Strain Fitness in Pseudomonas putida KT2440 around PP_0340

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntPP_0339 and PP_0340 are separated by 383 nucleotidesPP_0340 and PP_0341 are separated by 202 nucleotides PP_0339: PP_0339 - Pyruvate dehydrogenase E1 component, at 408,018 to 410,663 _0339 PP_0340: PP_0340 - Glutamate-ammonia-ligase adenylyltransferase, at 411,047 to 413,980 _0340 PP_0341: PP_0341 - ADP-heptose:LPS heptosyltransferase II, at 414,183 to 415,232 _0341 Position (kb) 411 412 413 414Strain fitness (log2 ratio) -2 -1 0 1 2at 410.051 kb on - strand, within PP_0339at 410.329 kb on + strand, within PP_0339at 410.329 kb on + strand, within PP_0339at 410.330 kb on - strand, within PP_0339at 410.354 kb on + strand, within PP_0339at 410.811 kb on + strandat 411.041 kb on + strandat 411.054 kb on + strandat 411.400 kb on + strand, within PP_0340at 411.401 kb on - strand, within PP_0340at 411.416 kb on - strand, within PP_0340at 411.604 kb on + strand, within PP_0340at 411.785 kb on + strand, within PP_0340at 411.785 kb on + strand, within PP_0340at 411.785 kb on + strand, within PP_0340at 411.833 kb on + strand, within PP_0340at 411.833 kb on + strand, within PP_0340at 411.833 kb on + strand, within PP_0340at 411.833 kb on + strand, within PP_0340at 411.833 kb on + strand, within PP_0340at 411.834 kb on - strand, within PP_0340at 411.834 kb on - strand, within PP_0340at 411.836 kb on + strand, within PP_0340at 411.836 kb on + strand, within PP_0340at 411.837 kb on - strand, within PP_0340at 411.948 kb on - strand, within PP_0340at 412.063 kb on + strand, within PP_0340at 412.075 kb on - strand, within PP_0340at 412.075 kb on - strand, within PP_0340at 412.075 kb on - strand, within PP_0340at 412.075 kb on - strand, within PP_0340at 412.178 kb on + strand, within PP_0340at 412.179 kb on - strand, within PP_0340at 412.179 kb on - strand, within PP_0340at 412.179 kb on - strand, within PP_0340at 412.217 kb on + strand, within PP_0340at 412.217 kb on + strand, within PP_0340at 412.218 kb on - strand, within PP_0340at 412.233 kb on - strand, within PP_0340at 412.316 kb on + strand, within PP_0340at 412.316 kb on + strand, within PP_0340at 412.364 kb on + strand, within PP_0340at 412.364 kb on + strand, within PP_0340at 412.725 kb on - strand, within PP_0340at 412.731 kb on + strand, within PP_0340at 412.732 kb on - strand, within PP_0340at 413.269 kb on + strand, within PP_0340at 413.351 kb on + strand, within PP_0340at 413.351 kb on + strand, within PP_0340at 413.352 kb on - strand, within PP_0340at 413.352 kb on - strand, within PP_0340at 413.352 kb on - strand, within PP_0340at 413.352 kb on - strand, within PP_0340at 413.362 kb on + strand, within PP_0340at 413.535 kb on + strand, within PP_0340at 413.536 kb on - strand, within PP_0340at 413.583 kb on - strand, within PP_0340at 413.664 kb on + strand, within PP_0340at 413.674 kb on + strand, within PP_0340at 413.761 kb on - strandat 413.761 kb on - strandat 413.852 kb on + strandat 413.853 kb on - strandat 413.974 kb on - strandat 413.995 kb on - strandat 414.022 kb on + strandat 414.022 kb on + strandat 414.079 kb on - strandat 414.094 kb on + strandat 414.110 kb on + strandat 414.178 kb on + strandat 414.178 kb on + strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs
remove
410,051 - PP_0339 0.77 +1.4
410,329 + PP_0339 0.87 +2.4
410,329 + PP_0339 0.87 +2.4
410,330 - PP_0339 0.87 +1.4
410,354 + PP_0339 0.88 +0.8
410,811 + +2.4
411,041 + +1.1
411,054 + -1.3
411,400 + PP_0340 0.12 +1.2
411,401 - PP_0340 0.12 +1.5
411,416 - PP_0340 0.13 +1.2
411,604 + PP_0340 0.19 +1.3
411,785 + PP_0340 0.25 +1.0
411,785 + PP_0340 0.25 +0.2
411,785 + PP_0340 0.25 -0.2
411,833 + PP_0340 0.27 +0.6
411,833 + PP_0340 0.27 +1.5
411,833 + PP_0340 0.27 +1.1
411,833 + PP_0340 0.27 +0.9
411,833 + PP_0340 0.27 -0.6
411,834 - PP_0340 0.27 +1.4
411,834 - PP_0340 0.27 +1.2
411,836 + PP_0340 0.27 +0.5
411,836 + PP_0340 0.27 +0.8
411,837 - PP_0340 0.27 +1.3
411,948 - PP_0340 0.31 +1.5
412,063 + PP_0340 0.35 +0.4
412,075 - PP_0340 0.35 +1.2
412,075 - PP_0340 0.35 +1.0
412,075 - PP_0340 0.35 +0.7
412,075 - PP_0340 0.35 +1.4
412,178 + PP_0340 0.39 +1.0
412,179 - PP_0340 0.39 +1.4
412,179 - PP_0340 0.39 +0.4
412,179 - PP_0340 0.39 +1.0
412,217 + PP_0340 0.40 +0.2
412,217 + PP_0340 0.40 +1.2
412,218 - PP_0340 0.40 +0.8
412,233 - PP_0340 0.40 +0.8
412,316 + PP_0340 0.43 +0.9
412,316 + PP_0340 0.43 +0.7
412,364 + PP_0340 0.45 +0.4
412,364 + PP_0340 0.45 +1.3
412,725 - PP_0340 0.57 +0.6
412,731 + PP_0340 0.57 +1.3
412,732 - PP_0340 0.57 +1.4
413,269 + PP_0340 0.76 +0.8
413,351 + PP_0340 0.79 +0.6
413,351 + PP_0340 0.79 +0.8
413,352 - PP_0340 0.79 +0.6
413,352 - PP_0340 0.79 +1.2
413,352 - PP_0340 0.79 +0.9
413,352 - PP_0340 0.79 +0.8
413,362 + PP_0340 0.79 +1.8
413,535 + PP_0340 0.85 +1.4
413,536 - PP_0340 0.85 +1.3
413,583 - PP_0340 0.86 +1.0
413,664 + PP_0340 0.89 +1.4
413,674 + PP_0340 0.90 +0.8
413,761 - +0.8
413,761 - +1.5
413,852 + +1.4
413,853 - +1.0
413,974 - +0.3
413,995 - -0.7
414,022 + -2.6
414,022 + +0.8
414,079 - -0.1
414,094 + +0.6
414,110 + -0.2
414,178 + -1.5
414,178 + -0.1

Or see this region's nucleotide sequence