Strain Fitness in Pseudomonas putida KT2440 around PP_0306

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.

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntPP_0305 and PP_5442 are separated by 3 nucleotidesPP_5442 and PP_0306 are separated by 73 nucleotidesPP_0306 and PP_0307 are separated by 102 nucleotidesPP_0307 and PP_0308 are separated by 270 nucleotides PP_0305: PP_0305 - HTH-type transcriptional regulator CdhR, at 365,734 to 366,693 _0305 PP_5442: PP_5442 - protein of unknown function, at 366,697 to 367,314 _5442 PP_0306: PP_0306 - conserved protein of unknown function, at 367,388 to 368,116 _0306 PP_0307: PP_0307 - conserved exported protein of unknown function, at 368,219 to 368,650 _0307 PP_0308: PP_0308 - putative dipeptidase, at 368,921 to 369,898 _0308 Position (kb) 367 368 369Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 366.521 kb on - strand, within PP_0305at 366.619 kb on + strandat 366.619 kb on + strandat 366.619 kb on + strandat 366.620 kb on - strandat 366.620 kb on - strandat 366.685 kb on - strandat 366.728 kb on - strandat 366.857 kb on + strand, within PP_5442at 366.857 kb on + strand, within PP_5442at 366.864 kb on - strand, within PP_5442at 366.949 kb on - strand, within PP_5442at 366.954 kb on + strand, within PP_5442at 366.955 kb on - strand, within PP_5442at 367.044 kb on - strand, within PP_5442at 367.044 kb on - strand, within PP_5442at 367.044 kb on - strand, within PP_5442at 367.076 kb on + strand, within PP_5442at 367.076 kb on + strand, within PP_5442at 367.076 kb on + strand, within PP_5442at 367.076 kb on + strand, within PP_5442at 367.077 kb on - strand, within PP_5442at 367.077 kb on - strand, within PP_5442at 367.089 kb on + strand, within PP_5442at 367.089 kb on + strand, within PP_5442at 367.090 kb on - strand, within PP_5442at 367.095 kb on + strand, within PP_5442at 367.095 kb on + strand, within PP_5442at 367.095 kb on + strand, within PP_5442at 367.095 kb on + strand, within PP_5442at 367.095 kb on + strand, within PP_5442at 367.096 kb on - strand, within PP_5442at 367.138 kb on - strand, within PP_5442at 367.193 kb on - strand, within PP_5442at 367.193 kb on - strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.216 kb on + strand, within PP_5442at 367.217 kb on - strand, within PP_5442at 367.217 kb on - strand, within PP_5442at 367.236 kb on + strand, within PP_5442at 367.236 kb on + strand, within PP_5442at 367.236 kb on + strand, within PP_5442at 367.237 kb on - strand, within PP_5442at 367.305 kb on + strandat 367.306 kb on - strandat 367.393 kb on + strandat 367.560 kb on + strand, within PP_0306at 367.884 kb on + strand, within PP_0306at 367.885 kb on - strand, within PP_0306at 368.025 kb on - strand, within PP_0306at 368.096 kb on + strandat 368.096 kb on + strandat 368.097 kb on - strandat 368.146 kb on - strandat 368.157 kb on - strandat 368.325 kb on + strand, within PP_0307at 368.326 kb on - strand, within PP_0307at 368.412 kb on - strand, within PP_0307at 368.412 kb on - strand, within PP_0307at 368.698 kb on + strandat 368.698 kb on + strandat 368.698 kb on + strandat 368.699 kb on - strandat 368.699 kb on - strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.855 kb on + strandat 368.856 kb on - strandat 368.856 kb on - strandat 368.902 kb on + strandat 368.902 kb on + strandat 368.903 kb on - strandat 368.904 kb on + strandat 368.905 kb on - strandat 368.937 kb on + strandat 368.938 kb on - strandat 368.938 kb on - strand

download strain data

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.
remove
366,521 - PP_0305 0.82 +0.4
366,619 + +0.5
366,619 + +0.1
366,619 + +0.6
366,620 - +0.8
366,620 - +0.1
366,685 - +0.7
366,728 - -0.0
366,857 + PP_5442 0.26 -1.0
366,857 + PP_5442 0.26 -0.4
366,864 - PP_5442 0.27 -0.7
366,949 - PP_5442 0.41 -1.7
366,954 + PP_5442 0.42 -1.2
366,955 - PP_5442 0.42 +1.4
367,044 - PP_5442 0.56 +1.2
367,044 - PP_5442 0.56 -0.1
367,044 - PP_5442 0.56 +0.4
367,076 + PP_5442 0.61 -0.4
367,076 + PP_5442 0.61 -0.2
367,076 + PP_5442 0.61 -1.1
367,076 + PP_5442 0.61 +0.8
367,077 - PP_5442 0.61 -1.2
367,077 - PP_5442 0.61 -1.7
367,089 + PP_5442 0.63 -0.9
367,089 + PP_5442 0.63 +0.9
367,090 - PP_5442 0.64 +1.0
367,095 + PP_5442 0.64 +1.2
367,095 + PP_5442 0.64 -0.2
367,095 + PP_5442 0.64 -3.2
367,095 + PP_5442 0.64 -0.5
367,095 + PP_5442 0.64 +0.6
367,096 - PP_5442 0.65 -0.9
367,138 - PP_5442 0.71 -0.9
367,193 - PP_5442 0.80 -0.7
367,193 - PP_5442 0.80 +3.4
367,216 + PP_5442 0.84 -1.0
367,216 + PP_5442 0.84 -0.3
367,216 + PP_5442 0.84 -2.1
367,216 + PP_5442 0.84 -0.2
367,216 + PP_5442 0.84 -0.5
367,216 + PP_5442 0.84 +0.6
367,217 - PP_5442 0.84 -0.3
367,217 - PP_5442 0.84 +1.4
367,236 + PP_5442 0.87 -0.5
367,236 + PP_5442 0.87 -2.5
367,236 + PP_5442 0.87 +0.5
367,237 - PP_5442 0.87 -0.9
367,305 + +0.4
367,306 - -0.1
367,393 + -1.3
367,560 + PP_0306 0.24 -0.3
367,884 + PP_0306 0.68 -1.3
367,885 - PP_0306 0.68 -0.5
368,025 - PP_0306 0.87 +0.8
368,096 + +0.2
368,096 + -0.9
368,097 - +1.2
368,146 - +0.3
368,157 - +0.5
368,325 + PP_0307 0.25 +0.5
368,326 - PP_0307 0.25 +0.4
368,412 - PP_0307 0.45 -0.8
368,412 - PP_0307 0.45 -0.7
368,698 + +0.4
368,698 + +1.1
368,698 + -0.3
368,699 - +1.0
368,699 - +0.4
368,855 + +1.4
368,855 + -0.2
368,855 + -0.5
368,855 + -0.4
368,855 + -1.1
368,855 + +1.1
368,855 + -0.1
368,856 - +0.4
368,856 - -0.3
368,902 + -0.8
368,902 + -0.8
368,903 - +0.8
368,904 + -0.4
368,905 - -0.5
368,937 + +1.0
368,938 - -0.0
368,938 - -0.9

Or see this region's nucleotide sequence