Strain Fitness in Pseudomonas putida KT2440 around PP_0040

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_0039 and PP_0040 are separated by 127 nucleotidesPP_0040 and PP_0041 are separated by 92 nucleotides PP_0039: PP_0039 - hypothetical protein, at 42,057 to 43,082 _0039 PP_0040: PP_0040 - hypothetical protein, at 43,210 to 43,434 _0040 PP_0041: PP_0041 - cadmium translocating P-type ATPase, at 43,527 to 45,524 _0041 Position (kb) 43 44Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 42.246 kb on + strand, within PP_0039at 42.246 kb on + strand, within PP_0039at 42.246 kb on + strand, within PP_0039at 42.246 kb on + strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.247 kb on - strand, within PP_0039at 42.255 kb on + strand, within PP_0039at 42.256 kb on - strand, within PP_0039at 42.286 kb on + strand, within PP_0039at 42.287 kb on - strand, within PP_0039at 42.287 kb on - strand, within PP_0039at 42.340 kb on + strand, within PP_0039at 42.341 kb on - strand, within PP_0039at 42.457 kb on + strand, within PP_0039at 42.457 kb on + strand, within PP_0039at 42.458 kb on - strand, within PP_0039at 42.458 kb on - strand, within PP_0039at 42.507 kb on - strand, within PP_0039at 42.615 kb on + strand, within PP_0039at 42.615 kb on + strand, within PP_0039at 42.615 kb on + strand, within PP_0039at 42.616 kb on - strand, within PP_0039at 42.625 kb on + strand, within PP_0039at 42.757 kb on - strand, within PP_0039at 42.795 kb on + strand, within PP_0039at 42.795 kb on + strand, within PP_0039at 42.795 kb on + strand, within PP_0039at 42.932 kb on + strand, within PP_0039at 42.933 kb on - strand, within PP_0039at 42.951 kb on + strand, within PP_0039at 42.951 kb on + strand, within PP_0039at 42.952 kb on - strand, within PP_0039at 42.952 kb on - strand, within PP_0039at 42.952 kb on - strand, within PP_0039at 42.952 kb on - strand, within PP_0039at 42.999 kb on + strandat 43.009 kb on + strandat 43.009 kb on + strandat 43.009 kb on + strandat 43.009 kb on + strandat 43.009 kb on + strandat 43.010 kb on - strandat 43.076 kb on + strandat 43.076 kb on + strandat 43.076 kb on + strandat 43.077 kb on - strandat 43.077 kb on - strandat 43.126 kb on + strandat 43.127 kb on - strandat 43.127 kb on - strandat 43.205 kb on + strandat 43.205 kb on + strandat 43.206 kb on - strandat 43.206 kb on - strandat 43.206 kb on - strandat 43.206 kb on - strandat 43.206 kb on - strandat 43.206 kb on - strandat 43.209 kb on + strandat 43.209 kb on + strandat 43.210 kb on - strandat 43.210 kb on - strandat 43.273 kb on + strand, within PP_0040at 43.273 kb on + strand, within PP_0040at 43.274 kb on - strand, within PP_0040at 43.274 kb on - strand, within PP_0040at 43.368 kb on - strand, within PP_0040at 43.444 kb on - strandat 43.474 kb on + strandat 43.474 kb on + strandat 43.474 kb on + strandat 43.480 kb on + strandat 43.480 kb on + strandat 43.481 kb on - strandat 43.502 kb on + strandat 43.502 kb on + strandat 43.502 kb on + strandat 43.502 kb on + strandat 43.502 kb on + strandat 43.502 kb on + strandat 43.503 kb on - strandat 43.503 kb on - strandat 43.503 kb on - strandat 43.503 kb on - strandat 43.543 kb on + strandat 43.751 kb on + strand, within PP_0041at 43.751 kb on + strand, within PP_0041at 43.941 kb on + strand, within PP_0041at 43.941 kb on + strand, within PP_0041at 43.941 kb on + strand, within PP_0041at 43.942 kb on - strand, within PP_0041at 43.942 kb on - strand, within PP_0041at 43.942 kb on - strand, within PP_0041at 43.960 kb on - strand, within PP_0041at 43.960 kb on - strand, within PP_0041at 44.024 kb on + strand, within PP_0041at 44.024 kb on + strand, within PP_0041at 44.024 kb on + strand, within PP_0041at 44.025 kb on - strand, within PP_0041at 44.025 kb on - strand, within PP_0041at 44.025 kb on - strand, within PP_0041at 44.070 kb on + strand, within PP_0041at 44.120 kb on + strand, within PP_0041at 44.121 kb on - strand, within PP_0041at 44.137 kb on - strand, within PP_0041at 44.137 kb on - strand, within PP_0041at 44.180 kb on + strand, within PP_0041at 44.181 kb on - strand, within PP_0041at 44.181 kb on - strand, within PP_0041at 44.380 kb on - strand, within PP_0041at 44.406 kb on + strand, within PP_0041at 44.407 kb on - strand, within PP_0041at 44.412 kb on + strand, within PP_0041at 44.412 kb on + strand, within PP_0041at 44.413 kb on - strand, within PP_0041at 44.415 kb on + strand, within PP_0041at 44.415 kb on + strand, within PP_0041at 44.415 kb on + strand, within PP_0041at 44.415 kb on + strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.416 kb on - strand, within PP_0041at 44.426 kb on + strand, within PP_0041at 44.426 kb on + strand, within PP_0041at 44.426 kb on + strand, within PP_0041at 44.426 kb on + strand, within PP_0041at 44.426 kb on + strand, within PP_0041at 44.427 kb on - strand, within PP_0041

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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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42,246 + PP_0039 0.18 +1.4
42,246 + PP_0039 0.18 -0.3
42,246 + PP_0039 0.18 -1.3
42,246 + PP_0039 0.18 -0.7
42,247 - PP_0039 0.19 +0.0
42,247 - PP_0039 0.19 -0.2
42,247 - PP_0039 0.19 +0.3
42,247 - PP_0039 0.19 -0.1
42,247 - PP_0039 0.19 -1.4
42,247 - PP_0039 0.19 -2.0
42,255 + PP_0039 0.19 -1.6
42,256 - PP_0039 0.19 +1.4
42,286 + PP_0039 0.22 -0.0
42,287 - PP_0039 0.22 +0.5
42,287 - PP_0039 0.22 -1.5
42,340 + PP_0039 0.28 +0.6
42,341 - PP_0039 0.28 -1.9
42,457 + PP_0039 0.39 +0.7
42,457 + PP_0039 0.39 +0.5
42,458 - PP_0039 0.39 -0.7
42,458 - PP_0039 0.39 +1.0
42,507 - PP_0039 0.44 +2.4
42,615 + PP_0039 0.54 -1.8
42,615 + PP_0039 0.54 +0.6
42,615 + PP_0039 0.54 -0.8
42,616 - PP_0039 0.54 +0.8
42,625 + PP_0039 0.55 -0.5
42,757 - PP_0039 0.68 +1.4
42,795 + PP_0039 0.72 -1.8
42,795 + PP_0039 0.72 +1.4
42,795 + PP_0039 0.72 -1.8
42,932 + PP_0039 0.85 -0.0
42,933 - PP_0039 0.85 -0.2
42,951 + PP_0039 0.87 +0.3
42,951 + PP_0039 0.87 +2.4
42,952 - PP_0039 0.87 +3.4
42,952 - PP_0039 0.87 -0.9
42,952 - PP_0039 0.87 -1.0
42,952 - PP_0039 0.87 -0.5
42,999 + -1.1
43,009 + -0.2
43,009 + -0.1
43,009 + -0.6
43,009 + -0.4
43,009 + -1.9
43,010 - -1.0
43,076 + -1.6
43,076 + +2.4
43,076 + -1.0
43,077 - +0.2
43,077 - +0.5
43,126 + -0.9
43,127 - +0.1
43,127 - -1.7
43,205 + -1.2
43,205 + -0.8
43,206 - +0.1
43,206 - -0.9
43,206 - -1.5
43,206 - +0.8
43,206 - -0.5
43,206 - +0.3
43,209 + +0.5
43,209 + +0.4
43,210 - -2.1
43,210 - -0.9
43,273 + PP_0040 0.28 +2.4
43,273 + PP_0040 0.28 -1.6
43,274 - PP_0040 0.28 +0.4
43,274 - PP_0040 0.28 -0.7
43,368 - PP_0040 0.70 -0.9
43,444 - -1.7
43,474 + -0.1
43,474 + +0.4
43,474 + -0.3
43,480 + -1.4
43,480 + +2.4
43,481 - +0.3
43,502 + +0.4
43,502 + +0.0
43,502 + -3.6
43,502 + +0.3
43,502 + -0.2
43,502 + +0.9
43,503 - +1.8
43,503 - +0.5
43,503 - -0.8
43,503 - +2.4
43,543 + +1.2
43,751 + PP_0041 0.11 +0.2
43,751 + PP_0041 0.11 -0.6
43,941 + PP_0041 0.21 -0.8
43,941 + PP_0041 0.21 -1.1
43,941 + PP_0041 0.21 -0.4
43,942 - PP_0041 0.21 -0.4
43,942 - PP_0041 0.21 +0.8
43,942 - PP_0041 0.21 -1.1
43,960 - PP_0041 0.22 -0.2
43,960 - PP_0041 0.22 +0.4
44,024 + PP_0041 0.25 -1.7
44,024 + PP_0041 0.25 -0.4
44,024 + PP_0041 0.25 +0.3
44,025 - PP_0041 0.25 +0.1
44,025 - PP_0041 0.25 -1.2
44,025 - PP_0041 0.25 -0.8
44,070 + PP_0041 0.27 -0.9
44,120 + PP_0041 0.30 +0.2
44,121 - PP_0041 0.30 +1.1
44,137 - PP_0041 0.31 -0.9
44,137 - PP_0041 0.31 +0.6
44,180 + PP_0041 0.33 -0.8
44,181 - PP_0041 0.33 +0.4
44,181 - PP_0041 0.33 -1.2
44,380 - PP_0041 0.43 +0.0
44,406 + PP_0041 0.44 +0.1
44,407 - PP_0041 0.44 -0.4
44,412 + PP_0041 0.44 +1.0
44,412 + PP_0041 0.44 +0.1
44,413 - PP_0041 0.44 -0.8
44,415 + PP_0041 0.44 -0.9
44,415 + PP_0041 0.44 +1.7
44,415 + PP_0041 0.44 -1.2
44,415 + PP_0041 0.44 -0.2
44,416 - PP_0041 0.44 -0.7
44,416 - PP_0041 0.44 -1.4
44,416 - PP_0041 0.44 -0.5
44,416 - PP_0041 0.44 +2.4
44,416 - PP_0041 0.44 -0.9
44,416 - PP_0041 0.44 -1.3
44,416 - PP_0041 0.44 -1.2
44,416 - PP_0041 0.44 +0.0
44,416 - PP_0041 0.44 +0.3
44,416 - PP_0041 0.44 -0.1
44,426 + PP_0041 0.45 -0.8
44,426 + PP_0041 0.45 +0.1
44,426 + PP_0041 0.45 -0.8
44,426 + PP_0041 0.45 -1.0
44,426 + PP_0041 0.45 -1.0
44,427 - PP_0041 0.45 -0.8

Or see this region's nucleotide sequence