Strain Fitness in Pseudomonas putida KT2440 around PP_1012

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_1011 and PP_1012 are separated by 78 nucleotidesPP_1012 and PP_1013 overlap by 20 nucleotides PP_1011: PP_1011 - glucokinase, at 1,153,099 to 1,154,058 _1011 PP_1012: PP_1012 - DNA-binding response regulator, at 1,154,137 to 1,154,862 _1012 PP_1013: PP_1013 - Sensor histidine kinase, at 1,154,843 to 1,156,297 _1013 Position (kb) 1154 1155Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1153.178 kb on + strandat 1153.178 kb on + strandat 1153.179 kb on - strandat 1153.201 kb on + strand, within PP_1011at 1153.202 kb on - strand, within PP_1011at 1153.232 kb on - strand, within PP_1011at 1153.752 kb on + strand, within PP_1011at 1153.753 kb on - strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.839 kb on + strand, within PP_1011at 1153.840 kb on - strand, within PP_1011at 1153.840 kb on - strand, within PP_1011at 1153.873 kb on + strand, within PP_1011at 1153.873 kb on + strand, within PP_1011at 1153.873 kb on + strand, within PP_1011at 1153.874 kb on - strand, within PP_1011at 1153.874 kb on - strand, within PP_1011at 1153.874 kb on - strand, within PP_1011at 1153.874 kb on - strand, within PP_1011at 1153.874 kb on - strand, within PP_1011at 1153.875 kb on + strand, within PP_1011at 1153.876 kb on - strand, within PP_1011at 1153.876 kb on - strand, within PP_1011at 1153.876 kb on - strand, within PP_1011at 1153.956 kb on + strand, within PP_1011at 1153.956 kb on + strand, within PP_1011at 1153.956 kb on + strand, within PP_1011at 1153.966 kb on + strandat 1154.113 kb on + strandat 1154.113 kb on + strandat 1154.113 kb on + strandat 1154.113 kb on + strandat 1154.114 kb on - strandat 1154.207 kb on - strandat 1154.207 kb on - strandat 1154.349 kb on - strand, within PP_1012at 1154.376 kb on - strand, within PP_1012at 1154.376 kb on - strand, within PP_1012at 1154.379 kb on + strand, within PP_1012at 1154.379 kb on + strand, within PP_1012at 1154.379 kb on + strand, within PP_1012at 1154.379 kb on + strand, within PP_1012at 1154.379 kb on + strand, within PP_1012at 1154.380 kb on - strand, within PP_1012at 1154.380 kb on - strand, within PP_1012at 1154.450 kb on - strand, within PP_1012at 1154.827 kb on + strandat 1154.828 kb on - strandat 1154.956 kb on + strandat 1154.956 kb on + strandat 1154.956 kb on + strandat 1154.957 kb on - strandat 1154.957 kb on - strandat 1154.957 kb on - strandat 1154.957 kb on - strandat 1154.957 kb on - strandat 1155.048 kb on - strand, within PP_1013at 1155.330 kb on - strand, within PP_1013at 1155.364 kb on - strand, within PP_1013at 1155.404 kb on + strand, within PP_1013at 1155.404 kb on + strand, within PP_1013at 1155.405 kb on - strand, within PP_1013at 1155.405 kb on - strand, within PP_1013at 1155.431 kb on + strand, within PP_1013at 1155.668 kb on - strand, within PP_1013at 1155.677 kb on + strand, within PP_1013

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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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1,153,178 + -1.6
1,153,178 + -0.6
1,153,179 - -0.2
1,153,201 + PP_1011 0.11 -2.6
1,153,202 - PP_1011 0.11 -1.9
1,153,232 - PP_1011 0.14 -1.3
1,153,752 + PP_1011 0.68 +0.2
1,153,753 - PP_1011 0.68 +2.0
1,153,839 + PP_1011 0.77 -2.6
1,153,839 + PP_1011 0.77 -2.0
1,153,839 + PP_1011 0.77 -2.9
1,153,839 + PP_1011 0.77 -2.8
1,153,839 + PP_1011 0.77 -2.6
1,153,839 + PP_1011 0.77 -1.1
1,153,840 - PP_1011 0.77 -0.9
1,153,840 - PP_1011 0.77 +2.6
1,153,873 + PP_1011 0.81 -1.9
1,153,873 + PP_1011 0.81 -1.4
1,153,873 + PP_1011 0.81 -1.3
1,153,874 - PP_1011 0.81 +0.4
1,153,874 - PP_1011 0.81 -0.4
1,153,874 - PP_1011 0.81 -2.3
1,153,874 - PP_1011 0.81 -0.0
1,153,874 - PP_1011 0.81 -0.5
1,153,875 + PP_1011 0.81 -1.0
1,153,876 - PP_1011 0.81 -0.9
1,153,876 - PP_1011 0.81 -1.7
1,153,876 - PP_1011 0.81 +2.6
1,153,956 + PP_1011 0.89 -1.6
1,153,956 + PP_1011 0.89 -1.5
1,153,956 + PP_1011 0.89 -2.1
1,153,966 + -2.4
1,154,113 + -2.1
1,154,113 + -1.0
1,154,113 + -1.0
1,154,113 + -1.4
1,154,114 - +1.2
1,154,207 - -3.0
1,154,207 - +0.2
1,154,349 - PP_1012 0.29 -2.6
1,154,376 - PP_1012 0.33 -1.3
1,154,376 - PP_1012 0.33 -2.9
1,154,379 + PP_1012 0.33 -0.9
1,154,379 + PP_1012 0.33 -1.6
1,154,379 + PP_1012 0.33 -0.2
1,154,379 + PP_1012 0.33 -0.9
1,154,379 + PP_1012 0.33 -0.9
1,154,380 - PP_1012 0.33 -2.1
1,154,380 - PP_1012 0.33 -0.8
1,154,450 - PP_1012 0.43 -0.3
1,154,827 + -0.1
1,154,828 - -0.6
1,154,956 + +2.6
1,154,956 + +0.8
1,154,956 + -2.4
1,154,957 - -2.6
1,154,957 - +1.4
1,154,957 - -1.0
1,154,957 - -2.1
1,154,957 - +0.1
1,155,048 - PP_1013 0.14 +0.2
1,155,330 - PP_1013 0.33 -1.0
1,155,364 - PP_1013 0.36 -0.5
1,155,404 + PP_1013 0.39 -0.1
1,155,404 + PP_1013 0.39 -1.0
1,155,405 - PP_1013 0.39 +2.6
1,155,405 - PP_1013 0.39 +0.2
1,155,431 + PP_1013 0.40 -3.1
1,155,668 - PP_1013 0.57 -1.0
1,155,677 + PP_1013 0.57 -0.9

Or see this region's nucleotide sequence