Strain Fitness in Pseudomonas putida KT2440 around PP_3786

Experiment: 72hr 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_3785 and PP_3786 are separated by 20 nucleotidesPP_3786 and PP_3787 overlap by 4 nucleotidesPP_3787 and PP_3788 overlap by 4 nucleotides PP_3785: PP_3785 - conserved protein of unknown function, at 4,312,438 to 4,313,778 _3785 PP_3786: PP_3786 - aminotransferase, at 4,313,799 to 4,315,007 _3786 PP_3787: PP_3787 - conserved protein of unknown function, at 4,315,004 to 4,315,921 _3787 PP_3788: PP_3788 - putative Non-ribosomal peptide synthetase, at 4,315,918 to 4,317,471 _3788 Position (kb) 4313 4314 4315 4316Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 4312.820 kb on + strand, within PP_3785at 4312.820 kb on + strand, within PP_3785at 4312.821 kb on - strand, within PP_3785at 4312.891 kb on + strand, within PP_3785at 4312.892 kb on - strand, within PP_3785at 4312.897 kb on + strand, within PP_3785at 4312.897 kb on + strand, within PP_3785at 4312.898 kb on - strand, within PP_3785at 4312.898 kb on - strand, within PP_3785at 4312.969 kb on + strand, within PP_3785at 4312.980 kb on + strandat 4313.065 kb on + strand, within PP_3785at 4313.191 kb on + strand, within PP_3785at 4313.192 kb on - strand, within PP_3785at 4313.192 kb on - strand, within PP_3785at 4313.195 kb on + strand, within PP_3785at 4313.195 kb on + strand, within PP_3785at 4313.195 kb on + strand, within PP_3785at 4313.196 kb on - strand, within PP_3785at 4313.257 kb on - strand, within PP_3785at 4313.291 kb on - strand, within PP_3785at 4313.291 kb on - strand, within PP_3785at 4313.310 kb on - strand, within PP_3785at 4313.333 kb on + strand, within PP_3785at 4313.402 kb on - strand, within PP_3785at 4313.402 kb on - strand, within PP_3785at 4313.402 kb on - strand, within PP_3785at 4313.437 kb on - strand, within PP_3785at 4313.449 kb on + strand, within PP_3785at 4313.450 kb on - strand, within PP_3785at 4313.464 kb on + strand, within PP_3785at 4313.464 kb on + strand, within PP_3785at 4313.465 kb on - strand, within PP_3785at 4313.465 kb on - strand, within PP_3785at 4313.465 kb on - strand, within PP_3785at 4313.668 kb on + strandat 4313.668 kb on + strandat 4313.669 kb on - strandat 4313.669 kb on - strandat 4313.669 kb on - strandat 4313.675 kb on - strandat 4313.773 kb on + strandat 4313.774 kb on - strandat 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.006 kb on + strand, within PP_3786at 4314.007 kb on - strand, within PP_3786at 4314.007 kb on - strand, within PP_3786at 4314.007 kb on - strand, within PP_3786at 4314.007 kb on - strand, within PP_3786at 4314.012 kb on + strand, within PP_3786at 4314.013 kb on - strand, within PP_3786at 4314.013 kb on - strand, within PP_3786at 4314.013 kb on - strand, within PP_3786at 4314.013 kb on - strand, within PP_3786at 4314.092 kb on - strand, within PP_3786at 4314.127 kb on + strand, within PP_3786at 4314.127 kb on + strand, within PP_3786at 4314.127 kb on + strand, within PP_3786at 4314.142 kb on + strand, within PP_3786at 4314.142 kb on + strand, within PP_3786at 4314.143 kb on - strand, within PP_3786at 4314.143 kb on - strand, within PP_3786at 4314.143 kb on - strand, within PP_3786at 4314.143 kb on - strand, within PP_3786at 4314.146 kb on + strand, within PP_3786at 4314.146 kb on + strand, within PP_3786at 4314.147 kb on - strand, within PP_3786at 4314.147 kb on - strand, within PP_3786at 4314.147 kb on - strand, within PP_3786at 4314.147 kb on - strand, within PP_3786at 4314.195 kb on - strand, within PP_3786at 4314.195 kb on - strand, within PP_3786at 4314.226 kb on + strand, within PP_3786at 4314.226 kb on + strand, within PP_3786at 4314.227 kb on - strand, within PP_3786at 4314.227 kb on - strand, within PP_3786at 4314.227 kb on - strand, within PP_3786at 4314.227 kb on - strand, within PP_3786at 4314.278 kb on - strand, within PP_3786at 4314.321 kb on + strand, within PP_3786at 4314.423 kb on + strand, within PP_3786at 4314.469 kb on - strand, within PP_3786at 4314.551 kb on + strand, within PP_3786at 4314.552 kb on - strand, within PP_3786at 4314.628 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.691 kb on + strand, within PP_3786at 4314.692 kb on - strand, within PP_3786at 4314.692 kb on - strand, within PP_3786at 4314.710 kb on - strand, within PP_3786at 4314.749 kb on - strand, within PP_3786at 4314.775 kb on - strand, within PP_3786at 4314.901 kb on + strandat 4314.902 kb on - strandat 4314.974 kb on - strandat 4314.974 kb on - strandat 4314.974 kb on - strandat 4314.974 kb on - strandat 4315.059 kb on - strandat 4315.097 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.222 kb on + strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.223 kb on - strand, within PP_3787at 4315.303 kb on + strand, within PP_3787at 4315.303 kb on + strand, within PP_3787at 4315.303 kb on + strand, within PP_3787at 4315.303 kb on + strand, within PP_3787at 4315.303 kb on + strand, within PP_3787at 4315.304 kb on - strand, within PP_3787at 4315.304 kb on - strand, within PP_3787at 4315.304 kb on - strand, within PP_3787at 4315.304 kb on - strand, within PP_3787at 4315.304 kb on - strand, within PP_3787at 4315.395 kb on + strand, within PP_3787at 4315.395 kb on + strand, within PP_3787at 4315.396 kb on - strand, within PP_3787at 4315.396 kb on - strand, within PP_3787at 4315.794 kb on - strand, within PP_3787at 4315.794 kb on - strand, within PP_3787at 4315.794 kb on - strand, within PP_3787at 4315.830 kb on + strandat 4315.831 kb on - strandat 4315.847 kb on + strandat 4315.847 kb on + strandat 4315.848 kb on - strandat 4315.893 kb on + strandat 4315.893 kb on + strandat 4315.931 kb on + strandat 4315.932 kb on - strandat 4315.984 kb on + strandat 4315.984 kb on + strandat 4315.985 kb on - strandat 4315.985 kb on - strandat 4315.995 kb on + strandat 4315.995 kb on + strandat 4315.995 kb on + strandat 4315.996 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 72hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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4,312,820 + PP_3785 0.28 -0.5
4,312,820 + PP_3785 0.28 +0.6
4,312,821 - PP_3785 0.29 -1.1
4,312,891 + PP_3785 0.34 +0.7
4,312,892 - PP_3785 0.34 -1.0
4,312,897 + PP_3785 0.34 -0.4
4,312,897 + PP_3785 0.34 +0.5
4,312,898 - PP_3785 0.34 -1.1
4,312,898 - PP_3785 0.34 -0.2
4,312,969 + PP_3785 0.40 +0.8
4,312,980 + +1.2
4,313,065 + PP_3785 0.47 -0.8
4,313,191 + PP_3785 0.56 +2.8
4,313,192 - PP_3785 0.56 -1.6
4,313,192 - PP_3785 0.56 -1.2
4,313,195 + PP_3785 0.56 +0.2
4,313,195 + PP_3785 0.56 -0.2
4,313,195 + PP_3785 0.56 +0.2
4,313,196 - PP_3785 0.57 -1.9
4,313,257 - PP_3785 0.61 -0.3
4,313,291 - PP_3785 0.64 -1.9
4,313,291 - PP_3785 0.64 -2.6
4,313,310 - PP_3785 0.65 -0.5
4,313,333 + PP_3785 0.67 -0.1
4,313,402 - PP_3785 0.72 -1.1
4,313,402 - PP_3785 0.72 -0.7
4,313,402 - PP_3785 0.72 -2.6
4,313,437 - PP_3785 0.74 -0.1
4,313,449 + PP_3785 0.75 +0.1
4,313,450 - PP_3785 0.75 -1.4
4,313,464 + PP_3785 0.77 +0.1
4,313,464 + PP_3785 0.77 -0.9
4,313,465 - PP_3785 0.77 -1.2
4,313,465 - PP_3785 0.77 +1.8
4,313,465 - PP_3785 0.77 -0.6
4,313,668 + +1.0
4,313,668 + +1.3
4,313,669 - -1.4
4,313,669 - -0.7
4,313,669 - -0.2
4,313,675 - -1.7
4,313,773 + +0.5
4,313,774 - -1.7
4,314,006 + PP_3786 0.17 +0.6
4,314,006 + PP_3786 0.17 -0.2
4,314,006 + PP_3786 0.17 -0.7
4,314,006 + PP_3786 0.17 +0.2
4,314,006 + PP_3786 0.17 -0.2
4,314,006 + PP_3786 0.17 -0.9
4,314,006 + PP_3786 0.17 +0.8
4,314,007 - PP_3786 0.17 +2.8
4,314,007 - PP_3786 0.17 -0.9
4,314,007 - PP_3786 0.17 -2.6
4,314,007 - PP_3786 0.17 -0.6
4,314,012 + PP_3786 0.18 -0.5
4,314,013 - PP_3786 0.18 +0.8
4,314,013 - PP_3786 0.18 -1.6
4,314,013 - PP_3786 0.18 -0.8
4,314,013 - PP_3786 0.18 -1.3
4,314,092 - PP_3786 0.24 -2.2
4,314,127 + PP_3786 0.27 -1.1
4,314,127 + PP_3786 0.27 -0.1
4,314,127 + PP_3786 0.27 -0.3
4,314,142 + PP_3786 0.28 -1.5
4,314,142 + PP_3786 0.28 -1.6
4,314,143 - PP_3786 0.28 +0.9
4,314,143 - PP_3786 0.28 -1.2
4,314,143 - PP_3786 0.28 -1.0
4,314,143 - PP_3786 0.28 -1.7
4,314,146 + PP_3786 0.29 -1.2
4,314,146 + PP_3786 0.29 -1.1
4,314,147 - PP_3786 0.29 -1.6
4,314,147 - PP_3786 0.29 -2.3
4,314,147 - PP_3786 0.29 +0.8
4,314,147 - PP_3786 0.29 -1.1
4,314,195 - PP_3786 0.33 -1.2
4,314,195 - PP_3786 0.33 -0.8
4,314,226 + PP_3786 0.35 -0.1
4,314,226 + PP_3786 0.35 +0.6
4,314,227 - PP_3786 0.35 +2.2
4,314,227 - PP_3786 0.35 -0.8
4,314,227 - PP_3786 0.35 -3.3
4,314,227 - PP_3786 0.35 -1.5
4,314,278 - PP_3786 0.40 -2.3
4,314,321 + PP_3786 0.43 -0.5
4,314,423 + PP_3786 0.52 -2.1
4,314,469 - PP_3786 0.55 -2.1
4,314,551 + PP_3786 0.62 -1.9
4,314,552 - PP_3786 0.62 -0.0
4,314,628 + PP_3786 0.69 -1.0
4,314,691 + PP_3786 0.74 +0.8
4,314,691 + PP_3786 0.74 -0.6
4,314,691 + PP_3786 0.74 -0.3
4,314,691 + PP_3786 0.74 -0.2
4,314,691 + PP_3786 0.74 -1.4
4,314,691 + PP_3786 0.74 -1.2
4,314,692 - PP_3786 0.74 +0.3
4,314,692 - PP_3786 0.74 -1.5
4,314,710 - PP_3786 0.75 +0.9
4,314,749 - PP_3786 0.79 +1.2
4,314,775 - PP_3786 0.81 +1.4
4,314,901 + -1.1
4,314,902 - +2.8
4,314,974 - -2.1
4,314,974 - -0.6
4,314,974 - -1.3
4,314,974 - -3.1
4,315,059 - -1.8
4,315,097 + PP_3787 0.10 +0.0
4,315,222 + PP_3787 0.24 +0.8
4,315,222 + PP_3787 0.24 -0.7
4,315,222 + PP_3787 0.24 -0.7
4,315,222 + PP_3787 0.24 -0.6
4,315,222 + PP_3787 0.24 +0.2
4,315,222 + PP_3787 0.24 -0.3
4,315,222 + PP_3787 0.24 -0.7
4,315,223 - PP_3787 0.24 -0.9
4,315,223 - PP_3787 0.24 -3.8
4,315,223 - PP_3787 0.24 -1.8
4,315,223 - PP_3787 0.24 -3.1
4,315,223 - PP_3787 0.24 -0.8
4,315,223 - PP_3787 0.24 -2.0
4,315,223 - PP_3787 0.24 -0.8
4,315,223 - PP_3787 0.24 -0.7
4,315,223 - PP_3787 0.24 -1.7
4,315,223 - PP_3787 0.24 -0.9
4,315,303 + PP_3787 0.33 -0.2
4,315,303 + PP_3787 0.33 -0.2
4,315,303 + PP_3787 0.33 -0.8
4,315,303 + PP_3787 0.33 -0.1
4,315,303 + PP_3787 0.33 -1.4
4,315,304 - PP_3787 0.33 -2.4
4,315,304 - PP_3787 0.33 -2.2
4,315,304 - PP_3787 0.33 -2.6
4,315,304 - PP_3787 0.33 -1.2
4,315,304 - PP_3787 0.33 -2.9
4,315,395 + PP_3787 0.43 -0.5
4,315,395 + PP_3787 0.43 +0.6
4,315,396 - PP_3787 0.43 -2.2
4,315,396 - PP_3787 0.43 -1.7
4,315,794 - PP_3787 0.86 -2.5
4,315,794 - PP_3787 0.86 -2.2
4,315,794 - PP_3787 0.86 -1.3
4,315,830 + -0.1
4,315,831 - -2.3
4,315,847 + +0.4
4,315,847 + -1.1
4,315,848 - -2.3
4,315,893 + +0.8
4,315,893 + +1.1
4,315,931 + -0.8
4,315,932 - -0.3
4,315,984 + -0.6
4,315,984 + -0.8
4,315,985 - -0.2
4,315,985 - -0.8
4,315,995 + -1.3
4,315,995 + +0.8
4,315,995 + -0.5
4,315,996 - -1.5

Or see this region's nucleotide sequence