Strain Fitness in Pseudomonas putida KT2440 around PP_0030

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_5422 and PP_0029 are separated by 317 nucleotidesPP_0029 and PP_0030 overlap by 4 nucleotidesPP_0030 and PP_0031 are separated by 57 nucleotidesPP_0031 and PP_0032 are separated by 266 nucleotides PP_5422: PP_5422 - hypothetical protein, at 32,402 to 32,575 _5422 PP_0029: PP_0029 - two component heavy metal response regulator, at 32,893 to 33,567 _0029 PP_0030: PP_0030 - metal-sensor histidine kinase, at 33,564 to 34,982 _0030 PP_0031: PP_0031 - hypothetical protein, at 35,040 to 35,627 _0031 PP_0032: PP_0032 - conserved hypothetical protein, at 35,894 to 36,115 _0032 Position (kb) 33 34 35Strain fitness (log2 ratio) -2 -1 0 1 2 3at 32.573 kb on + strandat 32.573 kb on + strandat 32.574 kb on - strandat 32.629 kb on + strandat 32.629 kb on + strandat 32.630 kb on - strandat 32.630 kb on - strandat 32.701 kb on + strandat 32.702 kb on - strandat 32.844 kb on + strandat 32.859 kb on - strandat 32.904 kb on - strandat 32.922 kb on + strandat 32.936 kb on - strandat 32.965 kb on + strand, within PP_0029at 32.965 kb on + strand, within PP_0029at 32.965 kb on + strand, within PP_0029at 32.977 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 33.017 kb on + strand, within PP_0029at 33.018 kb on + strand, within PP_0029at 33.019 kb on - strand, within PP_0029at 33.093 kb on + strand, within PP_0029at 33.093 kb on + strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.255 kb on - strand, within PP_0029at 33.255 kb on - strand, within PP_0029at 33.467 kb on + strand, within PP_0029at 33.467 kb on + strand, within PP_0029at 33.468 kb on - strand, within PP_0029at 33.468 kb on - strand, within PP_0029at 33.598 kb on + strandat 33.651 kb on + strandat 33.662 kb on - strandat 33.704 kb on - strandat 33.810 kb on + strand, within PP_0030at 33.810 kb on + strandat 33.811 kb on - strand, within PP_0030at 33.820 kb on + strand, within PP_0030at 33.820 kb on + strand, within PP_0030at 33.821 kb on - strand, within PP_0030at 33.821 kb on - strand, within PP_0030at 33.824 kb on - strand, within PP_0030at 33.935 kb on + strand, within PP_0030at 33.935 kb on + strand, within PP_0030at 33.936 kb on - strand, within PP_0030at 33.936 kb on - strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.135 kb on + strand, within PP_0030at 34.135 kb on + strand, within PP_0030at 34.136 kb on - strand, within PP_0030at 34.136 kb on - strand, within PP_0030at 34.695 kb on + strand, within PP_0030at 34.696 kb on - strand, within PP_0030at 34.696 kb on - strand, within PP_0030at 34.696 kb on - strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.712 kb on + strand, within PP_0030at 34.713 kb on - strand, within PP_0030at 34.713 kb on - strand, within PP_0030at 34.713 kb on - strand, within PP_0030at 34.713 kb on - strand, within PP_0030at 34.713 kb on - strand, within PP_0030at 34.725 kb on - strand, within PP_0030at 34.757 kb on + strand, within PP_0030at 34.758 kb on - strand, within PP_0030at 34.797 kb on + strand, within PP_0030at 34.797 kb on + strand, within PP_0030at 34.798 kb on - strand, within PP_0030at 34.980 kb on + strandat 34.999 kb on + strandat 34.999 kb on + strandat 34.999 kb on + strandat 35.090 kb on + strandat 35.091 kb on - strandat 35.091 kb on - strandat 35.094 kb on - strandat 35.140 kb on + strand, within PP_0031at 35.140 kb on + strand, within PP_0031at 35.141 kb on - strand, within PP_0031at 35.141 kb on - strand, within PP_0031at 35.141 kb on - strand, within PP_0031at 35.169 kb on + strand, within PP_0031at 35.169 kb on + strand, within PP_0031at 35.169 kb on + strand, within PP_0031at 35.170 kb on - strand, within PP_0031at 35.170 kb on - strand, within PP_0031at 35.170 kb on - strand, within PP_0031at 35.257 kb on + strand, within PP_0031at 35.257 kb on + strand, within PP_0031at 35.258 kb on - strand, within PP_0031at 35.258 kb on - strandat 35.258 kb on - strand, within PP_0031at 35.297 kb on + strand, within PP_0031at 35.298 kb on - strand, within PP_0031at 35.327 kb on + strand, within PP_0031at 35.327 kb on + strand, within PP_0031at 35.328 kb on - strand, within PP_0031at 35.384 kb on - strand, within PP_0031at 35.616 kb on + strandat 35.617 kb on - strandat 35.617 kb on - strandat 35.797 kb on + strandat 35.860 kb on - strandat 35.877 kb on - strandat 35.877 kb on - strand

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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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32,573 + +0.5
32,573 + -0.0
32,574 - -0.2
32,629 + -0.2
32,629 + +2.2
32,630 - +0.7
32,630 - -2.2
32,701 + -2.0
32,702 - +1.1
32,844 + +1.7
32,859 - -0.5
32,904 - -1.6
32,922 + +1.9
32,936 - +0.6
32,965 + PP_0029 0.11 -0.5
32,965 + PP_0029 0.11 +0.5
32,965 + PP_0029 0.11 -0.7
32,977 - PP_0029 0.12 -0.1
32,994 - PP_0029 0.15 +0.5
32,994 - PP_0029 0.15 +0.4
32,994 - PP_0029 0.15 -0.2
33,017 + PP_0029 0.18 -0.8
33,018 + PP_0029 0.19 -1.3
33,019 - PP_0029 0.19 +0.1
33,093 + PP_0029 0.30 -0.2
33,093 + PP_0029 0.30 -0.9
33,094 - PP_0029 0.30 +0.0
33,094 - PP_0029 0.30 +2.1
33,094 - PP_0029 0.30 +0.4
33,181 + PP_0029 0.43 -1.4
33,181 + PP_0029 0.43 +0.5
33,181 + PP_0029 0.43 -0.4
33,182 - PP_0029 0.43 +2.1
33,182 - PP_0029 0.43 -1.2
33,182 - PP_0029 0.43 -1.4
33,255 - PP_0029 0.54 -0.4
33,255 - PP_0029 0.54 -0.1
33,467 + PP_0029 0.85 +2.1
33,467 + PP_0029 0.85 -0.1
33,468 - PP_0029 0.85 -1.9
33,468 - PP_0029 0.85 -0.8
33,598 + +1.4
33,651 + +1.7
33,662 - +1.7
33,704 - -0.2
33,810 + PP_0030 0.17 -2.7
33,810 + +1.7
33,811 - PP_0030 0.17 -0.3
33,820 + PP_0030 0.18 -1.3
33,820 + PP_0030 0.18 -0.2
33,821 - PP_0030 0.18 -0.6
33,821 - PP_0030 0.18 -0.4
33,824 - PP_0030 0.18 -0.6
33,935 + PP_0030 0.26 -0.1
33,935 + PP_0030 0.26 +1.0
33,936 - PP_0030 0.26 -2.2
33,936 - PP_0030 0.26 +0.4
34,005 + PP_0030 0.31 -0.1
34,005 + PP_0030 0.31 -1.0
34,005 + PP_0030 0.31 +2.1
34,005 + PP_0030 0.31 +0.6
34,006 - PP_0030 0.31 -0.8
34,006 - PP_0030 0.31 -0.7
34,006 - PP_0030 0.31 +0.8
34,006 - PP_0030 0.31 -2.1
34,006 - PP_0030 0.31 +1.6
34,006 - PP_0030 0.31 +1.3
34,006 - PP_0030 0.31 +0.5
34,006 - PP_0030 0.31 -0.0
34,007 + PP_0030 0.31 +2.7
34,007 + PP_0030 0.31 -0.3
34,007 + PP_0030 0.31 -1.7
34,007 + PP_0030 0.31 +0.5
34,007 + PP_0030 0.31 +0.7
34,007 + PP_0030 0.31 -0.4
34,007 + PP_0030 0.31 -0.6
34,008 - PP_0030 0.31 -1.1
34,008 - PP_0030 0.31 +2.1
34,008 - PP_0030 0.31 -0.7
34,008 - PP_0030 0.31 -0.7
34,008 - PP_0030 0.31 +0.2
34,008 - PP_0030 0.31 -0.9
34,008 - PP_0030 0.31 -0.1
34,135 + PP_0030 0.40 -0.6
34,135 + PP_0030 0.40 -0.8
34,136 - PP_0030 0.40 +0.9
34,136 - PP_0030 0.40 -0.2
34,695 + PP_0030 0.80 -0.1
34,696 - PP_0030 0.80 -0.3
34,696 - PP_0030 0.80 -1.3
34,696 - PP_0030 0.80 -1.0
34,712 + PP_0030 0.81 +0.5
34,712 + PP_0030 0.81 -1.6
34,712 + PP_0030 0.81 -1.4
34,712 + PP_0030 0.81 -1.3
34,712 + PP_0030 0.81 +0.4
34,712 + PP_0030 0.81 +1.7
34,713 - PP_0030 0.81 -0.7
34,713 - PP_0030 0.81 -0.5
34,713 - PP_0030 0.81 -1.1
34,713 - PP_0030 0.81 -0.4
34,713 - PP_0030 0.81 +2.7
34,725 - PP_0030 0.82 -0.3
34,757 + PP_0030 0.84 +0.5
34,758 - PP_0030 0.84 -0.0
34,797 + PP_0030 0.87 -1.1
34,797 + PP_0030 0.87 -0.8
34,798 - PP_0030 0.87 -1.2
34,980 + +0.6
34,999 + +3.7
34,999 + +0.2
34,999 + -0.1
35,090 + -0.7
35,091 - -1.4
35,091 - -0.2
35,094 - -0.6
35,140 + PP_0031 0.17 -1.4
35,140 + PP_0031 0.17 -1.2
35,141 - PP_0031 0.17 +0.5
35,141 - PP_0031 0.17 +2.4
35,141 - PP_0031 0.17 -0.1
35,169 + PP_0031 0.22 +0.7
35,169 + PP_0031 0.22 +0.0
35,169 + PP_0031 0.22 +0.2
35,170 - PP_0031 0.22 +0.7
35,170 - PP_0031 0.22 -0.1
35,170 - PP_0031 0.22 -0.0
35,257 + PP_0031 0.37 +0.2
35,257 + PP_0031 0.37 -1.2
35,258 - PP_0031 0.37 -0.2
35,258 - +0.4
35,258 - PP_0031 0.37 -0.6
35,297 + PP_0031 0.44 -0.8
35,298 - PP_0031 0.44 +0.9
35,327 + PP_0031 0.49 +0.4
35,327 + PP_0031 0.49 +0.2
35,328 - PP_0031 0.49 -0.9
35,384 - PP_0031 0.59 +0.0
35,616 + +0.9
35,617 - +0.2
35,617 - -0.6
35,797 + -0.3
35,860 - -0.8
35,877 - +0.2
35,877 - -1.0

Or see this region's nucleotide sequence