Strain Fitness in Pseudomonas putida KT2440 around PP_0309

Experiment: 72hr 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_0308 and PP_0309 are separated by 75 nucleotidesPP_0309 and PP_0310 are separated by 15 nucleotides PP_0308: PP_0308 - putative dipeptidase, at 368,921 to 369,898 _0308 PP_0309: PP_0309 - conserved protein of unknown function, at 369,974 to 370,504 _0309 PP_0310: PP_0310 - putative dimethylglycine dehydrogenase subunit, at 370,520 to 372,580 _0310 Position (kb) 369 370 371Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 369.230 kb on + strand, within PP_0308at 369.230 kb on + strand, within PP_0308at 369.230 kb on + strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.231 kb on - strand, within PP_0308at 369.278 kb on + strand, within PP_0308at 369.278 kb on + strand, within PP_0308at 369.278 kb on + strand, within PP_0308at 369.279 kb on - strand, within PP_0308at 369.311 kb on + strand, within PP_0308at 369.312 kb on - strand, within PP_0308at 369.312 kb on - strand, within PP_0308at 369.453 kb on - strand, within PP_0308at 369.602 kb on + strand, within PP_0308at 369.603 kb on - strand, within PP_0308at 369.620 kb on + strand, within PP_0308at 369.620 kb on + strand, within PP_0308at 369.620 kb on + strand, within PP_0308at 369.621 kb on - strand, within PP_0308at 369.621 kb on - strand, within PP_0308at 369.702 kb on - strand, within PP_0308at 369.702 kb on - strand, within PP_0308at 369.722 kb on + strand, within PP_0308at 369.896 kb on + strandat 369.897 kb on - strandat 369.917 kb on + strandat 369.917 kb on + strandat 369.918 kb on - strandat 370.055 kb on + strand, within PP_0309at 370.055 kb on + strand, within PP_0309at 370.055 kb on + strand, within PP_0309at 370.055 kb on + strand, within PP_0309at 370.056 kb on - strand, within PP_0309at 370.056 kb on - strand, within PP_0309at 370.056 kb on - strand, within PP_0309at 370.056 kb on - strand, within PP_0309at 370.056 kb on - strand, within PP_0309at 370.087 kb on + strand, within PP_0309at 370.087 kb on + strand, within PP_0309at 370.088 kb on - strand, within PP_0309at 370.121 kb on + strand, within PP_0309at 370.122 kb on - strand, within PP_0309at 370.136 kb on + strand, within PP_0309at 370.136 kb on + strand, within PP_0309at 370.136 kb on + strand, within PP_0309at 370.136 kb on + strand, within PP_0309at 370.148 kb on + strand, within PP_0309at 370.291 kb on + strand, within PP_0309at 370.292 kb on - strand, within PP_0309at 370.328 kb on + strand, within PP_0309at 370.328 kb on + strand, within PP_0309at 370.328 kb on + strand, within PP_0309at 370.329 kb on - strand, within PP_0309at 370.329 kb on - strand, within PP_0309at 370.329 kb on - strand, within PP_0309at 370.329 kb on - strand, within PP_0309at 370.334 kb on + strand, within PP_0309at 370.334 kb on + strand, within PP_0309at 370.334 kb on + strand, within PP_0309at 370.335 kb on - strand, within PP_0309at 370.361 kb on + strand, within PP_0309at 370.361 kb on + strand, within PP_0309at 370.361 kb on + strand, within PP_0309at 370.362 kb on - strand, within PP_0309at 370.362 kb on - strand, within PP_0309at 370.362 kb on - strand, within PP_0309at 370.362 kb on - strand, within PP_0309at 370.448 kb on + strand, within PP_0309at 370.449 kb on - strand, within PP_0309at 370.489 kb on + strandat 370.513 kb on + strandat 370.607 kb on + strandat 370.607 kb on + strandat 370.607 kb on + strandat 370.608 kb on - strandat 370.640 kb on + strandat 370.641 kb on - strandat 370.649 kb on + strandat 370.650 kb on - strandat 370.652 kb on + strandat 370.835 kb on - strand, within PP_0310at 370.973 kb on + strand, within PP_0310at 370.974 kb on - strand, within PP_0310at 370.974 kb on - strand, within PP_0310at 371.188 kb on + strand, within PP_0310at 371.188 kb on + strand, within PP_0310at 371.189 kb on - strand, within PP_0310at 371.189 kb on - strand, within PP_0310at 371.189 kb on - strand, within PP_0310at 371.252 kb on + strand, within PP_0310at 371.252 kb on + strand, within PP_0310at 371.253 kb on - strand, within PP_0310at 371.255 kb on + strand, within PP_0310at 371.256 kb on - strand, within PP_0310at 371.309 kb on - strand, within PP_0310at 371.314 kb on + strand, within PP_0310at 371.314 kb on + strand, within PP_0310at 371.315 kb on - strandat 371.315 kb on - strand, within PP_0310at 371.315 kb on - strand, within PP_0310

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Per-strain Table

Position Strand Gene LocusTag Fraction 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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369,230 + PP_0308 0.32 -0.7
369,230 + PP_0308 0.32 -0.6
369,230 + PP_0308 0.32 +0.8
369,231 - PP_0308 0.32 +1.9
369,231 - PP_0308 0.32 -0.9
369,231 - PP_0308 0.32 -1.9
369,231 - PP_0308 0.32 -0.5
369,231 - PP_0308 0.32 -0.9
369,231 - PP_0308 0.32 -1.3
369,278 + PP_0308 0.37 +1.2
369,278 + PP_0308 0.37 -0.2
369,278 + PP_0308 0.37 -0.3
369,279 - PP_0308 0.37 -1.3
369,311 + PP_0308 0.40 -0.8
369,312 - PP_0308 0.40 -1.5
369,312 - PP_0308 0.40 +1.6
369,453 - PP_0308 0.54 +0.1
369,602 + PP_0308 0.70 -0.7
369,603 - PP_0308 0.70 -0.7
369,620 + PP_0308 0.71 +1.3
369,620 + PP_0308 0.71 -0.1
369,620 + PP_0308 0.71 +0.3
369,621 - PP_0308 0.72 +0.0
369,621 - PP_0308 0.72 -1.9
369,702 - PP_0308 0.80 +0.3
369,702 - PP_0308 0.80 -1.0
369,722 + PP_0308 0.82 -1.6
369,896 + -1.2
369,897 - +0.2
369,917 + -1.8
369,917 + +0.7
369,918 - -0.9
370,055 + PP_0309 0.15 -0.8
370,055 + PP_0309 0.15 +0.3
370,055 + PP_0309 0.15 +3.9
370,055 + PP_0309 0.15 -1.4
370,056 - PP_0309 0.15 -1.5
370,056 - PP_0309 0.15 +0.4
370,056 - PP_0309 0.15 -1.1
370,056 - PP_0309 0.15 -0.0
370,056 - PP_0309 0.15 -0.1
370,087 + PP_0309 0.21 +0.4
370,087 + PP_0309 0.21 +0.2
370,088 - PP_0309 0.21 -2.4
370,121 + PP_0309 0.28 +0.3
370,122 - PP_0309 0.28 -1.1
370,136 + PP_0309 0.31 -0.7
370,136 + PP_0309 0.31 -0.1
370,136 + PP_0309 0.31 -0.2
370,136 + PP_0309 0.31 -1.4
370,148 + PP_0309 0.33 -0.4
370,291 + PP_0309 0.60 +0.5
370,292 - PP_0309 0.60 -0.8
370,328 + PP_0309 0.67 -0.0
370,328 + PP_0309 0.67 -0.7
370,328 + PP_0309 0.67 -1.4
370,329 - PP_0309 0.67 -0.9
370,329 - PP_0309 0.67 +1.5
370,329 - PP_0309 0.67 -1.2
370,329 - PP_0309 0.67 +1.3
370,334 + PP_0309 0.68 +0.7
370,334 + PP_0309 0.68 +0.1
370,334 + PP_0309 0.68 -0.9
370,335 - PP_0309 0.68 -1.3
370,361 + PP_0309 0.73 -0.5
370,361 + PP_0309 0.73 -1.3
370,361 + PP_0309 0.73 -0.7
370,362 - PP_0309 0.73 -0.5
370,362 - PP_0309 0.73 +0.4
370,362 - PP_0309 0.73 -0.7
370,362 - PP_0309 0.73 +0.6
370,448 + PP_0309 0.89 +0.6
370,449 - PP_0309 0.89 +0.7
370,489 + +0.1
370,513 + +0.7
370,607 + +3.9
370,607 + +1.9
370,607 + -0.8
370,608 - -0.2
370,640 + +0.0
370,641 - +0.6
370,649 + +1.3
370,650 - -1.4
370,652 + +0.4
370,835 - PP_0310 0.15 +0.1
370,973 + PP_0310 0.22 -0.0
370,974 - PP_0310 0.22 +3.9
370,974 - PP_0310 0.22 +1.1
371,188 + PP_0310 0.32 -0.3
371,188 + PP_0310 0.32 -0.5
371,189 - PP_0310 0.32 +0.2
371,189 - PP_0310 0.32 -0.8
371,189 - PP_0310 0.32 -0.4
371,252 + PP_0310 0.36 +3.5
371,252 + PP_0310 0.36 +1.4
371,253 - PP_0310 0.36 +2.3
371,255 + PP_0310 0.36 +0.2
371,256 - PP_0310 0.36 -0.6
371,309 - PP_0310 0.38 +0.1
371,314 + PP_0310 0.39 -0.1
371,314 + PP_0310 0.39 +2.3
371,315 - +3.9
371,315 - PP_0310 0.39 -0.1
371,315 - PP_0310 0.39 -0.9

Or see this region's nucleotide sequence