Strain Fitness in Pseudomonas putida KT2440 around PP_5433

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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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 ntPP_0200 and PP_0201 are separated by 65 nucleotidesPP_0201 and PP_5432 are separated by 61 nucleotidesPP_5432 and PP_5433 are separated by 69 nucleotidesPP_5433 and PP_0202 are separated by 6 nucleotidesPP_0202 and PP_0203 are separated by 170 nucleotides PP_0200: PP_0200 - putative membrane bound peptidase, nefD, at 249,856 to 251,202 _0200 PP_0201: PP_0201 - conserved protein of unknown function, at 251,268 to 251,759 _0201 PP_5432: PP_5432 - conserved protein of unknown function, at 251,821 to 252,063 _5432 PP_5433: PP_5433 - putative NADH:ubiquinone oxidoreductase subunit 2, at 252,133 to 252,771 _5433 PP_0202: PP_0202 - CBS domain-containing protein, at 252,778 to 253,215 _0202 PP_0203: PP_0203 - putative dipeptidase, at 253,386 to 255,116 _0203 Position (kb) 252 253Strain fitness (log2 ratio) -1 0 1 2at 251.226 kb on - strandat 251.229 kb on - strandat 251.352 kb on + strand, within PP_0201at 251.352 kb on + strand, within PP_0201at 251.353 kb on - strand, within PP_0201at 251.353 kb on - strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.466 kb on + strand, within PP_0201at 251.467 kb on - strand, within PP_0201at 251.467 kb on - strand, within PP_0201at 251.467 kb on - strand, within PP_0201at 251.467 kb on - strand, within PP_0201at 251.614 kb on - strand, within PP_0201at 251.614 kb on - strand, within PP_0201at 251.664 kb on + strand, within PP_0201at 251.665 kb on - strand, within PP_0201at 251.715 kb on + strandat 251.715 kb on + strandat 251.716 kb on - strandat 251.716 kb on - strandat 251.716 kb on - strandat 251.716 kb on - strandat 251.889 kb on + strand, within PP_5432at 252.101 kb on + strandat 252.101 kb on + strandat 252.101 kb on + strandat 252.102 kb on - strandat 252.102 kb on - strandat 252.102 kb on - strandat 252.102 kb on - strandat 252.119 kb on - strandat 252.199 kb on + strand, within PP_5433at 252.199 kb on + strand, within PP_5433at 252.200 kb on - strand, within PP_5433at 252.205 kb on + strand, within PP_5433at 252.205 kb on + strand, within PP_5433at 252.205 kb on + strand, within PP_5433at 252.206 kb on - strand, within PP_5433at 252.206 kb on - strand, within PP_5433at 252.253 kb on + strand, within PP_5433at 252.375 kb on + strand, within PP_5433at 252.376 kb on - strand, within PP_5433at 252.376 kb on - strand, within PP_5433at 252.419 kb on - strand, within PP_5433at 252.433 kb on + strand, within PP_5433at 252.433 kb on + strand, within PP_5433at 252.433 kb on + strand, within PP_5433at 252.433 kb on + strand, within PP_5433at 252.434 kb on - strand, within PP_5433at 252.622 kb on + strand, within PP_5433at 252.623 kb on - strand, within PP_5433at 252.623 kb on - strand, within PP_5433at 252.623 kb on - strand, within PP_5433at 252.666 kb on + strand, within PP_5433at 252.703 kb on + strand, within PP_5433at 252.703 kb on + strand, within PP_5433at 252.704 kb on - strand, within PP_5433at 252.704 kb on - strand, within PP_5433at 252.726 kb on + strandat 252.726 kb on + strandat 252.727 kb on - strandat 252.794 kb on + strandat 252.794 kb on + strandat 252.795 kb on - strandat 253.043 kb on + strand, within PP_0202at 253.043 kb on + strand, within PP_0202at 253.163 kb on + strand, within PP_0202at 253.164 kb on - strand, within PP_0202at 253.164 kb on - strand, within PP_0202at 253.164 kb on - strand, within PP_0202at 253.215 kb on + strandat 253.215 kb on + strandat 253.216 kb on - strandat 253.254 kb on - strandat 253.257 kb on + strandat 253.258 kb on - strandat 253.258 kb on - strandat 253.258 kb on - strandat 253.340 kb on - strandat 253.493 kb on - strandat 253.568 kb on + strand, within PP_0203

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Per-strain Table

Position Strand Gene LocusTag Fraction 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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251,226 - +0.4
251,229 - -1.2
251,352 + PP_0201 0.17 -1.3
251,352 + PP_0201 0.17 +1.1
251,353 - PP_0201 0.17 +0.9
251,353 - PP_0201 0.17 -1.4
251,466 + PP_0201 0.40 +1.2
251,466 + PP_0201 0.40 -0.4
251,466 + PP_0201 0.40 -1.7
251,466 + PP_0201 0.40 +1.1
251,466 + PP_0201 0.40 +0.2
251,466 + PP_0201 0.40 +0.9
251,467 - PP_0201 0.40 +0.2
251,467 - PP_0201 0.40 -0.9
251,467 - PP_0201 0.40 -0.2
251,467 - PP_0201 0.40 +0.6
251,614 - PP_0201 0.70 +0.0
251,614 - PP_0201 0.70 +0.2
251,664 + PP_0201 0.80 -1.5
251,665 - PP_0201 0.81 -0.9
251,715 + -1.1
251,715 + +0.1
251,716 - +0.7
251,716 - -0.6
251,716 - +1.1
251,716 - -1.5
251,889 + PP_5432 0.28 +2.1
252,101 + -0.4
252,101 + +0.0
252,101 + +0.6
252,102 - -0.5
252,102 - +1.9
252,102 - +0.1
252,102 - +0.8
252,119 - -0.3
252,199 + PP_5433 0.10 +0.5
252,199 + PP_5433 0.10 +0.2
252,200 - PP_5433 0.10 -0.4
252,205 + PP_5433 0.11 +0.7
252,205 + PP_5433 0.11 +1.3
252,205 + PP_5433 0.11 -0.6
252,206 - PP_5433 0.11 -0.1
252,206 - PP_5433 0.11 +1.3
252,253 + PP_5433 0.19 +1.1
252,375 + PP_5433 0.38 +0.3
252,376 - PP_5433 0.38 +0.2
252,376 - PP_5433 0.38 +0.5
252,419 - PP_5433 0.45 +2.3
252,433 + PP_5433 0.47 +0.0
252,433 + PP_5433 0.47 +0.1
252,433 + PP_5433 0.47 +0.8
252,433 + PP_5433 0.47 +1.3
252,434 - PP_5433 0.47 -0.7
252,622 + PP_5433 0.77 +0.9
252,623 - PP_5433 0.77 -0.1
252,623 - PP_5433 0.77 -0.3
252,623 - PP_5433 0.77 +0.1
252,666 + PP_5433 0.83 +0.2
252,703 + PP_5433 0.89 +0.3
252,703 + PP_5433 0.89 +0.2
252,704 - PP_5433 0.89 +0.6
252,704 - PP_5433 0.89 +1.0
252,726 + +0.1
252,726 + -0.9
252,727 - -0.1
252,794 + -0.1
252,794 + -0.3
252,795 - +0.1
253,043 + PP_0202 0.61 +0.8
253,043 + PP_0202 0.61 +0.5
253,163 + PP_0202 0.88 +0.0
253,164 - PP_0202 0.88 -0.9
253,164 - PP_0202 0.88 +0.2
253,164 - PP_0202 0.88 -0.4
253,215 + +0.0
253,215 + +0.8
253,216 - -1.3
253,254 - -0.0
253,257 + -1.0
253,258 - -0.3
253,258 - -1.2
253,258 - +0.5
253,340 - +0.3
253,493 - +0.2
253,568 + PP_0203 0.11 -0.3

Or see this region's nucleotide sequence