Strain Fitness in Pseudomonas putida KT2440 around PP_1420

Experiment: Growth at pH9 and (C) Trisodium citrate

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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_1419 and PP_1420 are separated by 200 nucleotidesPP_1420 and PP_1421 overlap by 20 nucleotides PP_1419: PP_1419 - tricarboxylate-specific outer membrane porin, at 1,618,945 to 1,620,234 _1419 PP_1420: PP_1420 - Transcriptional regulatory protein tctD, at 1,620,435 to 1,621,106 _1420 PP_1421: PP_1421 - putative Sensor histidine kinase TctE, at 1,621,087 to 1,622,478 _1421 Position (kb) 1620 1621 1622Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 1619.501 kb on + strand, within PP_1419at 1619.506 kb on - strand, within PP_1419at 1619.506 kb on - strand, within PP_1419at 1619.528 kb on + strand, within PP_1419at 1619.528 kb on + strand, within PP_1419at 1619.558 kb on + strand, within PP_1419at 1619.559 kb on - strand, within PP_1419at 1619.855 kb on + strand, within PP_1419at 1620.077 kb on + strand, within PP_1419at 1620.078 kb on - strand, within PP_1419at 1620.078 kb on - strand, within PP_1419at 1620.190 kb on - strandat 1620.261 kb on - strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.318 kb on + strandat 1620.394 kb on + strandat 1620.445 kb on + strandat 1620.446 kb on - strandat 1620.446 kb on - strandat 1620.514 kb on + strand, within PP_1420at 1620.514 kb on + strand, within PP_1420at 1620.514 kb on + strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.515 kb on - strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.567 kb on + strand, within PP_1420at 1620.568 kb on - strand, within PP_1420at 1620.619 kb on + strand, within PP_1420at 1620.619 kb on + strand, within PP_1420at 1620.620 kb on - strand, within PP_1420at 1620.662 kb on + strand, within PP_1420at 1620.663 kb on - strand, within PP_1420at 1620.663 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.782 kb on - strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.834 kb on + strand, within PP_1420at 1620.835 kb on - strand, within PP_1420at 1621.011 kb on + strand, within PP_1420at 1621.137 kb on + strandat 1621.182 kb on + strandat 1621.183 kb on - strandat 1621.223 kb on - strandat 1621.223 kb on - strandat 1621.306 kb on + strand, within PP_1421at 1621.307 kb on - strand, within PP_1421at 1621.307 kb on - strand, within PP_1421at 1621.330 kb on + strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.331 kb on - strand, within PP_1421at 1621.351 kb on + strand, within PP_1421at 1621.351 kb on + strand, within PP_1421at 1621.352 kb on - strand, within PP_1421at 1621.355 kb on - strand, within PP_1421at 1621.463 kb on - strand, within PP_1421at 1621.463 kb on - strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.474 kb on + strand, within PP_1421at 1621.475 kb on - strand, within PP_1421

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) Trisodium citrate
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1,619,501 + PP_1419 0.43 -3.1
1,619,506 - PP_1419 0.43 -2.1
1,619,506 - PP_1419 0.43 -1.0
1,619,528 + PP_1419 0.45 -2.2
1,619,528 + PP_1419 0.45 -1.2
1,619,558 + PP_1419 0.48 -0.5
1,619,559 - PP_1419 0.48 -0.9
1,619,855 + PP_1419 0.71 -4.0
1,620,077 + PP_1419 0.88 -2.1
1,620,078 - PP_1419 0.88 -0.6
1,620,078 - PP_1419 0.88 -1.7
1,620,190 - -1.1
1,620,261 - +1.8
1,620,318 + -2.2
1,620,318 + -1.5
1,620,318 + -1.4
1,620,318 + -0.2
1,620,394 + -0.0
1,620,445 + -3.0
1,620,446 - -2.8
1,620,446 - -2.6
1,620,514 + PP_1420 0.12 -4.2
1,620,514 + PP_1420 0.12 -3.1
1,620,514 + PP_1420 0.12 -4.2
1,620,515 - PP_1420 0.12 -4.3
1,620,515 - PP_1420 0.12 -1.6
1,620,515 - PP_1420 0.12 -2.4
1,620,567 + PP_1420 0.20 -4.1
1,620,567 + PP_1420 0.20 -4.6
1,620,567 + PP_1420 0.20 -2.9
1,620,568 - PP_1420 0.20 -4.3
1,620,619 + PP_1420 0.27 -4.5
1,620,619 + PP_1420 0.27 -2.4
1,620,620 - PP_1420 0.28 -2.4
1,620,662 + PP_1420 0.34 -2.1
1,620,663 - PP_1420 0.34 -2.9
1,620,663 - PP_1420 0.34 -1.5
1,620,782 - PP_1420 0.52 -2.8
1,620,782 - PP_1420 0.52 -3.2
1,620,782 - PP_1420 0.52 -3.3
1,620,834 + PP_1420 0.59 -4.6
1,620,834 + PP_1420 0.59 -2.4
1,620,834 + PP_1420 0.59 -4.8
1,620,835 - PP_1420 0.60 -4.0
1,621,011 + PP_1420 0.86 -3.9
1,621,137 + -3.4
1,621,182 + -3.8
1,621,183 - -3.6
1,621,223 - -3.8
1,621,223 - -4.6
1,621,306 + PP_1421 0.16 -4.3
1,621,307 - PP_1421 0.16 -4.6
1,621,307 - PP_1421 0.16 -2.7
1,621,330 + PP_1421 0.17 -2.8
1,621,331 - PP_1421 0.18 -4.5
1,621,331 - PP_1421 0.18 -4.6
1,621,331 - PP_1421 0.18 -4.6
1,621,351 + PP_1421 0.19 -4.2
1,621,351 + PP_1421 0.19 -4.8
1,621,352 - PP_1421 0.19 -2.0
1,621,355 - PP_1421 0.19 -3.3
1,621,463 - PP_1421 0.27 -3.6
1,621,463 - PP_1421 0.27 -2.8
1,621,474 + PP_1421 0.28 -2.0
1,621,474 + PP_1421 0.28 -1.4
1,621,474 + PP_1421 0.28 -4.4
1,621,474 + PP_1421 0.28 -4.1
1,621,475 - PP_1421 0.28 -4.1

Or see this region's nucleotide sequence