Strain Fitness in Pseudomonas putida KT2440 around PP_0417

Experiment: 40hr timepoint of 1L M9/1% dextrose CONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat, feed rate 2.15g/hr dextrose, set to 30% 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_0415 and PP_0416 overlap by 4 nucleotidesPP_0416 and PP_0417 are separated by 69 nucleotidesPP_0417 and PP_0418 are separated by 132 nucleotides PP_0415: PP_0415 - ribulose-5-phosphate 3-epimerase, at 503,948 to 504,622 _0415 PP_0416: PP_0416 - Phosphoglycolate phosphatase, at 504,619 to 505,437 _0416 PP_0417: PP_0417 - Anthranilate synthase component 1, at 505,507 to 506,988 _0417 PP_0418: PP_0418 - Esterase EstP, at 507,121 to 509,010 _0418 Position (kb) 505 506 507Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 504.896 kb on - strand, within PP_0416at 504.896 kb on - strand, within PP_0416at 504.896 kb on - strand, within PP_0416at 504.916 kb on - strand, within PP_0416at 505.222 kb on + strand, within PP_0416at 505.223 kb on - strand, within PP_0416at 505.223 kb on - strand, within PP_0416at 505.223 kb on - strand, within PP_0416at 505.229 kb on - strand, within PP_0416at 505.230 kb on + strand, within PP_0416at 505.231 kb on - strand, within PP_0416at 505.481 kb on + strandat 505.481 kb on + strandat 505.481 kb on + strandat 505.481 kb on + strandat 505.482 kb on - strandat 505.482 kb on - strandat 505.482 kb on - strandat 505.482 kb on - strandat 505.555 kb on - strandat 505.607 kb on - strandat 505.636 kb on + strandat 505.637 kb on - strandat 505.678 kb on + strand, within PP_0417at 505.726 kb on + strand, within PP_0417at 505.894 kb on + strand, within PP_0417at 506.168 kb on - strand, within PP_0417at 506.202 kb on + strand, within PP_0417at 506.212 kb on + strand, within PP_0417at 506.212 kb on + strand, within PP_0417at 506.212 kb on + strand, within PP_0417at 506.212 kb on + strand, within PP_0417at 506.212 kb on + strand, within PP_0417at 506.213 kb on - strand, within PP_0417at 506.232 kb on + strand, within PP_0417at 506.232 kb on + strand, within PP_0417at 506.232 kb on + strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.233 kb on - strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.326 kb on + strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.327 kb on - strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.328 kb on + strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.329 kb on - strand, within PP_0417at 506.332 kb on + strand, within PP_0417at 506.332 kb on + strand, within PP_0417at 506.332 kb on + strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.333 kb on - strand, within PP_0417at 506.387 kb on + strand, within PP_0417at 506.387 kb on + strand, within PP_0417at 506.387 kb on + strand, within PP_0417at 506.387 kb on + strand, within PP_0417at 506.388 kb on - strand, within PP_0417at 506.388 kb on - strand, within PP_0417at 506.388 kb on - strand, within PP_0417at 506.388 kb on - strand, within PP_0417at 506.606 kb on - strand, within PP_0417at 506.638 kb on - strand, within PP_0417at 506.774 kb on - strand, within PP_0417at 506.836 kb on - strand, within PP_0417at 506.986 kb on + strandat 506.987 kb on - strandat 507.035 kb on + strandat 507.035 kb on + strandat 507.036 kb on - strandat 507.060 kb on + strandat 507.060 kb on + strandat 507.060 kb on + strandat 507.061 kb on - strandat 507.061 kb on - strandat 507.147 kb on + strandat 507.147 kb on + strandat 507.147 kb on + strandat 507.148 kb on - strandat 507.148 kb on - strandat 507.151 kb on - strandat 507.151 kb on - strandat 507.188 kb on + strandat 507.189 kb on - strandat 507.189 kb on - strandat 507.267 kb on + strandat 507.267 kb on + strandat 507.268 kb on - strandat 507.268 kb on - strandat 507.268 kb on - strandat 507.268 kb on - strandat 507.485 kb on + strand, within PP_0418at 507.510 kb on - strand, within PP_0418at 507.510 kb on - strand, within PP_0418at 507.567 kb on - strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.741 kb on + strand, within PP_0418at 507.742 kb on - strand, within PP_0418at 507.742 kb on - strand, within PP_0418at 507.742 kb on - strand, within PP_0418at 507.742 kb on - strand, within PP_0418at 507.742 kb on - strand, within PP_0418at 507.743 kb on + strand, within PP_0418at 507.743 kb on + strand, within PP_0418at 507.743 kb on + strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.744 kb on - strand, within PP_0418at 507.758 kb on + strand, within PP_0418at 507.759 kb on - strand, within PP_0418at 507.842 kb on + strand, within PP_0418at 507.843 kb on - strand, within PP_0418at 507.984 kb on + strand, within PP_0418at 507.985 kb on - strand, within PP_0418at 507.985 kb on - strand, within PP_0418

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Per-strain Table

Position Strand Gene LocusTag Fraction 40hr timepoint of 1L M9/1% dextrose CONTINUOUS FED BATCH fermentation in 2L Sartorius Biostat, feed rate 2.15g/hr dextrose, set to 30% DO.
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504,896 - PP_0416 0.34 -0.6
504,896 - PP_0416 0.34 -0.4
504,896 - PP_0416 0.34 +1.6
504,916 - PP_0416 0.36 +0.8
505,222 + PP_0416 0.74 -0.5
505,223 - PP_0416 0.74 +0.8
505,223 - PP_0416 0.74 +0.4
505,223 - PP_0416 0.74 -0.6
505,229 - PP_0416 0.74 -0.0
505,230 + PP_0416 0.75 -2.0
505,231 - PP_0416 0.75 -1.0
505,481 + +1.3
505,481 + +1.4
505,481 + -1.0
505,481 + +0.4
505,482 - -3.0
505,482 - -2.4
505,482 - -2.9
505,482 - -2.4
505,555 - +2.4
505,607 - -2.3
505,636 + -2.7
505,637 - -3.9
505,678 + PP_0417 0.12 -2.6
505,726 + PP_0417 0.15 -1.2
505,894 + PP_0417 0.26 -2.1
506,168 - PP_0417 0.45 -1.3
506,202 + PP_0417 0.47 -4.7
506,212 + PP_0417 0.48 -3.2
506,212 + PP_0417 0.48 -2.5
506,212 + PP_0417 0.48 -0.4
506,212 + PP_0417 0.48 -2.2
506,212 + PP_0417 0.48 -2.8
506,213 - PP_0417 0.48 -3.1
506,232 + PP_0417 0.49 -2.1
506,232 + PP_0417 0.49 -1.2
506,232 + PP_0417 0.49 -3.3
506,233 - PP_0417 0.49 -2.3
506,233 - PP_0417 0.49 -0.6
506,233 - PP_0417 0.49 -2.9
506,233 - PP_0417 0.49 -2.3
506,233 - PP_0417 0.49 +2.4
506,233 - PP_0417 0.49 -0.6
506,233 - PP_0417 0.49 -0.7
506,233 - PP_0417 0.49 -2.0
506,326 + PP_0417 0.55 -0.6
506,326 + PP_0417 0.55 -2.8
506,326 + PP_0417 0.55 -3.6
506,326 + PP_0417 0.55 -1.3
506,326 + PP_0417 0.55 -3.1
506,326 + PP_0417 0.55 -1.2
506,326 + PP_0417 0.55 -2.5
506,326 + PP_0417 0.55 +0.4
506,327 - PP_0417 0.55 -0.2
506,327 - PP_0417 0.55 -1.9
506,327 - PP_0417 0.55 -0.4
506,327 - PP_0417 0.55 -2.5
506,327 - PP_0417 0.55 -1.7
506,327 - PP_0417 0.55 +0.1
506,327 - PP_0417 0.55 -3.5
506,327 - PP_0417 0.55 -1.9
506,327 - PP_0417 0.55 -1.4
506,327 - PP_0417 0.55 +0.4
506,327 - PP_0417 0.55 -1.8
506,327 - PP_0417 0.55 -1.5
506,327 - PP_0417 0.55 -1.2
506,327 - PP_0417 0.55 -2.0
506,327 - PP_0417 0.55 -2.2
506,327 - PP_0417 0.55 -0.9
506,327 - PP_0417 0.55 -1.6
506,327 - PP_0417 0.55 -4.1
506,328 + PP_0417 0.55 -3.1
506,328 + PP_0417 0.55 -2.2
506,328 + PP_0417 0.55 -0.8
506,328 + PP_0417 0.55 -0.8
506,328 + PP_0417 0.55 -2.2
506,328 + PP_0417 0.55 -3.5
506,328 + PP_0417 0.55 -2.4
506,329 - PP_0417 0.55 -3.7
506,329 - PP_0417 0.55 -2.6
506,329 - PP_0417 0.55 -1.9
506,329 - PP_0417 0.55 -2.3
506,329 - PP_0417 0.55 -2.7
506,329 - PP_0417 0.55 -1.5
506,329 - PP_0417 0.55 +2.4
506,329 - PP_0417 0.55 +0.8
506,329 - PP_0417 0.55 -2.0
506,329 - PP_0417 0.55 -1.9
506,329 - PP_0417 0.55 -1.5
506,329 - PP_0417 0.55 -3.2
506,329 - PP_0417 0.55 -2.0
506,329 - PP_0417 0.55 -1.4
506,329 - PP_0417 0.55 -2.9
506,329 - PP_0417 0.55 -3.0
506,329 - PP_0417 0.55 -2.4
506,329 - PP_0417 0.55 -2.4
506,332 + PP_0417 0.56 -3.0
506,332 + PP_0417 0.56 -3.6
506,332 + PP_0417 0.56 -3.1
506,333 - PP_0417 0.56 +0.1
506,333 - PP_0417 0.56 -0.4
506,333 - PP_0417 0.56 -1.8
506,333 - PP_0417 0.56 -2.8
506,333 - PP_0417 0.56 -1.9
506,333 - PP_0417 0.56 -0.4
506,387 + PP_0417 0.59 -1.0
506,387 + PP_0417 0.59 -3.3
506,387 + PP_0417 0.59 -1.2
506,387 + PP_0417 0.59 +1.4
506,388 - PP_0417 0.59 -1.0
506,388 - PP_0417 0.59 -1.8
506,388 - PP_0417 0.59 -2.8
506,388 - PP_0417 0.59 -2.4
506,606 - PP_0417 0.74 -3.5
506,638 - PP_0417 0.76 +0.1
506,774 - PP_0417 0.85 -4.6
506,836 - PP_0417 0.90 -2.8
506,986 + +1.4
506,987 - -3.3
507,035 + +0.8
507,035 + -1.5
507,036 - -1.7
507,060 + +0.5
507,060 + -0.8
507,060 + +0.8
507,061 - +1.0
507,061 - -0.9
507,147 + +0.4
507,147 + +0.1
507,147 + -1.0
507,148 - +0.1
507,148 - +2.4
507,151 - -1.1
507,151 - -0.6
507,188 + -0.5
507,189 - -0.3
507,189 - +0.3
507,267 + -2.2
507,267 + -0.6
507,268 - +0.2
507,268 - -0.8
507,268 - -0.5
507,268 - -0.2
507,485 + PP_0418 0.19 -0.1
507,510 - PP_0418 0.21 +0.4
507,510 - PP_0418 0.21 +0.3
507,567 - PP_0418 0.24 +1.2
507,741 + PP_0418 0.33 +1.5
507,741 + PP_0418 0.33 -0.3
507,741 + PP_0418 0.33 -0.4
507,741 + PP_0418 0.33 -0.5
507,741 + PP_0418 0.33 -1.7
507,741 + PP_0418 0.33 -0.2
507,741 + PP_0418 0.33 +0.2
507,741 + PP_0418 0.33 +0.0
507,741 + PP_0418 0.33 +0.9
507,742 - PP_0418 0.33 +0.0
507,742 - PP_0418 0.33 -0.5
507,742 - PP_0418 0.33 +0.3
507,742 - PP_0418 0.33 +2.4
507,742 - PP_0418 0.33 +1.1
507,743 + PP_0418 0.33 -0.8
507,743 + PP_0418 0.33 -0.2
507,743 + PP_0418 0.33 -0.6
507,744 - PP_0418 0.33 -0.6
507,744 - PP_0418 0.33 +0.0
507,744 - PP_0418 0.33 +0.3
507,744 - PP_0418 0.33 -0.3
507,744 - PP_0418 0.33 +2.6
507,744 - PP_0418 0.33 -0.7
507,744 - PP_0418 0.33 +0.2
507,744 - PP_0418 0.33 +1.4
507,758 + PP_0418 0.34 -0.9
507,759 - PP_0418 0.34 +1.7
507,842 + PP_0418 0.38 +0.1
507,843 - PP_0418 0.38 -1.1
507,984 + PP_0418 0.46 -0.0
507,985 - PP_0418 0.46 +1.5
507,985 - PP_0418 0.46 -0.1

Or see this region's nucleotide sequence