Strain Fitness in Pseudomonas putida KT2440 around PP_0090

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs

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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_0088 and PP_0089 are separated by 152 nucleotidesPP_0089 and PP_0090 are separated by 12 nucleotidesPP_0090 and PP_0091 are separated by 35 nucleotidesPP_0091 and PP_0092 are separated by 55 nucleotides PP_0088: PP_0088 - putative alkanal monooxygenase, at 95,680 to 96,684 _0088 PP_0089: PP_0089 - stress-induced peroxiredoxin, lipoyl-dependent peroxidase, at 96,837 to 97,262 _0089 PP_0090: PP_0090 - conserved exported protein of unknown function, at 97,275 to 97,571 _0090 PP_0091: PP_0091 - putative lipoprotein, at 97,607 to 98,020 _0091 PP_0092: PP_0092 - putative lipoprotein, at 98,076 to 98,489 _0092 Position (kb) 97 98Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 96.317 kb on + strand, within PP_0088at 96.317 kb on + strand, within PP_0088at 96.318 kb on - strand, within PP_0088at 96.318 kb on - strand, within PP_0088at 96.462 kb on + strand, within PP_0088at 96.463 kb on - strand, within PP_0088at 96.463 kb on - strand, within PP_0088at 96.486 kb on - strand, within PP_0088at 96.730 kb on - strandat 96.765 kb on + strandat 96.765 kb on + strandat 96.765 kb on + strandat 96.766 kb on - strandat 96.766 kb on - strandat 96.766 kb on - strandat 96.766 kb on - strandat 96.766 kb on - strandat 96.766 kb on - strandat 96.806 kb on + strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.811 kb on - strandat 96.899 kb on + strand, within PP_0089at 96.930 kb on + strand, within PP_0089at 97.049 kb on + strand, within PP_0089at 97.049 kb on + strand, within PP_0089at 97.050 kb on - strand, within PP_0089at 97.147 kb on + strand, within PP_0089at 97.147 kb on + strand, within PP_0089at 97.147 kb on + strand, within PP_0089at 97.147 kb on + strand, within PP_0089at 97.290 kb on - strandat 97.294 kb on + strandat 97.294 kb on + strandat 97.294 kb on + strandat 97.295 kb on - strandat 97.348 kb on + strand, within PP_0090at 97.348 kb on + strand, within PP_0090at 97.348 kb on + strand, within PP_0090at 97.349 kb on - strand, within PP_0090at 97.349 kb on - strand, within PP_0090at 97.349 kb on - strand, within PP_0090at 97.349 kb on - strand, within PP_0090at 97.352 kb on + strand, within PP_0090at 97.353 kb on - strand, within PP_0090at 97.551 kb on + strandat 97.551 kb on + strandat 97.552 kb on - strandat 97.552 kb on - strandat 97.626 kb on + strandat 97.630 kb on + strandat 97.631 kb on - strandat 97.665 kb on + strand, within PP_0091at 97.665 kb on + strand, within PP_0091at 97.666 kb on - strand, within PP_0091at 97.666 kb on - strand, within PP_0091at 97.666 kb on - strand, within PP_0091at 97.667 kb on + strand, within PP_0091at 97.667 kb on + strand, within PP_0091at 97.667 kb on + strand, within PP_0091at 97.667 kb on + strand, within PP_0091at 97.667 kb on + strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.668 kb on - strand, within PP_0091at 97.797 kb on + strand, within PP_0091at 97.807 kb on - strand, within PP_0091at 97.923 kb on + strand, within PP_0091at 97.923 kb on + strand, within PP_0091at 97.924 kb on - strand, within PP_0091at 97.924 kb on - strand, within PP_0091at 97.987 kb on + strandat 97.987 kb on + strandat 97.987 kb on + strandat 97.987 kb on + strandat 97.988 kb on - strandat 97.988 kb on - strandat 97.988 kb on - strandat 98.049 kb on + strandat 98.049 kb on + strandat 98.058 kb on + strandat 98.058 kb on + strandat 98.059 kb on - strandat 98.142 kb on + strandat 98.261 kb on + strand, within PP_0092at 98.287 kb on + strand, within PP_0092at 98.381 kb on + strand, within PP_0092at 98.381 kb on + strand, within PP_0092at 98.381 kb on + strand, within PP_0092at 98.382 kb on - strand, within PP_0092at 98.479 kb on - strandat 98.479 kb on - strandat 98.513 kb on + strandat 98.514 kb on - strandat 98.514 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs
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96,317 + PP_0088 0.63 -3.6
96,317 + PP_0088 0.63 +0.9
96,318 - PP_0088 0.63 -2.3
96,318 - PP_0088 0.63 +0.6
96,462 + PP_0088 0.78 +0.4
96,463 - PP_0088 0.78 -0.7
96,463 - PP_0088 0.78 -0.3
96,486 - PP_0088 0.80 +0.4
96,730 - +0.2
96,765 + +0.8
96,765 + -0.1
96,765 + +1.5
96,766 - +0.4
96,766 - +1.3
96,766 - -1.9
96,766 - +0.8
96,766 - -1.3
96,766 - +0.6
96,806 + +0.2
96,811 - +1.8
96,811 - -0.6
96,811 - -1.2
96,811 - -3.9
96,811 - -4.0
96,811 - +0.1
96,811 - +2.4
96,899 + PP_0089 0.15 +0.9
96,930 + PP_0089 0.22 +0.6
97,049 + PP_0089 0.50 -0.7
97,049 + PP_0089 0.50 -1.2
97,050 - PP_0089 0.50 +0.9
97,147 + PP_0089 0.73 -2.1
97,147 + PP_0089 0.73 -0.4
97,147 + PP_0089 0.73 +1.1
97,147 + PP_0089 0.73 -1.7
97,290 - -3.6
97,294 + +0.9
97,294 + -3.2
97,294 + +1.2
97,295 - -1.7
97,348 + PP_0090 0.25 +0.2
97,348 + PP_0090 0.25 -0.1
97,348 + PP_0090 0.25 +1.1
97,349 - PP_0090 0.25 +1.2
97,349 - PP_0090 0.25 +0.7
97,349 - PP_0090 0.25 +2.5
97,349 - PP_0090 0.25 +1.7
97,352 + PP_0090 0.26 -1.0
97,353 - PP_0090 0.26 -0.5
97,551 + +1.7
97,551 + +2.2
97,552 - +0.3
97,552 - -1.4
97,626 + -1.8
97,630 + -0.0
97,631 - +0.7
97,665 + PP_0091 0.14 -0.5
97,665 + PP_0091 0.14 -0.2
97,666 - PP_0091 0.14 +0.1
97,666 - PP_0091 0.14 +1.2
97,666 - PP_0091 0.14 +1.5
97,667 + PP_0091 0.14 -3.3
97,667 + PP_0091 0.14 +0.6
97,667 + PP_0091 0.14 +1.0
97,667 + PP_0091 0.14 -4.1
97,667 + PP_0091 0.14 +0.5
97,668 - PP_0091 0.15 -3.6
97,668 - PP_0091 0.15 +0.9
97,668 - PP_0091 0.15 -2.1
97,668 - PP_0091 0.15 -2.3
97,668 - PP_0091 0.15 +0.2
97,668 - PP_0091 0.15 -3.6
97,668 - PP_0091 0.15 -0.9
97,668 - PP_0091 0.15 +0.2
97,797 + PP_0091 0.46 -1.2
97,807 - PP_0091 0.48 +0.8
97,923 + PP_0091 0.76 -0.7
97,923 + PP_0091 0.76 -3.2
97,924 - PP_0091 0.77 +1.8
97,924 - PP_0091 0.77 -1.2
97,987 + -0.5
97,987 + +2.0
97,987 + +0.2
97,987 + +1.3
97,988 - -1.1
97,988 - -0.3
97,988 - +0.2
98,049 + +3.8
98,049 + -4.5
98,058 + -0.1
98,058 + +0.4
98,059 - +0.7
98,142 + +1.4
98,261 + PP_0092 0.45 +0.9
98,287 + PP_0092 0.51 -0.2
98,381 + PP_0092 0.74 +1.1
98,381 + PP_0092 0.74 -3.0
98,381 + PP_0092 0.74 -0.4
98,382 - PP_0092 0.74 -0.3
98,479 - +0.5
98,479 - +1.2
98,513 + +0.4
98,514 - -0.5
98,514 - -1.8

Or see this region's nucleotide sequence