Experiment: Nitrate reduction in presence of wild-type Pseudomonas N2-E3; 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 Pf1N1B4_231 and Pf1N1B4_232 are separated by 47 nucleotides Pf1N1B4_232 and Pf1N1B4_233 overlap by 17 nucleotides Pf1N1B4_233 and Pf1N1B4_234 are separated by 307 nucleotides Pf1N1B4_234 and Pf1N1B4_235 are separated by 65 nucleotides
Pf1N1B4_231 - Sensor histidine kinase, at 292,071 to 292,964
_231
Pf1N1B4_232 - DNA-binding response regulator, LuxR family, at 293,012 to 293,620
_232
Pf1N1B4_233 - Transcription regulator [contains diacylglycerol kinase catalytic domain], at 293,604 to 294,536
_233
Pf1N1B4_234 - hypothetical protein, at 294,844 to 295,152
_234
Pf1N1B4_235 - Molybdopterin biosynthesis protein MoeA, at 295,218 to 296,405
_235
Position (kb) 293
294
295 Strain fitness (log2 ratio) -2
-1
0
1
2 at 292.682 kb on + strand, within Pf1N1B4_231 at 292.682 kb on + strand, within Pf1N1B4_231 at 292.683 kb on - strand at 292.684 kb on + strand, within Pf1N1B4_231 at 292.684 kb on + strand, within Pf1N1B4_231 at 292.684 kb on + strand, within Pf1N1B4_231 at 292.706 kb on + strand, within Pf1N1B4_231 at 292.849 kb on + strand, within Pf1N1B4_231 at 292.849 kb on + strand, within Pf1N1B4_231 at 292.931 kb on - strand at 292.949 kb on + strand at 292.950 kb on - strand at 292.969 kb on + strand at 292.969 kb on + strand at 292.970 kb on - strand at 292.974 kb on + strand at 292.974 kb on + strand at 292.974 kb on + strand at 292.974 kb on + strand at 292.975 kb on - strand at 292.975 kb on - strand at 292.999 kb on + strand at 293.049 kb on + strand at 293.125 kb on + strand at 293.558 kb on + strand, within Pf1N1B4_232 at 293.559 kb on - strand, within Pf1N1B4_232 at 293.559 kb on - strand, within Pf1N1B4_232 at 293.735 kb on + strand, within Pf1N1B4_233 at 293.736 kb on - strand, within Pf1N1B4_233 at 293.736 kb on - strand at 293.737 kb on + strand at 293.738 kb on - strand at 293.738 kb on - strand, within Pf1N1B4_233 at 293.738 kb on - strand, within Pf1N1B4_233 at 293.738 kb on - strand, within Pf1N1B4_233 at 293.738 kb on - strand, within Pf1N1B4_233 at 293.738 kb on - strand at 293.738 kb on - strand, within Pf1N1B4_233 at 294.046 kb on + strand, within Pf1N1B4_233 at 294.046 kb on + strand, within Pf1N1B4_233 at 294.047 kb on - strand, within Pf1N1B4_233 at 294.087 kb on - strand, within Pf1N1B4_233 at 294.087 kb on - strand, within Pf1N1B4_233 at 294.087 kb on - strand, within Pf1N1B4_233 at 294.264 kb on + strand, within Pf1N1B4_233 at 294.265 kb on - strand at 294.351 kb on - strand, within Pf1N1B4_233 at 294.555 kb on + strand at 294.555 kb on + strand at 294.555 kb on + strand at 294.556 kb on - strand at 294.556 kb on - strand at 294.578 kb on + strand at 294.579 kb on - strand at 294.579 kb on - strand at 294.600 kb on + strand at 294.601 kb on - strand at 294.628 kb on + strand at 294.649 kb on - strand at 294.649 kb on - strand at 294.694 kb on + strand at 294.695 kb on - strand at 294.695 kb on - strand at 294.730 kb on + strand at 294.734 kb on + strand at 294.735 kb on - strand at 294.735 kb on - strand at 294.821 kb on + strand at 294.997 kb on + strand at 294.997 kb on + strand, within Pf1N1B4_234 at 294.997 kb on + strand, within Pf1N1B4_234 at 294.997 kb on + strand, within Pf1N1B4_234 at 294.998 kb on - strand, within Pf1N1B4_234 at 294.998 kb on - strand, within Pf1N1B4_234 at 295.150 kb on + strand at 295.150 kb on + strand at 295.150 kb on + strand at 295.216 kb on + strand at 295.217 kb on - strand at 295.275 kb on - strand at 295.348 kb on + strand, within Pf1N1B4_235 at 295.349 kb on - strand, within Pf1N1B4_235 at 295.387 kb on + strand, within Pf1N1B4_235 at 295.388 kb on - strand, within Pf1N1B4_235 at 295.388 kb on - strand, within Pf1N1B4_235 at 295.388 kb on - strand, within Pf1N1B4_235 at 295.483 kb on + strand, within Pf1N1B4_235
Per-strain Table
Position Strand Gene LocusTag Fraction Nitrate reduction in presence of wild-type Pseudomonas N2-E3; replicate A remove 292,682 + Pf1N1B4_231 0.68 -0.2 292,682 + Pf1N1B4_231 0.68 -0.2 292,683 - -1.8 292,684 + Pf1N1B4_231 0.69 -0.5 292,684 + Pf1N1B4_231 0.69 -1.3 292,684 + Pf1N1B4_231 0.69 +1.0 292,706 + Pf1N1B4_231 0.71 -2.1 292,849 + Pf1N1B4_231 0.87 +0.1 292,849 + Pf1N1B4_231 0.87 +1.1 292,931 - -0.2 292,949 + -0.2 292,950 - +0.1 292,969 + +1.6 292,969 + -0.1 292,970 - -1.1 292,974 + +0.9 292,974 + +0.8 292,974 + +0.2 292,974 + +1.0 292,975 - +0.1 292,975 - -0.4 292,999 + +0.9 293,049 + +0.8 293,125 + +0.7 293,558 + Pf1N1B4_232 0.90 -0.3 293,559 - Pf1N1B4_232 0.90 -1.4 293,559 - Pf1N1B4_232 0.90 -0.5 293,735 + Pf1N1B4_233 0.14 -0.6 293,736 - Pf1N1B4_233 0.14 -1.3 293,736 - -0.6 293,737 + -0.4 293,738 - -1.4 293,738 - Pf1N1B4_233 0.14 -0.6 293,738 - Pf1N1B4_233 0.14 -0.2 293,738 - Pf1N1B4_233 0.14 -0.6 293,738 - Pf1N1B4_233 0.14 -1.0 293,738 - -2.1 293,738 - Pf1N1B4_233 0.14 +0.1 294,046 + Pf1N1B4_233 0.47 -0.0 294,046 + Pf1N1B4_233 0.47 -0.8 294,047 - Pf1N1B4_233 0.47 +0.4 294,087 - Pf1N1B4_233 0.52 -0.4 294,087 - Pf1N1B4_233 0.52 +0.0 294,087 - Pf1N1B4_233 0.52 -1.0 294,264 + Pf1N1B4_233 0.71 -2.3 294,265 - -1.8 294,351 - Pf1N1B4_233 0.80 -1.6 294,555 + +0.5 294,555 + -2.3 294,555 + +0.4 294,556 - -0.3 294,556 - -0.4 294,578 + +1.4 294,579 - +0.4 294,579 - -1.2 294,600 + +0.6 294,601 - -0.5 294,628 + -0.5 294,649 - +0.7 294,649 - -0.1 294,694 + +0.8 294,695 - -2.0 294,695 - -0.6 294,730 + +0.6 294,734 + -1.1 294,735 - -0.3 294,735 - +0.6 294,821 + +0.4 294,997 + -0.8 294,997 + Pf1N1B4_234 0.50 +0.0 294,997 + Pf1N1B4_234 0.50 +0.9 294,997 + Pf1N1B4_234 0.50 -1.6 294,998 - Pf1N1B4_234 0.50 -1.2 294,998 - Pf1N1B4_234 0.50 -0.6 295,150 + +0.0 295,150 + -0.2 295,150 + +0.4 295,216 + +1.9 295,217 - +0.2 295,275 - -0.4 295,348 + Pf1N1B4_235 0.11 +0.8 295,349 - Pf1N1B4_235 0.11 +0.4 295,387 + Pf1N1B4_235 0.14 +0.4 295,388 - Pf1N1B4_235 0.14 -0.2 295,388 - Pf1N1B4_235 0.14 +2.0 295,388 - Pf1N1B4_235 0.14 +0.6 295,483 + Pf1N1B4_235 0.22 +0.8
Or see this region's nucleotide sequence