Experiment: Nitrate reduction in presence of wild-type Pseudomonas N1-B4; replicate A
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.
500 nt Pf6N2E2_288 and Pf6N2E2_289 are separated by 482 nucleotides Pf6N2E2_289 and Pf6N2E2_290 are separated by 77 nucleotides Pf6N2E2_290 and Pf6N2E2_291 are separated by 343 nucleotides Pf6N2E2_291 and Pf6N2E2_292 are separated by 29 nucleotides
Pf6N2E2_288 - Isocitrate dehydrogenase [NADP] (EC 1.1.1.42); Monomeric isocitrate dehydrogenase [NADP] (EC 1.1.1.42), at 355,657 to 357,882
_288
Pf6N2E2_289 - Isocitrate dehydrogenase [NADP] (EC 1.1.1.42), at 358,365 to 359,621
_289
Pf6N2E2_290 - Cold shock protein CspD, at 359,699 to 359,968
_290
Pf6N2E2_291 - ATP-dependent Clp protease adaptor protein ClpS, at 360,312 to 360,557
_291
Pf6N2E2_292 - ATP-dependent Clp protease ATP-binding subunit ClpA, at 360,587 to 362,857
_292
Position (kb) 358
359
360 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 357.908 kb on - strand at 357.908 kb on - strand at 358.052 kb on + strand at 358.077 kb on - strand at 358.077 kb on - strand at 358.119 kb on - strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.120 kb on + strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.121 kb on - strand at 358.124 kb on + strand at 358.124 kb on + strand at 358.124 kb on + strand at 358.124 kb on + strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.125 kb on - strand at 358.128 kb on + strand at 358.128 kb on + strand at 358.128 kb on + strand at 358.128 kb on + strand at 358.128 kb on + strand at 358.129 kb on - strand at 358.129 kb on - strand at 358.129 kb on - strand at 358.129 kb on - strand at 358.129 kb on - strand at 358.129 kb on - strand at 358.153 kb on + strand at 358.207 kb on + strand at 358.207 kb on + strand at 358.248 kb on + strand at 358.249 kb on - strand at 358.291 kb on - strand at 358.291 kb on - strand at 358.433 kb on + strand at 358.433 kb on + strand at 358.434 kb on - strand at 358.434 kb on - strand at 358.434 kb on - strand at 358.434 kb on - strand at 358.434 kb on - strand at 358.540 kb on - strand, within Pf6N2E2_289 at 358.540 kb on - strand, within Pf6N2E2_289 at 358.575 kb on + strand, within Pf6N2E2_289 at 358.576 kb on - strand, within Pf6N2E2_289 at 358.602 kb on + strand, within Pf6N2E2_289 at 358.602 kb on + strand, within Pf6N2E2_289 at 358.653 kb on + strand, within Pf6N2E2_289 at 358.653 kb on + strand, within Pf6N2E2_289 at 358.743 kb on + strand, within Pf6N2E2_289 at 358.744 kb on - strand, within Pf6N2E2_289 at 358.744 kb on - strand, within Pf6N2E2_289 at 358.744 kb on - strand, within Pf6N2E2_289 at 358.744 kb on - strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.848 kb on + strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 358.849 kb on - strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.016 kb on + strand, within Pf6N2E2_289 at 359.017 kb on - strand, within Pf6N2E2_289 at 359.017 kb on - strand, within Pf6N2E2_289 at 359.017 kb on - strand, within Pf6N2E2_289 at 359.057 kb on + strand, within Pf6N2E2_289 at 359.106 kb on + strand, within Pf6N2E2_289 at 359.106 kb on + strand, within Pf6N2E2_289 at 359.107 kb on - strand, within Pf6N2E2_289 at 359.256 kb on + strand, within Pf6N2E2_289 at 359.256 kb on + strand, within Pf6N2E2_289 at 359.263 kb on + strand, within Pf6N2E2_289 at 359.263 kb on + strand, within Pf6N2E2_289 at 359.264 kb on - strand, within Pf6N2E2_289 at 359.293 kb on - strand, within Pf6N2E2_289 at 359.293 kb on - strand, within Pf6N2E2_289 at 359.293 kb on - strand, within Pf6N2E2_289 at 359.403 kb on + strand, within Pf6N2E2_289 at 359.403 kb on + strand, within Pf6N2E2_289 at 359.404 kb on - strand, within Pf6N2E2_289 at 359.404 kb on - strand, within Pf6N2E2_289 at 359.404 kb on - strand, within Pf6N2E2_289 at 359.541 kb on + strand at 359.541 kb on + strand at 359.541 kb on + strand at 359.541 kb on + strand at 359.541 kb on + strand at 359.541 kb on + strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.542 kb on - strand at 359.619 kb on + strand at 359.619 kb on + strand at 359.619 kb on + strand at 359.620 kb on - strand at 359.620 kb on - strand at 359.620 kb on - strand at 359.620 kb on - strand at 359.620 kb on - strand at 359.620 kb on - strand at 359.836 kb on + strand, within Pf6N2E2_290 at 359.836 kb on + strand, within Pf6N2E2_290 at 359.837 kb on - strand, within Pf6N2E2_290 at 359.837 kb on - strand, within Pf6N2E2_290 at 359.838 kb on + strand, within Pf6N2E2_290 at 359.838 kb on + strand, within Pf6N2E2_290 at 359.838 kb on + strand, within Pf6N2E2_290 at 359.839 kb on - strand, within Pf6N2E2_290 at 359.862 kb on + strand, within Pf6N2E2_290 at 359.968 kb on + strand at 359.968 kb on + strand at 360.007 kb on - strand at 360.007 kb on - strand at 360.007 kb on - strand at 360.007 kb on - strand at 360.029 kb on + strand at 360.030 kb on - strand at 360.040 kb on + strand at 360.040 kb on + strand at 360.040 kb on + strand at 360.041 kb on - strand at 360.041 kb on - strand at 360.041 kb on - strand at 360.047 kb on - strand at 360.083 kb on - strand at 360.083 kb on - strand at 360.092 kb on - strand at 360.092 kb on - strand at 360.165 kb on + strand at 360.165 kb on + strand at 360.176 kb on + strand at 360.176 kb on + strand at 360.177 kb on - strand at 360.177 kb on - strand at 360.221 kb on - strand at 360.221 kb on - strand at 360.248 kb on - strand at 360.298 kb on + strand at 360.298 kb on + strand at 360.299 kb on - strand at 360.315 kb on + strand at 360.315 kb on + strand at 360.315 kb on + strand at 360.315 kb on + strand at 360.316 kb on - strand at 360.342 kb on + strand, within Pf6N2E2_291 at 360.342 kb on + strand, within Pf6N2E2_291 at 360.342 kb on + strand, within Pf6N2E2_291 at 360.431 kb on + strand, within Pf6N2E2_291 at 360.431 kb on + strand, within Pf6N2E2_291 at 360.432 kb on - strand, within Pf6N2E2_291 at 360.448 kb on + strand, within Pf6N2E2_291 at 360.448 kb on + strand, within Pf6N2E2_291 at 360.449 kb on - strand, within Pf6N2E2_291 at 360.530 kb on - strand, within Pf6N2E2_291 at 360.573 kb on + strand at 360.586 kb on + strand at 360.586 kb on + strand at 360.586 kb on + strand at 360.586 kb on + strand at 360.587 kb on - strand at 360.587 kb on - strand at 360.587 kb on - strand at 360.591 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction Nitrate reduction in presence of wild-type Pseudomonas N1-B4; replicate A remove 357,908 - -0.2 357,908 - +0.1 358,052 + +0.8 358,077 - +1.6 358,077 - -0.3 358,119 - +0.3 358,120 + +1.0 358,120 + -0.7 358,120 + +1.2 358,120 + -0.0 358,120 + +1.0 358,120 + +1.6 358,120 + +0.6 358,120 + +1.6 358,121 - -0.5 358,121 - -1.5 358,121 - -0.7 358,121 - -0.1 358,121 - +0.5 358,121 - +0.1 358,121 - -0.8 358,121 - -1.8 358,121 - +2.6 358,121 - +1.6 358,121 - -1.4 358,121 - -0.9 358,124 + +2.2 358,124 + +2.6 358,124 + +0.7 358,124 + +0.6 358,125 - -1.0 358,125 - +1.1 358,125 - +1.6 358,125 - -0.3 358,125 - +0.2 358,125 - +0.1 358,125 - -0.2 358,125 - -2.0 358,125 - +0.3 358,128 + +0.6 358,128 + -0.7 358,128 + +0.5 358,128 + -0.6 358,128 + +0.5 358,129 - +0.0 358,129 - -1.2 358,129 - -0.4 358,129 - +1.6 358,129 - +1.6 358,129 - -0.0 358,153 + +0.9 358,207 + -0.7 358,207 + -1.6 358,248 + -0.0 358,249 - +0.1 358,291 - +1.6 358,291 - -2.0 358,433 + -2.7 358,433 + -1.2 358,434 - -0.2 358,434 - -0.4 358,434 - +0.6 358,434 - +0.1 358,434 - -0.4 358,540 - Pf6N2E2_289 0.14 -2.8 358,540 - Pf6N2E2_289 0.14 -1.5 358,575 + Pf6N2E2_289 0.17 -2.2 358,576 - Pf6N2E2_289 0.17 +1.6 358,602 + Pf6N2E2_289 0.19 -1.9 358,602 + Pf6N2E2_289 0.19 -2.8 358,653 + Pf6N2E2_289 0.23 -1.8 358,653 + Pf6N2E2_289 0.23 -1.9 358,743 + Pf6N2E2_289 0.30 -2.8 358,744 - Pf6N2E2_289 0.30 +0.6 358,744 - Pf6N2E2_289 0.30 -1.1 358,744 - Pf6N2E2_289 0.30 +1.6 358,744 - Pf6N2E2_289 0.30 -3.4 358,848 + Pf6N2E2_289 0.38 -3.3 358,848 + Pf6N2E2_289 0.38 -0.0 358,848 + Pf6N2E2_289 0.38 -1.4 358,848 + Pf6N2E2_289 0.38 +1.6 358,848 + Pf6N2E2_289 0.38 -1.4 358,848 + Pf6N2E2_289 0.38 -0.0 358,848 + Pf6N2E2_289 0.38 -0.5 358,848 + Pf6N2E2_289 0.38 -2.6 358,848 + Pf6N2E2_289 0.38 -0.5 358,848 + Pf6N2E2_289 0.38 -0.8 358,848 + Pf6N2E2_289 0.38 -3.0 358,848 + Pf6N2E2_289 0.38 +0.6 358,849 - Pf6N2E2_289 0.39 -3.2 358,849 - Pf6N2E2_289 0.39 -4.0 358,849 - Pf6N2E2_289 0.39 -1.3 358,849 - Pf6N2E2_289 0.39 -2.0 358,849 - Pf6N2E2_289 0.39 -2.0 358,849 - Pf6N2E2_289 0.39 -3.2 358,849 - Pf6N2E2_289 0.39 -2.5 359,016 + Pf6N2E2_289 0.52 +0.2 359,016 + Pf6N2E2_289 0.52 -1.9 359,016 + Pf6N2E2_289 0.52 -2.0 359,016 + Pf6N2E2_289 0.52 -2.4 359,016 + Pf6N2E2_289 0.52 -2.6 359,016 + Pf6N2E2_289 0.52 +0.6 359,016 + Pf6N2E2_289 0.52 -2.6 359,017 - Pf6N2E2_289 0.52 -3.7 359,017 - Pf6N2E2_289 0.52 -2.6 359,017 - Pf6N2E2_289 0.52 -1.0 359,057 + Pf6N2E2_289 0.55 -3.0 359,106 + Pf6N2E2_289 0.59 -2.1 359,106 + Pf6N2E2_289 0.59 -1.4 359,107 - Pf6N2E2_289 0.59 -2.7 359,256 + Pf6N2E2_289 0.71 -0.4 359,256 + Pf6N2E2_289 0.71 -1.2 359,263 + Pf6N2E2_289 0.71 -2.7 359,263 + Pf6N2E2_289 0.71 +0.6 359,264 - Pf6N2E2_289 0.72 +1.6 359,293 - Pf6N2E2_289 0.74 -3.7 359,293 - Pf6N2E2_289 0.74 -1.4 359,293 - Pf6N2E2_289 0.74 -1.6 359,403 + Pf6N2E2_289 0.83 +1.6 359,403 + Pf6N2E2_289 0.83 -0.8 359,404 - Pf6N2E2_289 0.83 -2.4 359,404 - Pf6N2E2_289 0.83 -2.0 359,404 - Pf6N2E2_289 0.83 +1.6 359,541 + -2.5 359,541 + -2.5 359,541 + -2.8 359,541 + -1.8 359,541 + +0.6 359,541 + -0.9 359,542 - -2.5 359,542 - -1.9 359,542 - -1.7 359,542 - -1.4 359,542 - -2.2 359,542 - -0.8 359,542 - -2.8 359,619 + -0.9 359,619 + -2.8 359,619 + -1.0 359,620 - -1.1 359,620 - -1.7 359,620 - -1.0 359,620 - -0.4 359,620 - -0.7 359,620 - -1.3 359,836 + Pf6N2E2_290 0.51 +2.6 359,836 + Pf6N2E2_290 0.51 -0.8 359,837 - Pf6N2E2_290 0.51 -2.0 359,837 - Pf6N2E2_290 0.51 -1.3 359,838 + Pf6N2E2_290 0.51 +1.6 359,838 + Pf6N2E2_290 0.51 +1.6 359,838 + Pf6N2E2_290 0.51 +0.4 359,839 - Pf6N2E2_290 0.52 -0.8 359,862 + Pf6N2E2_290 0.60 -0.4 359,968 + +0.6 359,968 + +0.3 360,007 - -2.6 360,007 - -0.5 360,007 - +0.6 360,007 - -0.4 360,029 + -0.0 360,030 - -2.3 360,040 + -0.9 360,040 + -0.5 360,040 + -0.8 360,041 - -1.6 360,041 - -0.3 360,041 - -0.0 360,047 - -1.6 360,083 - -1.2 360,083 - -0.8 360,092 - -1.2 360,092 - -2.9 360,165 + +1.6 360,165 + -0.4 360,176 + -1.6 360,176 + -1.1 360,177 - -0.9 360,177 - +0.1 360,221 - -2.0 360,221 - -2.0 360,248 - -1.5 360,298 + -1.7 360,298 + -1.2 360,299 - -0.1 360,315 + -1.0 360,315 + -0.0 360,315 + -1.9 360,315 + -3.2 360,316 - -1.4 360,342 + Pf6N2E2_291 0.12 +0.1 360,342 + Pf6N2E2_291 0.12 -1.7 360,342 + Pf6N2E2_291 0.12 -2.2 360,431 + Pf6N2E2_291 0.48 -1.3 360,431 + Pf6N2E2_291 0.48 -1.4 360,432 - Pf6N2E2_291 0.49 -1.6 360,448 + Pf6N2E2_291 0.55 -0.2 360,448 + Pf6N2E2_291 0.55 +0.1 360,449 - Pf6N2E2_291 0.56 -2.2 360,530 - Pf6N2E2_291 0.89 -1.4 360,573 + -0.8 360,586 + -1.0 360,586 + +1.6 360,586 + -1.1 360,586 + -0.2 360,587 - +1.6 360,587 - -3.7 360,587 - -1.0 360,591 + -0.0
Or see this region's nucleotide sequence