Strain Fitness in Burkholderia phytofirmans PsJN around BPHYT_RS02085

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_RS02080 and BPHYT_RS02085 are separated by 82 nucleotidesBPHYT_RS02085 and BPHYT_RS02090 are separated by 224 nucleotides BPHYT_RS02080: BPHYT_RS02080 - LysR family transcriptional regulator, at 476,776 to 477,714 _RS02080 BPHYT_RS02085: BPHYT_RS02085 - methylmalonyl-CoA mutase, at 477,797 to 481,693 _RS02085 BPHYT_RS02090: BPHYT_RS02090 - 2-nitropropane dioxygenase, at 481,918 to 482,877 _RS02090 Position (kb) 477 478 479 480 481 482Strain fitness (log2 ratio) -2 -1 0 1 2 3at 476.972 kb on - strand, within BPHYT_RS02080at 477.149 kb on + strand, within BPHYT_RS02080at 477.149 kb on + strand, within BPHYT_RS02080at 477.150 kb on - strand, within BPHYT_RS02080at 477.346 kb on + strand, within BPHYT_RS02080at 477.346 kb on + strand, within BPHYT_RS02080at 477.347 kb on - strand, within BPHYT_RS02080at 477.347 kb on - strand, within BPHYT_RS02080at 477.592 kb on + strand, within BPHYT_RS02080at 477.593 kb on - strand, within BPHYT_RS02080at 477.753 kb on - strandat 477.754 kb on + strandat 477.755 kb on - strandat 477.773 kb on + strandat 477.773 kb on + strandat 477.774 kb on - strandat 478.034 kb on + strandat 478.035 kb on - strandat 478.065 kb on - strandat 478.184 kb on + strandat 478.184 kb on + strandat 478.184 kb on + strandat 478.185 kb on - strandat 478.185 kb on - strandat 478.235 kb on - strand, within BPHYT_RS02085at 478.832 kb on + strand, within BPHYT_RS02085at 478.833 kb on - strand, within BPHYT_RS02085at 478.958 kb on + strand, within BPHYT_RS02085at 479.123 kb on + strand, within BPHYT_RS02085at 479.123 kb on + strand, within BPHYT_RS02085at 479.123 kb on + strand, within BPHYT_RS02085at 479.123 kb on + strand, within BPHYT_RS02085at 479.124 kb on - strand, within BPHYT_RS02085at 479.124 kb on - strand, within BPHYT_RS02085at 479.124 kb on - strand, within BPHYT_RS02085at 479.124 kb on - strand, within BPHYT_RS02085at 479.124 kb on - strand, within BPHYT_RS02085at 479.332 kb on + strand, within BPHYT_RS02085at 479.484 kb on - strand, within BPHYT_RS02085at 479.484 kb on - strand, within BPHYT_RS02085at 479.516 kb on + strand, within BPHYT_RS02085at 479.602 kb on + strand, within BPHYT_RS02085at 479.672 kb on - strand, within BPHYT_RS02085at 479.978 kb on + strand, within BPHYT_RS02085at 480.141 kb on - strand, within BPHYT_RS02085at 480.141 kb on - strand, within BPHYT_RS02085at 480.262 kb on + strand, within BPHYT_RS02085at 480.262 kb on + strand, within BPHYT_RS02085at 480.263 kb on - strand, within BPHYT_RS02085at 480.342 kb on - strand, within BPHYT_RS02085at 480.695 kb on + strand, within BPHYT_RS02085at 480.696 kb on - strand, within BPHYT_RS02085at 480.726 kb on - strand, within BPHYT_RS02085at 480.815 kb on + strand, within BPHYT_RS02085at 480.816 kb on - strand, within BPHYT_RS02085at 480.816 kb on - strand, within BPHYT_RS02085at 480.816 kb on - strand, within BPHYT_RS02085at 480.828 kb on - strand, within BPHYT_RS02085at 480.905 kb on + strand, within BPHYT_RS02085at 480.995 kb on + strand, within BPHYT_RS02085at 480.996 kb on - strand, within BPHYT_RS02085at 481.373 kb on + strandat 481.373 kb on + strandat 481.373 kb on + strandat 481.373 kb on + strandat 481.374 kb on - strandat 481.374 kb on - strandat 481.374 kb on - strandat 481.420 kb on + strandat 481.420 kb on + strandat 481.687 kb on + strandat 481.688 kb on - strandat 481.691 kb on + strandat 481.691 kb on + strandat 481.692 kb on - strandat 481.692 kb on - strandat 481.953 kb on + strandat 481.954 kb on - strandat 481.954 kb on - strandat 481.955 kb on + strandat 482.144 kb on + strand, within BPHYT_RS02090at 482.144 kb on + strand, within BPHYT_RS02090at 482.145 kb on - strand, within BPHYT_RS02090at 482.145 kb on - strand, within BPHYT_RS02090at 482.145 kb on - strand, within BPHYT_RS02090at 482.175 kb on + strand, within BPHYT_RS02090at 482.178 kb on - strand, within BPHYT_RS02090at 482.220 kb on - strand, within BPHYT_RS02090at 482.270 kb on + strand, within BPHYT_RS02090at 482.270 kb on + strand, within BPHYT_RS02090at 482.271 kb on - strand, within BPHYT_RS02090at 482.271 kb on - strand, within BPHYT_RS02090at 482.271 kb on - strand, within BPHYT_RS02090at 482.357 kb on - strand, within BPHYT_RS02090at 482.357 kb on - strand, within BPHYT_RS02090at 482.510 kb on + strand, within BPHYT_RS02090at 482.510 kb on + strand, within BPHYT_RS02090at 482.511 kb on - strand, within BPHYT_RS02090at 482.514 kb on + strand, within BPHYT_RS02090at 482.515 kb on - strand, within BPHYT_RS02090

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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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476,972 - BPHYT_RS02080 0.21 +1.5
477,149 + BPHYT_RS02080 0.40 -0.1
477,149 + BPHYT_RS02080 0.40 -1.8
477,150 - BPHYT_RS02080 0.40 +0.5
477,346 + BPHYT_RS02080 0.61 +0.4
477,346 + BPHYT_RS02080 0.61 -0.9
477,347 - BPHYT_RS02080 0.61 +0.5
477,347 - BPHYT_RS02080 0.61 -0.0
477,592 + BPHYT_RS02080 0.87 +2.6
477,593 - BPHYT_RS02080 0.87 +0.9
477,753 - -0.7
477,754 + -1.8
477,755 - +0.6
477,773 + -2.0
477,773 + -1.0
477,774 - -0.6
478,034 + +1.1
478,035 - -2.1
478,065 - +0.3
478,184 + -0.3
478,184 + -1.1
478,184 + -1.0
478,185 - +0.4
478,185 - -2.0
478,235 - BPHYT_RS02085 0.11 +0.6
478,832 + BPHYT_RS02085 0.27 +0.7
478,833 - BPHYT_RS02085 0.27 -0.6
478,958 + BPHYT_RS02085 0.30 -1.4
479,123 + BPHYT_RS02085 0.34 +0.4
479,123 + BPHYT_RS02085 0.34 -1.0
479,123 + BPHYT_RS02085 0.34 -1.2
479,123 + BPHYT_RS02085 0.34 +1.2
479,124 - BPHYT_RS02085 0.34 +1.6
479,124 - BPHYT_RS02085 0.34 +0.5
479,124 - BPHYT_RS02085 0.34 -0.4
479,124 - BPHYT_RS02085 0.34 +0.3
479,124 - BPHYT_RS02085 0.34 -1.3
479,332 + BPHYT_RS02085 0.39 +0.1
479,484 - BPHYT_RS02085 0.43 +0.3
479,484 - BPHYT_RS02085 0.43 +2.2
479,516 + BPHYT_RS02085 0.44 +0.7
479,602 + BPHYT_RS02085 0.46 +0.6
479,672 - BPHYT_RS02085 0.48 -0.4
479,978 + BPHYT_RS02085 0.56 +1.0
480,141 - BPHYT_RS02085 0.60 -0.7
480,141 - BPHYT_RS02085 0.60 -0.3
480,262 + BPHYT_RS02085 0.63 +0.7
480,262 + BPHYT_RS02085 0.63 -0.0
480,263 - BPHYT_RS02085 0.63 -0.2
480,342 - BPHYT_RS02085 0.65 +0.3
480,695 + BPHYT_RS02085 0.74 +1.0
480,696 - BPHYT_RS02085 0.74 -1.5
480,726 - BPHYT_RS02085 0.75 +0.2
480,815 + BPHYT_RS02085 0.77 -0.0
480,816 - BPHYT_RS02085 0.77 +0.7
480,816 - BPHYT_RS02085 0.77 +0.8
480,816 - BPHYT_RS02085 0.77 +0.0
480,828 - BPHYT_RS02085 0.78 -0.2
480,905 + BPHYT_RS02085 0.80 -2.3
480,995 + BPHYT_RS02085 0.82 +3.3
480,996 - BPHYT_RS02085 0.82 -0.2
481,373 + +0.7
481,373 + -0.4
481,373 + +1.0
481,373 + +0.2
481,374 - +0.0
481,374 - -0.9
481,374 - +0.3
481,420 + -0.5
481,420 + +0.4
481,687 + +0.4
481,688 - -0.2
481,691 + -0.1
481,691 + +0.3
481,692 - -0.3
481,692 - -0.4
481,953 + -0.6
481,954 - -2.1
481,954 - +0.3
481,955 + +0.8
482,144 + BPHYT_RS02090 0.24 +0.8
482,144 + BPHYT_RS02090 0.24 +0.0
482,145 - BPHYT_RS02090 0.24 -0.8
482,145 - BPHYT_RS02090 0.24 -0.4
482,145 - BPHYT_RS02090 0.24 +0.7
482,175 + BPHYT_RS02090 0.27 -0.6
482,178 - BPHYT_RS02090 0.27 +0.1
482,220 - BPHYT_RS02090 0.31 -0.2
482,270 + BPHYT_RS02090 0.37 -0.4
482,270 + BPHYT_RS02090 0.37 +0.3
482,271 - BPHYT_RS02090 0.37 +0.1
482,271 - BPHYT_RS02090 0.37 -0.5
482,271 - BPHYT_RS02090 0.37 -1.3
482,357 - BPHYT_RS02090 0.46 -0.1
482,357 - BPHYT_RS02090 0.46 -2.4
482,510 + BPHYT_RS02090 0.62 -1.1
482,510 + BPHYT_RS02090 0.62 -0.3
482,511 - BPHYT_RS02090 0.62 -0.4
482,514 + BPHYT_RS02090 0.62 +0.3
482,515 - BPHYT_RS02090 0.62 +2.1

Or see this region's nucleotide sequence