Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS04775

Experiment: Plant=switchgrass; PreTreatment=None; PlantTreatment=low_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=21days

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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_RS04765 and BPHYT_RS04770 are separated by 41 nucleotidesBPHYT_RS04770 and BPHYT_RS04775 are separated by 16 nucleotidesBPHYT_RS04775 and BPHYT_RS04780 are separated by 77 nucleotidesBPHYT_RS04780 and BPHYT_RS04785 are separated by 11 nucleotides BPHYT_RS04765: BPHYT_RS04765 - 2-deoxy-D-ribonate transporter (from data), at 1,100,433 to 1,101,776 _RS04765 BPHYT_RS04770: BPHYT_RS04770 - short-chain dehydrogenase, at 1,101,818 to 1,102,558 _RS04770 BPHYT_RS04775: BPHYT_RS04775 - 2-deoxy-D-ribonate 3-dehydrogenase (from data), at 1,102,575 to 1,103,366 _RS04775 BPHYT_RS04780: BPHYT_RS04780 - cobalamin biosynthesis protein CbiX, at 1,103,444 to 1,103,827 _RS04780 BPHYT_RS04785: BPHYT_RS04785 - permease, at 1,103,839 to 1,104,987 _RS04785 Position (kb) 1102 1103 1104Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1101.606 kb on + strand, within BPHYT_RS04765at 1101.606 kb on + strand, within BPHYT_RS04765at 1101.774 kb on + strandat 1102.263 kb on - strand, within BPHYT_RS04770at 1102.263 kb on - strand, within BPHYT_RS04770at 1102.277 kb on + strand, within BPHYT_RS04770at 1102.309 kb on + strand, within BPHYT_RS04770at 1102.477 kb on + strand, within BPHYT_RS04770at 1102.477 kb on + strand, within BPHYT_RS04770at 1102.478 kb on - strand, within BPHYT_RS04770at 1102.481 kb on + strand, within BPHYT_RS04770at 1102.482 kb on - strand, within BPHYT_RS04770at 1102.482 kb on - strand, within BPHYT_RS04770at 1102.513 kb on + strandat 1102.514 kb on - strandat 1102.619 kb on - strandat 1102.619 kb on - strandat 1102.692 kb on + strand, within BPHYT_RS04775at 1102.693 kb on - strand, within BPHYT_RS04775at 1102.694 kb on + strand, within BPHYT_RS04775at 1102.789 kb on + strand, within BPHYT_RS04775at 1102.941 kb on + strand, within BPHYT_RS04775at 1103.584 kb on + strand, within BPHYT_RS04780

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=switchgrass; PreTreatment=None; PlantTreatment=low_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=21days
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1,101,606 + BPHYT_RS04765 0.87 +0.4
1,101,606 + BPHYT_RS04765 0.87 -0.5
1,101,774 + -0.9
1,102,263 - BPHYT_RS04770 0.60 -0.8
1,102,263 - BPHYT_RS04770 0.60 -0.1
1,102,277 + BPHYT_RS04770 0.62 -2.3
1,102,309 + BPHYT_RS04770 0.66 -1.2
1,102,477 + BPHYT_RS04770 0.89 -2.0
1,102,477 + BPHYT_RS04770 0.89 -2.9
1,102,478 - BPHYT_RS04770 0.89 +0.5
1,102,481 + BPHYT_RS04770 0.89 -1.4
1,102,482 - BPHYT_RS04770 0.90 +0.6
1,102,482 - BPHYT_RS04770 0.90 +0.6
1,102,513 + -0.6
1,102,514 - +0.1
1,102,619 - +0.4
1,102,619 - +0.9
1,102,692 + BPHYT_RS04775 0.15 -0.7
1,102,693 - BPHYT_RS04775 0.15 +1.9
1,102,694 + BPHYT_RS04775 0.15 -0.8
1,102,789 + BPHYT_RS04775 0.27 +0.7
1,102,941 + BPHYT_RS04775 0.46 +0.1
1,103,584 + BPHYT_RS04780 0.36 -0.9

Or see this region's nucleotide sequence