Strain Fitness in Pseudomonas putida KT2440 around PP_0502

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_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_0500 and PP_0501 overlap by 8 nucleotidesPP_0501 and PP_0502 are separated by 30 nucleotidesPP_0502 and PP_0503 are separated by 102 nucleotides PP_0500: PP_0500 - dTDP-4-rhamnose reductase-related protein, at 589,877 to 590,761 _0500 PP_0501: PP_0501 - NAD-dependent epimerase/dehydratase family protein, at 590,754 to 591,686 _0501 PP_0502: PP_0502 - conserved protein of unknown function, at 591,717 to 592,160 _0502 PP_0503: PP_0503 - Major facilitator family transporter, at 592,263 to 593,468 _0503 Position (kb) 591 592 593Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 591.759 kb on + strandat 591.759 kb on + strandat 591.759 kb on + strandat 591.759 kb on + strandat 591.759 kb on + strandat 591.760 kb on - strandat 591.760 kb on - strandat 591.760 kb on - strandat 591.760 kb on - strandat 591.793 kb on - strand, within PP_0502at 591.928 kb on + strand, within PP_0502at 591.929 kb on - strand, within PP_0502at 591.936 kb on - strand, within PP_0502at 591.937 kb on + strand, within PP_0502at 591.937 kb on + strand, within PP_0502at 591.938 kb on - strand, within PP_0502at 591.997 kb on - strand, within PP_0502at 592.111 kb on - strand, within PP_0502at 592.111 kb on - strand, within PP_0502at 592.211 kb on - strandat 592.214 kb on + strandat 592.215 kb on - strandat 592.289 kb on - strandat 592.335 kb on + strandat 592.335 kb on + strandat 592.336 kb on - strandat 592.336 kb on - strandat 592.429 kb on - strand, within PP_0503at 592.555 kb on + strand, within PP_0503at 592.555 kb on + strand, within PP_0503at 592.556 kb on - strand, within PP_0503at 592.556 kb on - strand, within PP_0503at 592.556 kb on - strand, within PP_0503at 592.752 kb on + strand, within PP_0503at 593.090 kb on + strand, within PP_0503at 593.091 kb on - strand, within PP_0503at 593.091 kb on - strand, within PP_0503

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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=0_hrs
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591,759 + -1.5
591,759 + -2.7
591,759 + +1.6
591,759 + +1.4
591,759 + -0.6
591,760 - -0.5
591,760 - -4.4
591,760 - -3.1
591,760 - -0.4
591,793 - PP_0502 0.17 -4.0
591,928 + PP_0502 0.48 -1.4
591,929 - PP_0502 0.48 -0.3
591,936 - PP_0502 0.49 +0.3
591,937 + PP_0502 0.50 -2.6
591,937 + PP_0502 0.50 -2.4
591,938 - PP_0502 0.50 -2.2
591,997 - PP_0502 0.63 -0.2
592,111 - PP_0502 0.89 -0.8
592,111 - PP_0502 0.89 -2.6
592,211 - +0.4
592,214 + -0.9
592,215 - +1.4
592,289 - -3.2
592,335 + +1.8
592,335 + -1.6
592,336 - -0.5
592,336 - -0.6
592,429 - PP_0503 0.14 -0.8
592,555 + PP_0503 0.24 -4.1
592,555 + PP_0503 0.24 +0.2
592,556 - PP_0503 0.24 +0.1
592,556 - PP_0503 0.24 -2.7
592,556 - PP_0503 0.24 +1.5
592,752 + PP_0503 0.41 -3.4
593,090 + PP_0503 0.69 -0.2
593,091 - PP_0503 0.69 +2.4
593,091 - PP_0503 0.69 +0.6

Or see this region's nucleotide sequence