Strain Fitness in Pseudomonas putida KT2440 around PP_0305

Experiment: 24hr 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_0304 and PP_0305 are separated by 132 nucleotidesPP_0305 and PP_5442 are separated by 3 nucleotidesPP_5442 and PP_0306 are separated by 73 nucleotides PP_0304: PP_0304 - Carnitine uptake ABC transporter, periplasmic component, at 364,657 to 365,601 _0304 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 Position (kb) 365 366 367Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 364.881 kb on - strand, within PP_0304at 364.881 kb on - strand, within PP_0304at 365.159 kb on + strand, within PP_0304at 365.160 kb on - strand, within PP_0304at 365.160 kb on - strand, within PP_0304at 365.225 kb on + strand, within PP_0304at 365.226 kb on - strand, within PP_0304at 365.231 kb on + strand, within PP_0304at 365.317 kb on - strand, within PP_0304at 365.317 kb on - strand, within PP_0304at 365.447 kb on - strand, within PP_0304at 365.447 kb on - strand, within PP_0304at 365.625 kb on + strandat 365.625 kb on + strandat 365.626 kb on - strandat 365.626 kb on - strandat 365.626 kb on - strandat 365.626 kb on - strandat 365.626 kb on - strandat 365.626 kb on - strandat 365.631 kb on + strandat 365.632 kb on - strandat 365.662 kb on + strandat 365.662 kb on + strandat 365.663 kb on - strandat 365.663 kb on - strandat 365.711 kb on + strandat 365.711 kb on + strandat 365.851 kb on + strand, within PP_0305at 365.851 kb on + strand, within PP_0305at 365.868 kb on + strand, within PP_0305at 365.869 kb on - strand, within PP_0305at 366.151 kb on + strand, within PP_0305at 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_0306

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Per-strain Table

Position Strand Gene LocusTag Fraction 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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364,881 - PP_0304 0.24 +0.1
364,881 - PP_0304 0.24 +0.6
365,159 + PP_0304 0.53 +3.0
365,160 - PP_0304 0.53 -1.0
365,160 - PP_0304 0.53 +0.4
365,225 + PP_0304 0.60 -0.6
365,226 - PP_0304 0.60 +1.3
365,231 + PP_0304 0.61 -2.0
365,317 - PP_0304 0.70 -0.9
365,317 - PP_0304 0.70 +0.2
365,447 - PP_0304 0.84 +0.5
365,447 - PP_0304 0.84 -0.2
365,625 + +0.6
365,625 + +0.7
365,626 - -0.0
365,626 - +0.5
365,626 - -0.8
365,626 - +2.4
365,626 - -0.5
365,626 - -1.3
365,631 + -2.1
365,632 - +0.6
365,662 + +4.0
365,662 + -0.2
365,663 - -0.7
365,663 - +2.0
365,711 + +0.1
365,711 + -0.1
365,851 + PP_0305 0.12 -0.8
365,851 + PP_0305 0.12 -0.3
365,868 + PP_0305 0.14 -0.4
365,869 - PP_0305 0.14 +0.0
366,151 + PP_0305 0.43 -0.4
366,521 - PP_0305 0.82 +1.2
366,619 + -0.6
366,619 + +1.0
366,619 + +0.6
366,620 - -0.2
366,620 - -0.7
366,685 - -0.3
366,728 - -0.2
366,857 + PP_5442 0.26 -1.1
366,857 + PP_5442 0.26 -0.7
366,864 - PP_5442 0.27 +0.4
366,949 - PP_5442 0.41 +0.1
366,954 + PP_5442 0.42 -1.8
366,955 - PP_5442 0.42 +3.4
367,044 - PP_5442 0.56 -1.5
367,044 - PP_5442 0.56 +0.3
367,044 - PP_5442 0.56 -0.9
367,076 + PP_5442 0.61 -0.3
367,076 + PP_5442 0.61 +1.6
367,076 + PP_5442 0.61 -0.0
367,076 + PP_5442 0.61 +1.2
367,077 - PP_5442 0.61 -0.2
367,077 - PP_5442 0.61 +1.4
367,089 + PP_5442 0.63 -0.3
367,089 + PP_5442 0.63 -1.6
367,090 - PP_5442 0.64 +1.4
367,095 + PP_5442 0.64 +0.3
367,095 + PP_5442 0.64 -0.8
367,095 + PP_5442 0.64 +0.0
367,095 + PP_5442 0.64 +0.0
367,095 + PP_5442 0.64 -0.3
367,096 - PP_5442 0.65 -0.4
367,138 - PP_5442 0.71 -0.6
367,193 - PP_5442 0.80 +0.2
367,193 - PP_5442 0.80 +1.0
367,216 + PP_5442 0.84 -0.0
367,216 + PP_5442 0.84 +1.0
367,216 + PP_5442 0.84 +0.9
367,216 + PP_5442 0.84 -0.7
367,216 + PP_5442 0.84 +0.6
367,216 + PP_5442 0.84 -1.6
367,217 - PP_5442 0.84 -0.1
367,217 - PP_5442 0.84 +2.0
367,236 + PP_5442 0.87 -1.0
367,236 + PP_5442 0.87 +0.4
367,236 + PP_5442 0.87 +0.1
367,237 - PP_5442 0.87 +0.2
367,305 + +1.4
367,306 - -0.7
367,393 + +1.1
367,560 + PP_0306 0.24 +0.4

Or see this region's nucleotide sequence