Strain Fitness in Pseudomonas putida KT2440 around PP_3121

Experiment: 24hr 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_3119 and PP_3120 are separated by 182 nucleotidesPP_3120 and PP_3121 are separated by 47 nucleotidesPP_3121 and PP_3122 are separated by 140 nucleotidesPP_3122 and PP_3123 are separated by 35 nucleotides PP_3119: PP_3119 - error-prone DNA polymerase, at 3,528,184 to 3,531,285 _3119 PP_3120: PP_3120 - methylglyoxal reductase, at 3,531,468 to 3,532,229 _3120 PP_3121: PP_3121 - transcriptional regulator, LysR family, at 3,532,277 to 3,533,182 _3121 PP_3122: PP_3122 - acetoacetyl CoA-transferase (subunit A), at 3,533,323 to 3,534,021 _3122 PP_3123: PP_3123 - acetoacetyl CoA-transferase (subunit B), at 3,534,057 to 3,534,713 _3123 Position (kb) 3532 3533 3534Strain fitness (log2 ratio) -1 0 1 2 3at 3531.301 kb on + strandat 3531.469 kb on + strandat 3531.470 kb on - strandat 3531.733 kb on + strand, within PP_3120at 3531.771 kb on + strand, within PP_3120at 3531.808 kb on + strand, within PP_3120at 3531.808 kb on + strand, within PP_3120at 3531.808 kb on + strand, within PP_3120at 3531.808 kb on + strand, within PP_3120at 3531.809 kb on - strand, within PP_3120at 3531.809 kb on - strand, within PP_3120at 3531.970 kb on + strand, within PP_3120at 3532.135 kb on + strand, within PP_3120at 3532.135 kb on + strand, within PP_3120at 3532.136 kb on - strand, within PP_3120at 3532.136 kb on - strand, within PP_3120at 3532.136 kb on - strand, within PP_3120at 3532.231 kb on + strandat 3532.231 kb on + strandat 3532.231 kb on + strandat 3532.231 kb on + strandat 3532.231 kb on + strandat 3532.232 kb on - strandat 3532.232 kb on - strandat 3532.279 kb on - strandat 3532.279 kb on - strandat 3532.282 kb on + strandat 3532.283 kb on - strandat 3532.679 kb on + strand, within PP_3121at 3532.701 kb on + strand, within PP_3121at 3532.701 kb on + strand, within PP_3121at 3532.702 kb on - strand, within PP_3121at 3532.702 kb on - strand, within PP_3121at 3533.139 kb on + strandat 3533.140 kb on - strandat 3533.305 kb on + strandat 3533.305 kb on + strandat 3533.306 kb on - strandat 3533.306 kb on - strandat 3533.353 kb on + strandat 3533.353 kb on + strandat 3533.354 kb on - strandat 3533.436 kb on + strand, within PP_3122at 3533.437 kb on - strand, within PP_3122at 3533.437 kb on - strand, within PP_3122at 3533.560 kb on + strand, within PP_3122at 3533.560 kb on + strand, within PP_3122at 3533.560 kb on + strand, within PP_3122at 3533.560 kb on + strand, within PP_3122at 3533.561 kb on - strand, within PP_3122at 3533.561 kb on - strand, within PP_3122at 3533.683 kb on + strand, within PP_3122at 3533.831 kb on - strand, within PP_3122at 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.956 kb on + strandat 3533.957 kb on - strandat 3533.957 kb on - strandat 3533.957 kb on - strandat 3533.957 kb on - strandat 3534.041 kb on + strandat 3534.042 kb on - strandat 3534.114 kb on + strandat 3534.115 kb on - strandat 3534.117 kb on + strandat 3534.117 kb on + strandat 3534.118 kb on - strandat 3534.118 kb on - strandat 3534.118 kb on - strandat 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.159 kb on + strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123at 3534.160 kb on - strand, within PP_3123

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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 30% DO.
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3,531,301 + +0.4
3,531,469 + +2.6
3,531,470 - -0.2
3,531,733 + PP_3120 0.35 -0.2
3,531,771 + PP_3120 0.40 -0.2
3,531,808 + PP_3120 0.45 +2.0
3,531,808 + PP_3120 0.45 -0.1
3,531,808 + PP_3120 0.45 +0.1
3,531,808 + PP_3120 0.45 +1.2
3,531,809 - PP_3120 0.45 +0.1
3,531,809 - PP_3120 0.45 +0.7
3,531,970 + PP_3120 0.66 -0.7
3,532,135 + PP_3120 0.88 +0.7
3,532,135 + PP_3120 0.88 +0.3
3,532,136 - PP_3120 0.88 +0.8
3,532,136 - PP_3120 0.88 +0.9
3,532,136 - PP_3120 0.88 -0.3
3,532,231 + +0.1
3,532,231 + +0.8
3,532,231 + -0.6
3,532,231 + -0.6
3,532,231 + +0.5
3,532,232 - -0.2
3,532,232 - -1.4
3,532,279 - -1.7
3,532,279 - +0.7
3,532,282 + -0.6
3,532,283 - +0.3
3,532,679 + PP_3121 0.44 -1.3
3,532,701 + PP_3121 0.47 -0.7
3,532,701 + PP_3121 0.47 +2.9
3,532,702 - PP_3121 0.47 +0.8
3,532,702 - PP_3121 0.47 -0.6
3,533,139 + +1.4
3,533,140 - +0.2
3,533,305 + +1.4
3,533,305 + +0.3
3,533,306 - +0.1
3,533,306 - +0.1
3,533,353 + +0.4
3,533,353 + +0.0
3,533,354 - +0.0
3,533,436 + PP_3122 0.16 +0.8
3,533,437 - PP_3122 0.16 -1.3
3,533,437 - PP_3122 0.16 +0.0
3,533,560 + PP_3122 0.34 +1.4
3,533,560 + PP_3122 0.34 -0.5
3,533,560 + PP_3122 0.34 -0.5
3,533,560 + PP_3122 0.34 -0.6
3,533,561 - PP_3122 0.34 +1.4
3,533,561 - PP_3122 0.34 -0.4
3,533,683 + PP_3122 0.52 +0.3
3,533,831 - PP_3122 0.73 -1.2
3,533,956 + +0.4
3,533,956 + -0.9
3,533,956 + +0.2
3,533,956 + +0.9
3,533,956 + -1.1
3,533,956 + +1.0
3,533,956 + -0.0
3,533,956 + -0.4
3,533,956 + +0.4
3,533,956 + -0.2
3,533,957 - +1.4
3,533,957 - +0.2
3,533,957 - +0.5
3,533,957 - -1.1
3,534,041 + -0.6
3,534,042 - +2.6
3,534,114 + -1.5
3,534,115 - +0.5
3,534,117 + +0.3
3,534,117 + -1.1
3,534,118 - -1.1
3,534,118 - +0.2
3,534,118 - -0.3
3,534,159 + PP_3123 0.16 -0.0
3,534,159 + PP_3123 0.16 +0.1
3,534,159 + PP_3123 0.16 +0.4
3,534,159 + PP_3123 0.16 +0.0
3,534,159 + PP_3123 0.16 +0.2
3,534,159 + PP_3123 0.16 +0.4
3,534,159 + PP_3123 0.16 +0.9
3,534,159 + PP_3123 0.16 +0.0
3,534,160 - PP_3123 0.16 +1.9
3,534,160 - PP_3123 0.16 +1.0
3,534,160 - PP_3123 0.16 -0.4
3,534,160 - PP_3123 0.16 +0.1
3,534,160 - PP_3123 0.16 -1.3
3,534,160 - PP_3123 0.16 +0.1
3,534,160 - PP_3123 0.16 +0.1
3,534,160 - PP_3123 0.16 -0.5
3,534,160 - PP_3123 0.16 +0.6
3,534,160 - PP_3123 0.16 +0.5
3,534,160 - PP_3123 0.16 -0.7
3,534,160 - PP_3123 0.16 -1.1

Or see this region's nucleotide sequence