Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS06345

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_RS06340 and BPHYT_RS06345 are separated by 1 nucleotidesBPHYT_RS06345 and BPHYT_RS06350 are separated by 7 nucleotidesBPHYT_RS06350 and BPHYT_RS06355 overlap by 4 nucleotidesBPHYT_RS06355 and BPHYT_RS06360 overlap by 4 nucleotides BPHYT_RS06340: BPHYT_RS06340 - SAM-dependent methyltransferase PhcB, at 1,445,284 to 1,446,690 _RS06340 BPHYT_RS06345: BPHYT_RS06345 - sensor histidine kinase, at 1,446,692 to 1,448,029 _RS06345 BPHYT_RS06350: BPHYT_RS06350 - chemotaxis protein CheY, at 1,448,037 to 1,448,441 _RS06350 BPHYT_RS06355: BPHYT_RS06355 - chemotaxis protein CheA, at 1,448,438 to 1,448,626 _RS06355 BPHYT_RS06360: BPHYT_RS06360 - chemotaxis protein CheY, at 1,448,623 to 1,449,633 _RS06360 Position (kb) 1446 1447 1448 1449Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5 6 7at 1446.014 kb on - strand, within BPHYT_RS06340at 1446.094 kb on + strand, within BPHYT_RS06340at 1446.094 kb on + strand, within BPHYT_RS06340at 1446.199 kb on + strand, within BPHYT_RS06340at 1446.319 kb on + strand, within BPHYT_RS06340at 1446.320 kb on - strand, within BPHYT_RS06340at 1446.322 kb on - strand, within BPHYT_RS06340at 1446.322 kb on - strand, within BPHYT_RS06340at 1446.421 kb on + strand, within BPHYT_RS06340at 1446.556 kb on + strandat 1446.557 kb on - strandat 1446.625 kb on + strandat 1446.715 kb on - strandat 1446.725 kb on + strandat 1446.818 kb on + strandat 1446.819 kb on - strandat 1446.906 kb on - strand, within BPHYT_RS06345at 1446.989 kb on + strand, within BPHYT_RS06345at 1446.990 kb on - strand, within BPHYT_RS06345at 1446.990 kb on - strand, within BPHYT_RS06345at 1446.990 kb on - strand, within BPHYT_RS06345at 1446.990 kb on - strand, within BPHYT_RS06345at 1447.020 kb on - strand, within BPHYT_RS06345at 1447.073 kb on + strand, within BPHYT_RS06345at 1447.115 kb on + strand, within BPHYT_RS06345at 1447.116 kb on - strand, within BPHYT_RS06345at 1447.217 kb on + strand, within BPHYT_RS06345at 1447.218 kb on - strand, within BPHYT_RS06345at 1447.218 kb on - strand, within BPHYT_RS06345at 1447.223 kb on + strand, within BPHYT_RS06345at 1447.435 kb on - strand, within BPHYT_RS06345at 1447.435 kb on - strand, within BPHYT_RS06345at 1447.522 kb on + strand, within BPHYT_RS06345at 1447.934 kb on + strandat 1448.074 kb on - strandat 1448.074 kb on - strandat 1448.131 kb on - strand, within BPHYT_RS06350at 1448.271 kb on + strand, within BPHYT_RS06350at 1448.351 kb on - strand, within BPHYT_RS06350at 1448.698 kb on + strandat 1448.698 kb on + strandat 1448.698 kb on + strandat 1448.945 kb on + strand, within BPHYT_RS06360at 1448.946 kb on - strand, within BPHYT_RS06360at 1448.946 kb on - strand, within BPHYT_RS06360at 1448.946 kb on - strand, within BPHYT_RS06360at 1448.946 kb on - strand, within BPHYT_RS06360at 1448.953 kb on + strand, within BPHYT_RS06360at 1448.953 kb on + strand, within BPHYT_RS06360at 1448.954 kb on - strand, within BPHYT_RS06360at 1448.954 kb on - strand, within BPHYT_RS06360at 1448.955 kb on + strand, within BPHYT_RS06360

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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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1,446,014 - BPHYT_RS06340 0.52 +2.1
1,446,094 + BPHYT_RS06340 0.58 +1.1
1,446,094 + BPHYT_RS06340 0.58 +0.6
1,446,199 + BPHYT_RS06340 0.65 -1.2
1,446,319 + BPHYT_RS06340 0.74 -1.7
1,446,320 - BPHYT_RS06340 0.74 +0.9
1,446,322 - BPHYT_RS06340 0.74 -2.2
1,446,322 - BPHYT_RS06340 0.74 +2.8
1,446,421 + BPHYT_RS06340 0.81 +0.6
1,446,556 + +0.1
1,446,557 - -0.7
1,446,625 + +0.2
1,446,715 - +3.8
1,446,725 + -0.8
1,446,818 + +0.7
1,446,819 - +2.2
1,446,906 - BPHYT_RS06345 0.16 -1.4
1,446,989 + BPHYT_RS06345 0.22 +3.3
1,446,990 - BPHYT_RS06345 0.22 -3.3
1,446,990 - BPHYT_RS06345 0.22 -1.3
1,446,990 - BPHYT_RS06345 0.22 +5.5
1,446,990 - BPHYT_RS06345 0.22 +0.1
1,447,020 - BPHYT_RS06345 0.25 -0.9
1,447,073 + BPHYT_RS06345 0.28 -0.8
1,447,115 + BPHYT_RS06345 0.32 +2.1
1,447,116 - BPHYT_RS06345 0.32 +4.5
1,447,217 + BPHYT_RS06345 0.39 -1.1
1,447,218 - BPHYT_RS06345 0.39 -0.2
1,447,218 - BPHYT_RS06345 0.39 +0.9
1,447,223 + BPHYT_RS06345 0.40 +0.4
1,447,435 - BPHYT_RS06345 0.56 +7.1
1,447,435 - BPHYT_RS06345 0.56 -2.4
1,447,522 + BPHYT_RS06345 0.62 -2.6
1,447,934 + +0.4
1,448,074 - -1.6
1,448,074 - -0.0
1,448,131 - BPHYT_RS06350 0.23 +0.4
1,448,271 + BPHYT_RS06350 0.58 -0.6
1,448,351 - BPHYT_RS06350 0.78 +1.3
1,448,698 + -1.8
1,448,698 + -0.4
1,448,698 + +0.5
1,448,945 + BPHYT_RS06360 0.32 +0.6
1,448,946 - BPHYT_RS06360 0.32 +1.7
1,448,946 - BPHYT_RS06360 0.32 +0.4
1,448,946 - BPHYT_RS06360 0.32 -0.7
1,448,946 - BPHYT_RS06360 0.32 -0.0
1,448,953 + BPHYT_RS06360 0.33 -0.5
1,448,953 + BPHYT_RS06360 0.33 -0.7
1,448,954 - BPHYT_RS06360 0.33 -1.2
1,448,954 - BPHYT_RS06360 0.33 -0.5
1,448,955 + BPHYT_RS06360 0.33 +0.8

Or see this region's nucleotide sequence