Strain Fitness in Pseudomonas putida KT2440 around PP_4680

Experiment: Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days

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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_4678 and PP_4679 are separated by 56 nucleotidesPP_4679 and PP_4680 are separated by 1 nucleotidesPP_4680 and PP_4681 are separated by 408 nucleotidesPP_4681 and PP_4682 overlap by 4 nucleotides PP_4678: PP_4678 - Ketol-acid reductoisomerase, at 5,316,083 to 5,317,099 _4678 PP_4679: PP_4679 - acetohydroxybutanoate synthase / acetolactate synthase, at 5,317,156 to 5,317,647 _4679 PP_4680: PP_4680 - acetohydroxybutanoate synthase / acetolactate synthase, at 5,317,649 to 5,319,373 _4680 PP_4681: PP_4681 - conserved protein of unknown function, at 5,319,782 to 5,320,117 _4681 PP_4682: PP_4682 - conserved protein of unknown function containing tetratricopeptide repeat domain, at 5,320,114 to 5,320,914 _4682 Position (kb) 5317 5318 5319 5320Strain fitness (log2 ratio) -3 -2 -1 0 1at 5316.762 kb on + strand, within PP_4678at 5316.762 kb on + strand, within PP_4678at 5316.762 kb on + strand, within PP_4678at 5316.834 kb on + strand, within PP_4678at 5316.834 kb on + strand, within PP_4678at 5316.834 kb on + strand, within PP_4678at 5316.835 kb on - strand, within PP_4678at 5316.835 kb on - strand, within PP_4678at 5316.899 kb on - strand, within PP_4678at 5316.958 kb on + strand, within PP_4678at 5316.959 kb on - strand, within PP_4678at 5316.959 kb on - strand, within PP_4678at 5316.959 kb on - strand, within PP_4678at 5316.980 kb on + strand, within PP_4678at 5316.980 kb on + strand, within PP_4678at 5317.051 kb on + strandat 5317.052 kb on - strandat 5317.082 kb on - strandat 5317.115 kb on + strandat 5317.116 kb on - strandat 5317.117 kb on + strandat 5317.117 kb on + strandat 5317.117 kb on + strandat 5317.289 kb on + strand, within PP_4679at 5317.289 kb on + strand, within PP_4679at 5317.290 kb on - strand, within PP_4679at 5317.290 kb on - strand, within PP_4679at 5317.329 kb on + strand, within PP_4679at 5317.330 kb on - strand, within PP_4679at 5317.330 kb on - strand, within PP_4679at 5317.544 kb on - strand, within PP_4679at 5317.565 kb on + strand, within PP_4679at 5317.565 kb on + strand, within PP_4679at 5317.565 kb on + strand, within PP_4679at 5317.566 kb on - strand, within PP_4679at 5317.566 kb on - strand, within PP_4679at 5317.566 kb on - strand, within PP_4679at 5317.566 kb on - strand, within PP_4679at 5317.566 kb on - strand, within PP_4679at 5317.654 kb on + strandat 5317.654 kb on + strandat 5317.654 kb on + strandat 5317.654 kb on + strandat 5317.654 kb on + strandat 5317.713 kb on + strandat 5317.836 kb on + strand, within PP_4680at 5317.836 kb on + strand, within PP_4680at 5317.836 kb on + strand, within PP_4680at 5317.836 kb on + strand, within PP_4680at 5317.836 kb on + strand, within PP_4680at 5317.837 kb on - strand, within PP_4680at 5317.837 kb on - strand, within PP_4680at 5317.837 kb on - strand, within PP_4680at 5317.855 kb on + strand, within PP_4680at 5317.856 kb on - strand, within PP_4680at 5317.878 kb on + strand, within PP_4680at 5317.878 kb on + strand, within PP_4680at 5317.879 kb on - strand, within PP_4680at 5317.879 kb on - strand, within PP_4680at 5317.902 kb on + strand, within PP_4680at 5317.902 kb on + strand, within PP_4680at 5317.903 kb on - strand, within PP_4680at 5317.903 kb on - strand, within PP_4680at 5317.977 kb on + strand, within PP_4680at 5318.151 kb on + strand, within PP_4680at 5318.152 kb on - strand, within PP_4680at 5318.154 kb on + strand, within PP_4680at 5318.155 kb on - strand, within PP_4680at 5318.155 kb on - strand, within PP_4680at 5318.583 kb on + strand, within PP_4680at 5318.584 kb on - strand, within PP_4680at 5318.584 kb on - strand, within PP_4680at 5318.584 kb on - strand, within PP_4680at 5318.656 kb on + strand, within PP_4680at 5318.739 kb on + strand, within PP_4680at 5318.820 kb on + strand, within PP_4680at 5318.821 kb on - strand, within PP_4680at 5318.853 kb on + strand, within PP_4680at 5318.854 kb on - strand, within PP_4680at 5318.881 kb on + strand, within PP_4680at 5318.882 kb on - strand, within PP_4680at 5318.882 kb on - strand, within PP_4680at 5319.013 kb on + strand, within PP_4680at 5319.014 kb on - strand, within PP_4680at 5319.014 kb on - strand, within PP_4680at 5319.061 kb on + strand, within PP_4680at 5319.061 kb on + strand, within PP_4680at 5319.061 kb on + strand, within PP_4680at 5319.061 kb on + strand, within PP_4680at 5319.062 kb on - strand, within PP_4680at 5319.062 kb on - strand, within PP_4680at 5319.062 kb on - strand, within PP_4680at 5319.062 kb on - strand, within PP_4680at 5319.062 kb on - strand, within PP_4680at 5319.105 kb on + strand, within PP_4680at 5319.105 kb on + strand, within PP_4680at 5319.105 kb on + strand, within PP_4680at 5319.106 kb on - strand, within PP_4680at 5319.106 kb on - strand, within PP_4680at 5319.206 kb on - strandat 5319.274 kb on - strandat 5319.306 kb on + strandat 5319.306 kb on + strandat 5319.306 kb on + strandat 5319.307 kb on - strandat 5319.307 kb on - strandat 5319.307 kb on - strandat 5319.307 kb on - strandat 5319.362 kb on + strandat 5319.363 kb on - strandat 5319.386 kb on + strandat 5319.399 kb on + strandat 5319.422 kb on + strandat 5319.422 kb on + strandat 5319.425 kb on + strandat 5319.425 kb on + strandat 5319.426 kb on - strandat 5319.431 kb on + strandat 5319.432 kb on - strandat 5319.432 kb on - strandat 5319.477 kb on + strandat 5319.478 kb on - strandat 5319.543 kb on + strandat 5319.544 kb on - strandat 5319.607 kb on + strandat 5319.830 kb on + strand, within PP_4681at 5319.979 kb on + strand, within PP_4681at 5320.000 kb on + strand, within PP_4681at 5320.001 kb on - strand, within PP_4681at 5320.091 kb on - strandat 5320.236 kb on - strand, within PP_4682at 5320.310 kb on + strand, within PP_4682at 5320.310 kb on + strand, within PP_4682

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=34_degrees_celsius_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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5,316,762 + PP_4678 0.67 -0.9
5,316,762 + PP_4678 0.67 -2.1
5,316,762 + PP_4678 0.67 -1.6
5,316,834 + PP_4678 0.74 -2.4
5,316,834 + PP_4678 0.74 -3.4
5,316,834 + PP_4678 0.74 -1.5
5,316,835 - PP_4678 0.74 -1.2
5,316,835 - PP_4678 0.74 -2.1
5,316,899 - PP_4678 0.80 -2.2
5,316,958 + PP_4678 0.86 -2.6
5,316,959 - PP_4678 0.86 -0.8
5,316,959 - PP_4678 0.86 -2.6
5,316,959 - PP_4678 0.86 -1.6
5,316,980 + PP_4678 0.88 -1.1
5,316,980 + PP_4678 0.88 -2.0
5,317,051 + -1.5
5,317,052 - -2.0
5,317,082 - -2.8
5,317,115 + -2.1
5,317,116 - +1.4
5,317,117 + -1.2
5,317,117 + -1.6
5,317,117 + +0.4
5,317,289 + PP_4679 0.27 -0.0
5,317,289 + PP_4679 0.27 -0.6
5,317,290 - PP_4679 0.27 -1.1
5,317,290 - PP_4679 0.27 -1.7
5,317,329 + PP_4679 0.35 -2.7
5,317,330 - PP_4679 0.35 -2.5
5,317,330 - PP_4679 0.35 +0.7
5,317,544 - PP_4679 0.79 -2.0
5,317,565 + PP_4679 0.83 -1.2
5,317,565 + PP_4679 0.83 -1.2
5,317,565 + PP_4679 0.83 -1.5
5,317,566 - PP_4679 0.83 -2.5
5,317,566 - PP_4679 0.83 -0.3
5,317,566 - PP_4679 0.83 -1.1
5,317,566 - PP_4679 0.83 -1.8
5,317,566 - PP_4679 0.83 +0.7
5,317,654 + -2.6
5,317,654 + -3.0
5,317,654 + -3.1
5,317,654 + -2.6
5,317,654 + -2.3
5,317,713 + -3.0
5,317,836 + PP_4680 0.11 -1.6
5,317,836 + PP_4680 0.11 +0.7
5,317,836 + PP_4680 0.11 +1.0
5,317,836 + PP_4680 0.11 -2.5
5,317,836 + PP_4680 0.11 -2.8
5,317,837 - PP_4680 0.11 -1.2
5,317,837 - PP_4680 0.11 -2.5
5,317,837 - PP_4680 0.11 -1.6
5,317,855 + PP_4680 0.12 -3.2
5,317,856 - PP_4680 0.12 -1.8
5,317,878 + PP_4680 0.13 -0.9
5,317,878 + PP_4680 0.13 +1.1
5,317,879 - PP_4680 0.13 -1.8
5,317,879 - PP_4680 0.13 +0.1
5,317,902 + PP_4680 0.15 -1.8
5,317,902 + PP_4680 0.15 -1.1
5,317,903 - PP_4680 0.15 -0.9
5,317,903 - PP_4680 0.15 -1.4
5,317,977 + PP_4680 0.19 -1.9
5,318,151 + PP_4680 0.29 -2.4
5,318,152 - PP_4680 0.29 -0.3
5,318,154 + PP_4680 0.29 -2.8
5,318,155 - PP_4680 0.29 -2.8
5,318,155 - PP_4680 0.29 -1.5
5,318,583 + PP_4680 0.54 -1.3
5,318,584 - PP_4680 0.54 -3.1
5,318,584 - PP_4680 0.54 -3.7
5,318,584 - PP_4680 0.54 -1.2
5,318,656 + PP_4680 0.58 +1.7
5,318,739 + PP_4680 0.63 -1.0
5,318,820 + PP_4680 0.68 +1.7
5,318,821 - PP_4680 0.68 -0.6
5,318,853 + PP_4680 0.70 -0.9
5,318,854 - PP_4680 0.70 -0.9
5,318,881 + PP_4680 0.71 -0.1
5,318,882 - PP_4680 0.71 -1.3
5,318,882 - PP_4680 0.71 -1.8
5,319,013 + PP_4680 0.79 -2.9
5,319,014 - PP_4680 0.79 -0.9
5,319,014 - PP_4680 0.79 -0.6
5,319,061 + PP_4680 0.82 -0.6
5,319,061 + PP_4680 0.82 -3.3
5,319,061 + PP_4680 0.82 -2.8
5,319,061 + PP_4680 0.82 -0.5
5,319,062 - PP_4680 0.82 -2.6
5,319,062 - PP_4680 0.82 -2.1
5,319,062 - PP_4680 0.82 -2.0
5,319,062 - PP_4680 0.82 -2.3
5,319,062 - PP_4680 0.82 -0.5
5,319,105 + PP_4680 0.84 -0.3
5,319,105 + PP_4680 0.84 -1.9
5,319,105 + PP_4680 0.84 +0.1
5,319,106 - PP_4680 0.84 -2.2
5,319,106 - PP_4680 0.84 -1.7
5,319,206 - +0.4
5,319,274 - -3.2
5,319,306 + -2.4
5,319,306 + -1.9
5,319,306 + -1.1
5,319,307 - -1.6
5,319,307 - -1.9
5,319,307 - -1.7
5,319,307 - -2.6
5,319,362 + -2.8
5,319,363 - -1.8
5,319,386 + -3.0
5,319,399 + -1.9
5,319,422 + -3.7
5,319,422 + -2.5
5,319,425 + +0.8
5,319,425 + -2.9
5,319,426 - -0.1
5,319,431 + -0.4
5,319,432 - -2.1
5,319,432 - +1.4
5,319,477 + -1.2
5,319,478 - -1.0
5,319,543 + -2.5
5,319,544 - -0.5
5,319,607 + -1.4
5,319,830 + PP_4681 0.14 -1.6
5,319,979 + PP_4681 0.59 +1.0
5,320,000 + PP_4681 0.65 -0.3
5,320,001 - PP_4681 0.65 -0.0
5,320,091 - -2.6
5,320,236 - PP_4682 0.15 -0.0
5,320,310 + PP_4682 0.24 +0.6
5,320,310 + PP_4682 0.24 +1.2

Or see this region's nucleotide sequence