Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS01510

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_RS01500 and BPHYT_RS01505 are separated by 62 nucleotidesBPHYT_RS01505 and BPHYT_RS01510 are separated by 6 nucleotidesBPHYT_RS01510 and BPHYT_RS01515 are separated by 213 nucleotidesBPHYT_RS01515 and BPHYT_RS01520 overlap by 4 nucleotides BPHYT_RS01500: BPHYT_RS01500 - 7-cyano-7-deazaguanine synthase, at 342,450 to 343,184 _RS01500 BPHYT_RS01505: BPHYT_RS01505 - 7-cyano-7-deazaguanine reductase, at 343,247 to 343,879 _RS01505 BPHYT_RS01510: BPHYT_RS01510 - 6-carboxy-5,6,7,8-tetrahydropterin synthase, at 343,886 to 344,332 _RS01510 BPHYT_RS01515: BPHYT_RS01515 - 2-dehydro-3-deoxyglucarate aldolase, at 344,546 to 345,328 _RS01515 BPHYT_RS01520: BPHYT_RS01520 - hypothetical protein, at 345,325 to 346,029 _RS01520 Position (kb) 343 344 345Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 342.935 kb on + strand, within BPHYT_RS01500at 342.935 kb on + strand, within BPHYT_RS01500at 342.936 kb on - strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.049 kb on + strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.050 kb on - strand, within BPHYT_RS01500at 343.056 kb on + strand, within BPHYT_RS01500at 343.056 kb on + strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.057 kb on - strand, within BPHYT_RS01500at 343.146 kb on + strandat 343.146 kb on + strandat 343.146 kb on + strandat 343.146 kb on + strandat 343.146 kb on + strandat 343.146 kb on + strandat 343.147 kb on - strandat 343.253 kb on + strandat 343.275 kb on - strandat 343.436 kb on + strand, within BPHYT_RS01505at 343.437 kb on - strand, within BPHYT_RS01505at 343.731 kb on - strand, within BPHYT_RS01505at 343.862 kb on + strandat 343.862 kb on + strandat 343.862 kb on + strandat 343.862 kb on + strandat 343.862 kb on + strandat 343.863 kb on - strandat 343.957 kb on + strand, within BPHYT_RS01510at 343.958 kb on - strand, within BPHYT_RS01510at 343.976 kb on + strand, within BPHYT_RS01510at 343.976 kb on + strand, within BPHYT_RS01510at 343.976 kb on + strand, within BPHYT_RS01510at 343.976 kb on + strand, within BPHYT_RS01510at 343.977 kb on - strand, within BPHYT_RS01510at 343.977 kb on - strand, within BPHYT_RS01510at 343.977 kb on - strand, within BPHYT_RS01510at 343.977 kb on - strand, within BPHYT_RS01510at 343.977 kb on - strand, within BPHYT_RS01510at 344.117 kb on + strand, within BPHYT_RS01510at 344.117 kb on + strand, within BPHYT_RS01510at 344.118 kb on - strand, within BPHYT_RS01510at 344.118 kb on - strand, within BPHYT_RS01510at 344.128 kb on + strand, within BPHYT_RS01510at 344.129 kb on - strand, within BPHYT_RS01510at 344.129 kb on - strand, within BPHYT_RS01510at 344.330 kb on + strandat 344.330 kb on + strandat 344.331 kb on - strandat 344.339 kb on + strandat 344.371 kb on + strandat 344.382 kb on + strandat 344.767 kb on - strand, within BPHYT_RS01515at 344.767 kb on - strand, within BPHYT_RS01515at 344.767 kb on - strand, within BPHYT_RS01515at 344.808 kb on + strand, within BPHYT_RS01515at 344.808 kb on + strand, within BPHYT_RS01515at 344.808 kb on + strand, within BPHYT_RS01515at 344.969 kb on + strand, within BPHYT_RS01515at 344.970 kb on - strand, within BPHYT_RS01515at 345.200 kb on - strand, within BPHYT_RS01515at 345.318 kb on + strandat 345.318 kb on + strandat 345.319 kb on - strand

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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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342,935 + BPHYT_RS01500 0.66 -0.7
342,935 + BPHYT_RS01500 0.66 -2.3
342,936 - BPHYT_RS01500 0.66 -0.8
343,049 + BPHYT_RS01500 0.81 -2.8
343,049 + BPHYT_RS01500 0.81 -2.6
343,049 + BPHYT_RS01500 0.81 -2.4
343,049 + BPHYT_RS01500 0.81 -2.5
343,049 + BPHYT_RS01500 0.81 -2.6
343,049 + BPHYT_RS01500 0.81 -3.8
343,049 + BPHYT_RS01500 0.81 -2.7
343,050 - BPHYT_RS01500 0.82 -2.5
343,050 - BPHYT_RS01500 0.82 -1.8
343,050 - BPHYT_RS01500 0.82 -1.5
343,050 - BPHYT_RS01500 0.82 -2.4
343,050 - BPHYT_RS01500 0.82 -2.3
343,050 - BPHYT_RS01500 0.82 -1.9
343,050 - BPHYT_RS01500 0.82 -2.1
343,056 + BPHYT_RS01500 0.82 -2.4
343,056 + BPHYT_RS01500 0.82 -2.0
343,057 - BPHYT_RS01500 0.83 -3.4
343,057 - BPHYT_RS01500 0.83 -1.0
343,057 - BPHYT_RS01500 0.83 -2.0
343,057 - BPHYT_RS01500 0.83 -1.7
343,057 - BPHYT_RS01500 0.83 -2.1
343,057 - BPHYT_RS01500 0.83 -1.1
343,146 + -1.7
343,146 + -2.6
343,146 + -1.6
343,146 + -0.4
343,146 + -0.7
343,146 + -2.2
343,147 - -3.4
343,253 + -1.0
343,275 - -0.4
343,436 + BPHYT_RS01505 0.30 -1.1
343,437 - BPHYT_RS01505 0.30 -1.0
343,731 - BPHYT_RS01505 0.76 -0.6
343,862 + -1.5
343,862 + -2.0
343,862 + -2.1
343,862 + -0.4
343,862 + -1.3
343,863 - -1.9
343,957 + BPHYT_RS01510 0.16 -0.9
343,958 - BPHYT_RS01510 0.16 +1.4
343,976 + BPHYT_RS01510 0.20 -1.6
343,976 + BPHYT_RS01510 0.20 -2.0
343,976 + BPHYT_RS01510 0.20 -1.7
343,976 + BPHYT_RS01510 0.20 -1.2
343,977 - BPHYT_RS01510 0.20 -2.1
343,977 - BPHYT_RS01510 0.20 -1.3
343,977 - BPHYT_RS01510 0.20 -2.7
343,977 - BPHYT_RS01510 0.20 -1.3
343,977 - BPHYT_RS01510 0.20 -2.3
344,117 + BPHYT_RS01510 0.52 -1.6
344,117 + BPHYT_RS01510 0.52 -1.3
344,118 - BPHYT_RS01510 0.52 -1.7
344,118 - BPHYT_RS01510 0.52 -0.6
344,128 + BPHYT_RS01510 0.54 -1.3
344,129 - BPHYT_RS01510 0.54 -2.0
344,129 - BPHYT_RS01510 0.54 -2.4
344,330 + +0.4
344,330 + -0.2
344,331 - -0.6
344,339 + -1.5
344,371 + -0.8
344,382 + -0.5
344,767 - BPHYT_RS01515 0.28 +0.8
344,767 - BPHYT_RS01515 0.28 +0.1
344,767 - BPHYT_RS01515 0.28 +1.0
344,808 + BPHYT_RS01515 0.33 +0.2
344,808 + BPHYT_RS01515 0.33 +0.3
344,808 + BPHYT_RS01515 0.33 -2.3
344,969 + BPHYT_RS01515 0.54 -0.8
344,970 - BPHYT_RS01515 0.54 +0.2
345,200 - BPHYT_RS01515 0.84 +0.1
345,318 + +0.3
345,318 + -0.6
345,319 - -0.4

Or see this region's nucleotide sequence