Strain Fitness in Pseudomonas putida KT2440 around PP_4542

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 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_4540 and PP_4541 overlap by 7 nucleotidesPP_4541 and PP_4542 are separated by 62 nucleotidesPP_4542 and PP_4543 are separated by 105 nucleotides PP_4540: PP_4540 - Hydrolase, alpha/beta fold family, at 5,156,479 to 5,157,291 _4540 PP_4541: PP_4541 - peptidyl-prolyl cis-trans isomerase A (rotamase A), at 5,157,285 to 5,157,842 _4541 PP_4542: PP_4542 - putative ABC transporter, ATP-binding protein/permease protein, at 5,157,905 to 5,159,737 _4542 PP_4543: PP_4543 - conserved protein of unknown function, at 5,159,843 to 5,161,054 _4543 Position (kb) 5157 5158 5159 5160Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 5157.088 kb on - strand, within PP_4540at 5157.088 kb on - strand, within PP_4540at 5157.116 kb on - strand, within PP_4540at 5157.116 kb on - strand, within PP_4540at 5157.116 kb on - strand, within PP_4540at 5157.126 kb on - strand, within PP_4540at 5157.126 kb on - strand, within PP_4540at 5157.143 kb on - strand, within PP_4540at 5157.155 kb on + strand, within PP_4540at 5157.155 kb on + strand, within PP_4540at 5157.156 kb on - strand, within PP_4540at 5157.156 kb on - strand, within PP_4540at 5157.198 kb on + strand, within PP_4540at 5157.198 kb on + strand, within PP_4540at 5157.199 kb on - strand, within PP_4540at 5157.199 kb on - strand, within PP_4540at 5157.429 kb on - strand, within PP_4541at 5157.447 kb on + strand, within PP_4541at 5157.447 kb on + strand, within PP_4541at 5157.448 kb on - strand, within PP_4541at 5157.465 kb on + strand, within PP_4541at 5157.466 kb on - strand, within PP_4541at 5157.705 kb on + strand, within PP_4541at 5157.706 kb on - strand, within PP_4541at 5157.813 kb on + strandat 5157.813 kb on + strandat 5157.814 kb on - strandat 5157.814 kb on - strandat 5157.814 kb on - strandat 5157.814 kb on - strandat 5157.814 kb on - strandat 5157.815 kb on + strandat 5157.834 kb on - strandat 5157.990 kb on - strandat 5157.990 kb on - strandat 5157.996 kb on - strandat 5157.996 kb on - strandat 5157.998 kb on + strandat 5157.998 kb on + strandat 5157.998 kb on + strandat 5157.999 kb on - strandat 5158.082 kb on + strandat 5158.231 kb on + strand, within PP_4542at 5158.231 kb on + strandat 5158.232 kb on - strand, within PP_4542at 5158.273 kb on + strand, within PP_4542at 5158.274 kb on - strand, within PP_4542at 5158.274 kb on - strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strandat 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.277 kb on + strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.278 kb on - strand, within PP_4542at 5158.328 kb on - strand, within PP_4542at 5158.328 kb on - strand, within PP_4542at 5158.395 kb on + strand, within PP_4542at 5158.413 kb on - strand, within PP_4542at 5158.490 kb on + strand, within PP_4542at 5158.490 kb on + strand, within PP_4542at 5158.490 kb on + strand, within PP_4542at 5158.491 kb on - strand, within PP_4542at 5158.491 kb on - strand, within PP_4542at 5158.491 kb on - strand, within PP_4542at 5158.491 kb on - strand, within PP_4542at 5158.509 kb on - strand, within PP_4542at 5158.509 kb on - strand, within PP_4542at 5158.509 kb on - strand, within PP_4542at 5158.577 kb on - strand, within PP_4542at 5158.589 kb on + strand, within PP_4542at 5158.632 kb on - strand, within PP_4542at 5158.643 kb on + strand, within PP_4542at 5158.644 kb on - strandat 5158.644 kb on - strand, within PP_4542at 5159.015 kb on + strand, within PP_4542at 5159.037 kb on + strand, within PP_4542at 5159.037 kb on + strand, within PP_4542at 5159.037 kb on + strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.038 kb on - strand, within PP_4542at 5159.138 kb on + strand, within PP_4542at 5159.138 kb on + strand, within PP_4542at 5159.138 kb on + strand, within PP_4542at 5159.236 kb on + strand, within PP_4542at 5159.237 kb on - strand, within PP_4542at 5159.276 kb on + strand, within PP_4542at 5159.687 kb on + strandat 5159.687 kb on + strandat 5159.688 kb on - strandat 5159.688 kb on - strandat 5159.774 kb on - strandat 5159.794 kb on + strandat 5159.795 kb on - strandat 5159.795 kb on - strandat 5159.807 kb on - strandat 5159.887 kb on - strandat 5159.958 kb on + strandat 5159.959 kb on - strandat 5159.959 kb on - strandat 5159.959 kb on - strandat 5159.959 kb on - strandat 5159.996 kb on + strand, within PP_4543at 5160.282 kb on + strand, within PP_4543at 5160.282 kb on + strand, within PP_4543at 5160.283 kb on - strand, within PP_4543at 5160.283 kb on - strand, within PP_4543at 5160.294 kb on + strand, within PP_4543at 5160.294 kb on + strand, within PP_4543at 5160.294 kb on + strand, within PP_4543at 5160.294 kb on + strand, within PP_4543at 5160.295 kb on - strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.299 kb on + strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.300 kb on - strand, within PP_4543at 5160.580 kb on - strand, within PP_4543at 5160.580 kb on - strand, within PP_4543at 5160.685 kb on - strand, within PP_4543

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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 30% DO.
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5,157,088 - PP_4540 0.75 -0.1
5,157,088 - PP_4540 0.75 +1.4
5,157,116 - PP_4540 0.78 +0.2
5,157,116 - PP_4540 0.78 -1.4
5,157,116 - PP_4540 0.78 -2.4
5,157,126 - PP_4540 0.80 +0.6
5,157,126 - PP_4540 0.80 -0.8
5,157,143 - PP_4540 0.82 +0.8
5,157,155 + PP_4540 0.83 -1.6
5,157,155 + PP_4540 0.83 +0.1
5,157,156 - PP_4540 0.83 +0.7
5,157,156 - PP_4540 0.83 -0.9
5,157,198 + PP_4540 0.88 +0.2
5,157,198 + PP_4540 0.88 -0.2
5,157,199 - PP_4540 0.89 -0.5
5,157,199 - PP_4540 0.89 +0.8
5,157,429 - PP_4541 0.26 -1.2
5,157,447 + PP_4541 0.29 +0.5
5,157,447 + PP_4541 0.29 +0.0
5,157,448 - PP_4541 0.29 +0.2
5,157,465 + PP_4541 0.32 -0.3
5,157,466 - PP_4541 0.32 -0.3
5,157,705 + PP_4541 0.75 +0.7
5,157,706 - PP_4541 0.75 -1.2
5,157,813 + -0.0
5,157,813 + +0.3
5,157,814 - +0.5
5,157,814 - -0.0
5,157,814 - +1.1
5,157,814 - -0.4
5,157,814 - +0.4
5,157,815 + +0.4
5,157,834 - -0.1
5,157,990 - +0.7
5,157,990 - +0.7
5,157,996 - +0.6
5,157,996 - -1.0
5,157,998 + -0.3
5,157,998 + -0.8
5,157,998 + +0.7
5,157,999 - +0.6
5,158,082 + +1.0
5,158,231 + PP_4542 0.18 +0.1
5,158,231 + +1.4
5,158,232 - PP_4542 0.18 +0.9
5,158,273 + PP_4542 0.20 +0.2
5,158,274 - PP_4542 0.20 +0.3
5,158,274 - PP_4542 0.20 +2.4
5,158,277 + PP_4542 0.20 -0.4
5,158,277 + PP_4542 0.20 +0.8
5,158,277 + PP_4542 0.20 -1.7
5,158,277 + PP_4542 0.20 +0.8
5,158,277 + PP_4542 0.20 +1.0
5,158,277 + PP_4542 0.20 +0.3
5,158,277 + PP_4542 0.20 +0.6
5,158,277 + PP_4542 0.20 +1.6
5,158,277 + PP_4542 0.20 +0.2
5,158,277 + PP_4542 0.20 +1.4
5,158,277 + -0.2
5,158,277 + PP_4542 0.20 +0.2
5,158,277 + PP_4542 0.20 -0.4
5,158,277 + PP_4542 0.20 +2.2
5,158,278 - PP_4542 0.20 -0.2
5,158,278 - PP_4542 0.20 -0.1
5,158,278 - PP_4542 0.20 +0.6
5,158,278 - PP_4542 0.20 +1.1
5,158,278 - PP_4542 0.20 +0.3
5,158,278 - PP_4542 0.20 -0.8
5,158,278 - PP_4542 0.20 +2.4
5,158,278 - PP_4542 0.20 -0.3
5,158,278 - PP_4542 0.20 -0.1
5,158,278 - PP_4542 0.20 -0.5
5,158,328 - PP_4542 0.23 -0.1
5,158,328 - PP_4542 0.23 +0.6
5,158,395 + PP_4542 0.27 +1.0
5,158,413 - PP_4542 0.28 +2.4
5,158,490 + PP_4542 0.32 +0.8
5,158,490 + PP_4542 0.32 -0.9
5,158,490 + PP_4542 0.32 +0.4
5,158,491 - PP_4542 0.32 -0.5
5,158,491 - PP_4542 0.32 +0.0
5,158,491 - PP_4542 0.32 +0.6
5,158,491 - PP_4542 0.32 +0.8
5,158,509 - PP_4542 0.33 -1.3
5,158,509 - PP_4542 0.33 +2.0
5,158,509 - PP_4542 0.33 +0.3
5,158,577 - PP_4542 0.37 -0.6
5,158,589 + PP_4542 0.37 -1.2
5,158,632 - PP_4542 0.40 -0.4
5,158,643 + PP_4542 0.40 +0.2
5,158,644 - +0.4
5,158,644 - PP_4542 0.40 -1.5
5,159,015 + PP_4542 0.61 +0.5
5,159,037 + PP_4542 0.62 +0.7
5,159,037 + PP_4542 0.62 -0.4
5,159,037 + PP_4542 0.62 +1.1
5,159,038 - PP_4542 0.62 +0.0
5,159,038 - PP_4542 0.62 -0.1
5,159,038 - PP_4542 0.62 -0.6
5,159,038 - PP_4542 0.62 +1.4
5,159,038 - PP_4542 0.62 -2.0
5,159,038 - PP_4542 0.62 -1.0
5,159,038 - PP_4542 0.62 +0.8
5,159,038 - PP_4542 0.62 -0.4
5,159,138 + PP_4542 0.67 +0.4
5,159,138 + PP_4542 0.67 +0.2
5,159,138 + PP_4542 0.67 -1.6
5,159,236 + PP_4542 0.73 -0.6
5,159,237 - PP_4542 0.73 +0.9
5,159,276 + PP_4542 0.75 +0.6
5,159,687 + -0.9
5,159,687 + -2.8
5,159,688 - -0.3
5,159,688 - -0.8
5,159,774 - -0.0
5,159,794 + -1.7
5,159,795 - +1.5
5,159,795 - +0.4
5,159,807 - -0.2
5,159,887 - +0.7
5,159,958 + +0.3
5,159,959 - -0.3
5,159,959 - +0.8
5,159,959 - +2.4
5,159,959 - -0.6
5,159,996 + PP_4543 0.13 -0.3
5,160,282 + PP_4543 0.36 +0.0
5,160,282 + PP_4543 0.36 -0.2
5,160,283 - PP_4543 0.36 -1.4
5,160,283 - PP_4543 0.36 +1.3
5,160,294 + PP_4543 0.37 +0.1
5,160,294 + PP_4543 0.37 -2.3
5,160,294 + PP_4543 0.37 -0.2
5,160,294 + PP_4543 0.37 -0.1
5,160,295 - PP_4543 0.37 -2.4
5,160,299 + PP_4543 0.38 -0.3
5,160,299 + PP_4543 0.38 -0.1
5,160,299 + PP_4543 0.38 +0.1
5,160,299 + PP_4543 0.38 +0.5
5,160,299 + PP_4543 0.38 -0.3
5,160,299 + PP_4543 0.38 +0.4
5,160,299 + PP_4543 0.38 -1.6
5,160,299 + PP_4543 0.38 -0.4
5,160,300 - PP_4543 0.38 +0.2
5,160,300 - PP_4543 0.38 -1.0
5,160,300 - PP_4543 0.38 -0.6
5,160,300 - PP_4543 0.38 +0.3
5,160,300 - PP_4543 0.38 -1.3
5,160,300 - PP_4543 0.38 -0.8
5,160,300 - PP_4543 0.38 -1.0
5,160,300 - PP_4543 0.38 -0.7
5,160,300 - PP_4543 0.38 -0.1
5,160,580 - PP_4543 0.61 +0.8
5,160,580 - PP_4543 0.61 +0.8
5,160,685 - PP_4543 0.69 +2.0

Or see this region's nucleotide sequence