Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS04185

Experiment: Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days

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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_RS04180 and BPHYT_RS04185 are separated by 73 nucleotidesBPHYT_RS04185 and BPHYT_RS04190 are separated by 95 nucleotides BPHYT_RS04180: BPHYT_RS04180 - sugar ABC transporter substrate-binding protein, at 958,551 to 959,798 _RS04180 BPHYT_RS04185: BPHYT_RS04185 - diguanylate cyclase, at 959,872 to 961,116 _RS04185 BPHYT_RS04190: BPHYT_RS04190 - AraC family transcriptional regulator, at 961,212 to 962,168 _RS04190 Position (kb) 959 960 961 962Strain fitness (log2 ratio) -2 -1 0 1 2at 958.916 kb on - strand, within BPHYT_RS04180at 958.916 kb on - strand, within BPHYT_RS04180at 958.934 kb on + strand, within BPHYT_RS04180at 958.956 kb on - strand, within BPHYT_RS04180at 958.956 kb on - strand, within BPHYT_RS04180at 959.407 kb on + strand, within BPHYT_RS04180at 959.408 kb on - strand, within BPHYT_RS04180at 959.518 kb on - strand, within BPHYT_RS04180at 959.518 kb on - strand, within BPHYT_RS04180at 959.646 kb on - strand, within BPHYT_RS04180at 959.709 kb on + strandat 959.873 kb on + strandat 959.874 kb on - strandat 959.899 kb on - strandat 960.018 kb on - strand, within BPHYT_RS04185at 960.018 kb on - strand, within BPHYT_RS04185at 960.018 kb on - strand, within BPHYT_RS04185at 960.018 kb on - strand, within BPHYT_RS04185at 960.054 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.056 kb on + strand, within BPHYT_RS04185at 960.057 kb on - strand, within BPHYT_RS04185at 960.057 kb on - strand, within BPHYT_RS04185at 960.276 kb on + strand, within BPHYT_RS04185at 960.277 kb on - strand, within BPHYT_RS04185at 960.278 kb on + strand, within BPHYT_RS04185at 960.278 kb on + strand, within BPHYT_RS04185at 960.278 kb on + strand, within BPHYT_RS04185at 960.278 kb on + strand, within BPHYT_RS04185at 960.278 kb on + strand, within BPHYT_RS04185at 960.279 kb on - strand, within BPHYT_RS04185at 960.380 kb on - strand, within BPHYT_RS04185at 960.438 kb on - strand, within BPHYT_RS04185at 960.470 kb on + strand, within BPHYT_RS04185at 960.703 kb on - strand, within BPHYT_RS04185at 960.703 kb on - strand, within BPHYT_RS04185at 960.703 kb on - strand, within BPHYT_RS04185at 960.703 kb on - strand, within BPHYT_RS04185at 960.710 kb on + strand, within BPHYT_RS04185at 960.710 kb on + strand, within BPHYT_RS04185at 960.710 kb on + strand, within BPHYT_RS04185at 960.711 kb on - strand, within BPHYT_RS04185at 960.756 kb on - strand, within BPHYT_RS04185at 961.040 kb on + strandat 961.040 kb on + strandat 961.041 kb on - strandat 961.224 kb on + strandat 961.224 kb on + strandat 961.224 kb on + strandat 961.225 kb on - strandat 961.225 kb on - strandat 961.267 kb on - strandat 961.356 kb on + strand, within BPHYT_RS04190at 961.380 kb on + strand, within BPHYT_RS04190at 961.381 kb on - strand, within BPHYT_RS04190at 961.385 kb on - strand, within BPHYT_RS04190at 961.672 kb on + strand, within BPHYT_RS04190at 961.766 kb on + strand, within BPHYT_RS04190at 961.766 kb on + strand, within BPHYT_RS04190at 961.766 kb on + strand, within BPHYT_RS04190at 961.767 kb on - strand, within BPHYT_RS04190at 961.905 kb on + strand, within BPHYT_RS04190at 961.905 kb on + strand, within BPHYT_RS04190at 961.906 kb on - strand, within BPHYT_RS04190at 961.906 kb on - strand, within BPHYT_RS04190at 961.907 kb on + strand, within BPHYT_RS04190

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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958,916 - BPHYT_RS04180 0.29 -0.4
958,916 - BPHYT_RS04180 0.29 +0.2
958,934 + BPHYT_RS04180 0.31 -0.0
958,956 - BPHYT_RS04180 0.32 +0.6
958,956 - BPHYT_RS04180 0.32 +0.8
959,407 + BPHYT_RS04180 0.69 -0.6
959,408 - BPHYT_RS04180 0.69 -0.1
959,518 - BPHYT_RS04180 0.77 +0.5
959,518 - BPHYT_RS04180 0.77 +0.9
959,646 - BPHYT_RS04180 0.88 +2.1
959,709 + -0.4
959,873 + -1.0
959,874 - -0.1
959,899 - -0.1
960,018 - BPHYT_RS04185 0.12 -0.9
960,018 - BPHYT_RS04185 0.12 +1.2
960,018 - BPHYT_RS04185 0.12 +1.7
960,018 - BPHYT_RS04185 0.12 -2.2
960,054 + BPHYT_RS04185 0.15 -0.1
960,056 + BPHYT_RS04185 0.15 +0.8
960,056 + BPHYT_RS04185 0.15 -0.6
960,056 + BPHYT_RS04185 0.15 -0.0
960,056 + BPHYT_RS04185 0.15 -0.2
960,056 + BPHYT_RS04185 0.15 +1.2
960,056 + BPHYT_RS04185 0.15 +0.4
960,057 - BPHYT_RS04185 0.15 +1.3
960,057 - BPHYT_RS04185 0.15 +0.4
960,276 + BPHYT_RS04185 0.32 +0.4
960,277 - BPHYT_RS04185 0.33 -0.2
960,278 + BPHYT_RS04185 0.33 +0.1
960,278 + BPHYT_RS04185 0.33 -0.5
960,278 + BPHYT_RS04185 0.33 +1.0
960,278 + BPHYT_RS04185 0.33 -0.1
960,278 + BPHYT_RS04185 0.33 +0.2
960,279 - BPHYT_RS04185 0.33 +0.0
960,380 - BPHYT_RS04185 0.41 -1.0
960,438 - BPHYT_RS04185 0.45 +0.2
960,470 + BPHYT_RS04185 0.48 +0.4
960,703 - BPHYT_RS04185 0.67 -0.7
960,703 - BPHYT_RS04185 0.67 +0.5
960,703 - BPHYT_RS04185 0.67 +0.6
960,703 - BPHYT_RS04185 0.67 +1.1
960,710 + BPHYT_RS04185 0.67 +0.1
960,710 + BPHYT_RS04185 0.67 +0.7
960,710 + BPHYT_RS04185 0.67 +0.3
960,711 - BPHYT_RS04185 0.67 -0.9
960,756 - BPHYT_RS04185 0.71 -0.1
961,040 + -1.0
961,040 + -0.6
961,041 - +0.8
961,224 + +1.0
961,224 + +0.1
961,224 + -0.1
961,225 - +0.7
961,225 - -0.2
961,267 - +0.0
961,356 + BPHYT_RS04190 0.15 -0.0
961,380 + BPHYT_RS04190 0.18 -0.9
961,381 - BPHYT_RS04190 0.18 +0.8
961,385 - BPHYT_RS04190 0.18 +0.1
961,672 + BPHYT_RS04190 0.48 +0.3
961,766 + BPHYT_RS04190 0.58 -1.2
961,766 + BPHYT_RS04190 0.58 -0.4
961,766 + BPHYT_RS04190 0.58 -0.1
961,767 - BPHYT_RS04190 0.58 +0.4
961,905 + BPHYT_RS04190 0.72 -2.3
961,905 + BPHYT_RS04190 0.72 +1.0
961,906 - BPHYT_RS04190 0.73 +0.1
961,906 - BPHYT_RS04190 0.73 -0.3
961,907 + BPHYT_RS04190 0.73 -0.9

Or see this region's nucleotide sequence