Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS00305

Experiment: Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1

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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_RS00295 and BPHYT_RS00300 are separated by 118 nucleotidesBPHYT_RS00300 and BPHYT_RS00305 are separated by 20 nucleotidesBPHYT_RS00305 and BPHYT_RS00310 are separated by 516 nucleotides BPHYT_RS00295: BPHYT_RS00295 - hypothetical protein, at 74,073 to 74,495 _RS00295 BPHYT_RS00300: BPHYT_RS00300 - urease accessory protein UreF, at 74,614 to 75,306 _RS00300 BPHYT_RS00305: BPHYT_RS00305 - ABC transporter substrate-binding protein, at 75,327 to 76,892 _RS00305 BPHYT_RS00310: BPHYT_RS00310 - hypothetical protein, at 77,409 to 78,389 _RS00310 Position (kb) 75 76 77Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 74.664 kb on - strandat 74.963 kb on + strand, within BPHYT_RS00300at 74.974 kb on + strand, within BPHYT_RS00300at 74.975 kb on - strand, within BPHYT_RS00300at 75.344 kb on - strandat 75.421 kb on + strandat 75.422 kb on - strandat 75.422 kb on - strandat 75.422 kb on - strandat 75.425 kb on - strandat 75.624 kb on + strand, within BPHYT_RS00305at 75.624 kb on + strand, within BPHYT_RS00305at 75.654 kb on + strand, within BPHYT_RS00305at 75.778 kb on - strand, within BPHYT_RS00305at 75.778 kb on - strand, within BPHYT_RS00305at 75.778 kb on - strand, within BPHYT_RS00305at 75.779 kb on + strand, within BPHYT_RS00305at 75.780 kb on - strand, within BPHYT_RS00305at 75.780 kb on - strand, within BPHYT_RS00305at 75.952 kb on - strand, within BPHYT_RS00305at 76.126 kb on - strand, within BPHYT_RS00305at 76.134 kb on + strand, within BPHYT_RS00305at 76.135 kb on - strand, within BPHYT_RS00305at 76.317 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.431 kb on + strand, within BPHYT_RS00305at 76.432 kb on - strand, within BPHYT_RS00305at 76.506 kb on + strandat 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.600 kb on + strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.601 kb on - strand, within BPHYT_RS00305at 76.632 kb on - strand, within BPHYT_RS00305at 76.641 kb on + strand, within BPHYT_RS00305at 76.641 kb on + strand, within BPHYT_RS00305at 76.642 kb on - strand, within BPHYT_RS00305at 76.927 kb on - strandat 76.964 kb on + strandat 76.983 kb on + strandat 76.983 kb on + strandat 76.983 kb on + strandat 76.984 kb on - strandat 76.984 kb on - strandat 76.984 kb on - strandat 76.991 kb on + strandat 77.153 kb on + strandat 77.153 kb on + strandat 77.166 kb on + strandat 77.224 kb on + strandat 77.245 kb on + strandat 77.257 kb on + strandat 77.257 kb on + strandat 77.277 kb on - strandat 77.302 kb on + strandat 77.302 kb on + strandat 77.303 kb on - strandat 77.442 kb on + strandat 77.443 kb on - strandat 77.443 kb on - strandat 77.454 kb on + strandat 77.575 kb on + strand, within BPHYT_RS00310at 77.575 kb on + strand, within BPHYT_RS00310at 77.584 kb on + strand, within BPHYT_RS00310at 77.611 kb on - strand, within BPHYT_RS00310at 77.658 kb on + strand, within BPHYT_RS00310at 77.659 kb on - strand, within BPHYT_RS00310at 77.659 kb on - strand, within BPHYT_RS00310at 77.757 kb on - strand, within BPHYT_RS00310at 77.758 kb on + strand, within BPHYT_RS00310at 77.758 kb on + strand, within BPHYT_RS00310at 77.759 kb on - strand, within BPHYT_RS00310

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhizosphere from sorghum RTx_430 plants, grown 2 months, low phosphate; Rep 1
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74,664 - -0.3
74,963 + BPHYT_RS00300 0.50 -0.1
74,974 + BPHYT_RS00300 0.52 +0.6
74,975 - BPHYT_RS00300 0.52 -0.9
75,344 - -0.6
75,421 + -0.2
75,422 - +0.6
75,422 - +0.3
75,422 - +1.4
75,425 - -1.9
75,624 + BPHYT_RS00305 0.19 -1.4
75,624 + BPHYT_RS00305 0.19 -2.2
75,654 + BPHYT_RS00305 0.21 +2.3
75,778 - BPHYT_RS00305 0.29 +0.7
75,778 - BPHYT_RS00305 0.29 -0.9
75,778 - BPHYT_RS00305 0.29 -1.7
75,779 + BPHYT_RS00305 0.29 +0.2
75,780 - BPHYT_RS00305 0.29 +0.2
75,780 - BPHYT_RS00305 0.29 -3.3
75,952 - BPHYT_RS00305 0.40 -1.0
76,126 - BPHYT_RS00305 0.51 -0.6
76,134 + BPHYT_RS00305 0.52 +0.1
76,135 - BPHYT_RS00305 0.52 -0.3
76,317 + BPHYT_RS00305 0.63 -0.3
76,431 + BPHYT_RS00305 0.70 -0.8
76,431 + BPHYT_RS00305 0.70 -2.1
76,431 + BPHYT_RS00305 0.70 -0.7
76,431 + BPHYT_RS00305 0.70 +0.6
76,432 - BPHYT_RS00305 0.71 +0.2
76,506 + -1.8
76,600 + BPHYT_RS00305 0.81 +0.8
76,600 + BPHYT_RS00305 0.81 -0.9
76,600 + BPHYT_RS00305 0.81 +0.6
76,600 + BPHYT_RS00305 0.81 +0.4
76,601 - BPHYT_RS00305 0.81 +0.2
76,601 - BPHYT_RS00305 0.81 +1.1
76,601 - BPHYT_RS00305 0.81 -1.8
76,601 - BPHYT_RS00305 0.81 -1.0
76,601 - BPHYT_RS00305 0.81 -0.0
76,632 - BPHYT_RS00305 0.83 -0.8
76,641 + BPHYT_RS00305 0.84 -0.1
76,641 + BPHYT_RS00305 0.84 +1.5
76,642 - BPHYT_RS00305 0.84 -0.6
76,927 - -0.5
76,964 + -1.3
76,983 + +0.4
76,983 + +1.1
76,983 + +0.1
76,984 - -1.4
76,984 - +1.8
76,984 - +1.5
76,991 + -0.6
77,153 + +0.0
77,153 + +1.1
77,166 + +1.4
77,224 + -0.0
77,245 + -0.8
77,257 + -0.8
77,257 + -1.0
77,277 - -0.3
77,302 + +0.6
77,302 + -1.7
77,303 - +1.4
77,442 + -0.8
77,443 - -2.7
77,443 - -3.2
77,454 + -1.2
77,575 + BPHYT_RS00310 0.17 -1.0
77,575 + BPHYT_RS00310 0.17 -2.4
77,584 + BPHYT_RS00310 0.18 -3.0
77,611 - BPHYT_RS00310 0.21 -1.2
77,658 + BPHYT_RS00310 0.25 -1.6
77,659 - BPHYT_RS00310 0.25 -1.5
77,659 - BPHYT_RS00310 0.25 -3.1
77,757 - BPHYT_RS00310 0.35 -1.8
77,758 + BPHYT_RS00310 0.36 -3.5
77,758 + BPHYT_RS00310 0.36 -2.5
77,759 - BPHYT_RS00310 0.36 -1.2

Or see this region's nucleotide sequence