Strain Fitness in Pseudomonas putida KT2440 around PP_0083

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_0081 and PP_0082 are separated by 120 nucleotidesPP_0082 and PP_0083 overlap by 4 nucleotidesPP_0083 and PP_0084 are separated by 110 nucleotides PP_0081: PP_0081 - conserved protein of unknown function, at 91,078 to 91,449 _0081 PP_0082: PP_0082 - tryptophan synthase alpha chain, at 91,570 to 92,379 _0082 PP_0083: PP_0083 - tryptophan synthase beta chain, at 92,376 to 93,593 _0083 PP_0084: PP_0084 - HTH-type transcriptional regulator TrpI, at 93,704 to 94,600 _0084 Position (kb) 92 93 94Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 91.447 kb on + strandat 91.447 kb on + strandat 91.448 kb on - strandat 91.494 kb on + strandat 91.535 kb on - strandat 91.547 kb on - strandat 91.621 kb on + strandat 91.622 kb on - strandat 91.853 kb on + strand, within PP_0082at 91.853 kb on + strand, within PP_0082at 91.853 kb on + strand, within PP_0082at 91.854 kb on - strand, within PP_0082at 91.856 kb on + strand, within PP_0082at 92.072 kb on + strand, within PP_0082at 92.072 kb on + strand, within PP_0082at 92.072 kb on + strand, within PP_0082at 92.072 kb on + strand, within PP_0082at 92.072 kb on + strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.073 kb on - strand, within PP_0082at 92.075 kb on + strand, within PP_0082at 92.423 kb on + strandat 92.424 kb on - strandat 92.424 kb on - strandat 92.599 kb on + strand, within PP_0083at 92.599 kb on + strand, within PP_0083at 92.626 kb on + strand, within PP_0083at 92.627 kb on - strand, within PP_0083at 92.716 kb on + strand, within PP_0083at 92.717 kb on - strand, within PP_0083at 92.717 kb on - strand, within PP_0083at 92.717 kb on - strand, within PP_0083at 92.717 kb on - strand, within PP_0083at 92.745 kb on + strand, within PP_0083at 92.785 kb on - strand, within PP_0083at 92.785 kb on - strand, within PP_0083at 93.013 kb on + strand, within PP_0083at 93.014 kb on - strand, within PP_0083at 93.014 kb on - strand, within PP_0083at 93.172 kb on + strand, within PP_0083at 93.172 kb on + strand, within PP_0083at 93.173 kb on - strand, within PP_0083at 93.173 kb on - strand, within PP_0083at 93.173 kb on - strand, within PP_0083at 93.394 kb on + strand, within PP_0083at 93.394 kb on + strandat 93.434 kb on - strand, within PP_0083at 93.526 kb on + strandat 93.526 kb on + strandat 93.577 kb on + strandat 93.610 kb on + strandat 93.611 kb on - strandat 93.631 kb on + strandat 93.631 kb on + strandat 93.631 kb on + strandat 93.631 kb on + strandat 93.632 kb on - strandat 93.636 kb on + strandat 94.031 kb on - strand, within PP_0084at 94.142 kb on + strand, within PP_0084at 94.142 kb on + strand, within PP_0084at 94.143 kb on - strand, within PP_0084at 94.143 kb on - strand, within PP_0084at 94.358 kb on + strand, within PP_0084at 94.358 kb on + strand, within PP_0084at 94.358 kb on + strand, within PP_0084at 94.382 kb on + strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.383 kb on - strand, within PP_0084at 94.385 kb on + strand, within PP_0084at 94.386 kb on - strand, within PP_0084at 94.386 kb on - strand, within PP_0084at 94.386 kb on - strand, within PP_0084at 94.386 kb on - strand, within PP_0084at 94.495 kb on + strand, within PP_0084at 94.496 kb on - strand, within PP_0084

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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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91,447 + -0.0
91,447 + +0.2
91,448 - -1.2
91,494 + -0.4
91,535 - -0.2
91,547 - -0.4
91,621 + -1.9
91,622 - -0.6
91,853 + PP_0082 0.35 +0.8
91,853 + PP_0082 0.35 +1.4
91,853 + PP_0082 0.35 -0.2
91,854 - PP_0082 0.35 -0.2
91,856 + PP_0082 0.35 -1.6
92,072 + PP_0082 0.62 -1.3
92,072 + PP_0082 0.62 -0.8
92,072 + PP_0082 0.62 -1.4
92,072 + PP_0082 0.62 -0.9
92,072 + PP_0082 0.62 -0.8
92,073 - PP_0082 0.62 -1.2
92,073 - PP_0082 0.62 -1.8
92,073 - PP_0082 0.62 +0.1
92,073 - PP_0082 0.62 -0.9
92,073 - PP_0082 0.62 +1.4
92,073 - PP_0082 0.62 -0.4
92,073 - PP_0082 0.62 +0.8
92,073 - PP_0082 0.62 +0.1
92,075 + PP_0082 0.62 +0.8
92,423 + +2.4
92,424 - -1.7
92,424 - +0.6
92,599 + PP_0083 0.18 +2.4
92,599 + PP_0083 0.18 +0.1
92,626 + PP_0083 0.21 +1.4
92,627 - PP_0083 0.21 -0.9
92,716 + PP_0083 0.28 +2.4
92,717 - PP_0083 0.28 +0.1
92,717 - PP_0083 0.28 -0.8
92,717 - PP_0083 0.28 -0.2
92,717 - PP_0083 0.28 -2.4
92,745 + PP_0083 0.30 +1.4
92,785 - PP_0083 0.34 -2.0
92,785 - PP_0083 0.34 +0.1
93,013 + PP_0083 0.52 -2.0
93,014 - PP_0083 0.52 -2.1
93,014 - PP_0083 0.52 +0.8
93,172 + PP_0083 0.65 +0.8
93,172 + PP_0083 0.65 -1.3
93,173 - PP_0083 0.65 -0.9
93,173 - PP_0083 0.65 +2.4
93,173 - PP_0083 0.65 -1.6
93,394 + PP_0083 0.84 -0.4
93,394 + +2.4
93,434 - PP_0083 0.87 -1.2
93,526 + +0.4
93,526 + -0.4
93,577 + -0.2
93,610 + +0.8
93,611 - +0.7
93,631 + -2.3
93,631 + -0.9
93,631 + -0.6
93,631 + +2.4
93,632 - +0.4
93,636 + -2.8
94,031 - PP_0084 0.36 +0.8
94,142 + PP_0084 0.49 -0.4
94,142 + PP_0084 0.49 -0.4
94,143 - PP_0084 0.49 -0.3
94,143 - PP_0084 0.49 +0.6
94,358 + PP_0084 0.73 -0.0
94,358 + PP_0084 0.73 -0.5
94,358 + PP_0084 0.73 +0.3
94,382 + PP_0084 0.76 +0.6
94,383 - PP_0084 0.76 +0.4
94,383 - PP_0084 0.76 +0.1
94,383 - PP_0084 0.76 -0.5
94,383 - PP_0084 0.76 -0.3
94,383 - PP_0084 0.76 +1.0
94,383 - PP_0084 0.76 -1.7
94,385 + PP_0084 0.76 -0.4
94,386 - PP_0084 0.76 -0.7
94,386 - PP_0084 0.76 +0.1
94,386 - PP_0084 0.76 -0.0
94,386 - PP_0084 0.76 -2.3
94,495 + PP_0084 0.88 -1.3
94,496 - PP_0084 0.88 -0.1

Or see this region's nucleotide sequence