.89 -1.0
124,747 - -1.0
125,054 + +2.1
125,082 - +1.0
125,095 + -0.4
125,218 - -0.5
125,256 + -0.5
125,256 + -0.0
125,398 + +0.8
125,955 + BPHYT_RS00520 0.44 -0.1
126,034 - BPHYT_RS00520 0.49 +2.0
126,036 - BPHYT_RS00520 0.49 -0.4
126,078 + BPHYT_RS00520 0.51 -2.4
126,096 + BPHYT_RS00520 0.53 -1.2
126,108 - BPHYT_RS00520 0.53 +0.0
126,174 + BPHYT_RS00520 0.57 -0.2
126,174 + BPHYT_RS00520 0.57 -0.3
126,279 + BPHYT_RS00520 0.64 -0.7
126,280 - BPHYT_RS00520 0.64 -3.2
126,307 + BPHYT_RS00520 0.66 -1.4
126,307 + BPHYT_RS00520 0.66 +2.1
126,308 - BPHYT_RS00520 0.66 +3.0
126,309 + BPHYT_RS00520 0.66 +0.1
126,310 - BPHYT_RS00520 0.66 -0.0
126,310 - BPHYT_RS00520 0.66 -0.5
126,399 + BPHYT_RS00520 0.72 -2.8
126,399 + BPHYT_RS00520 0.72 +0.8
126,399 + BPHYT_RS00520 0.72 -1.4
126,427 + BPHYT_RS00520 0.73 +0.1
126,495 + BPHYT_RS00520 0.78 -0.0
126,495 + -1.4
126,495 + BPHYT_RS00520 0.78 -1.1
126,496 - BPHYT_RS00520 0.78 +0.1
126,496 - BPHYT_RS00520 0.78 +0.0
126,496 - BPHYT_RS00520 0.78 +0.8
126,848 - -0.1
126,849 + -0.1
126,850 - -0.4
126,850 - -0.2
126,883 - -0.1
126,924 + +0.7
126,996 - +0.3
127,022 - -0.0
127,101 - -0.1
127,185 + -1.1
127,217 - +0.3
127,257 + -0.9
127,257 + +0.7
127,290 + +1.5
127,290 + +0.6
127,348 - BPHYT_RS00525 0.10 -1.8
127,512 + BPHYT_RS00525 0.24 +0.8
127,552 - BPHYT_RS00525 0.27 -1.6
127,632 + BPHYT_RS00525 0.34 -0.5
127,632 + BPHYT_RS00525 0.34 -1.0

Or see this region's nucleotide sequence