Strain Fitness in Pseudomonas putida KT2440 around PP_0429

Experiment: Plant=Zea_mays; PlantTreatment=25mM_NaCl; 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_0427 and PP_0428 are separated by 65 nucleotidesPP_0428 and PP_0429 are separated by 63 nucleotidesPP_0429 and PP_0430 are separated by 67 nucleotides PP_0427: PP_0427 - 2-nonaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase, at 515,094 to 515,741 _0427 PP_0428: PP_0428 - aminoacyl-adenylate hydrolase/purine nucleoside phosphoramidase, at 515,807 to 516,145 _0428 PP_0429: PP_0429 - Oxidoreductase, short chain dehydrogenase/reductase family, at 516,209 to 516,991 _0429 PP_0430: PP_0430 - conserved protein of unknown function, at 517,059 to 518,015 _0430 Position (kb) 516 517Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 515.723 kb on - strandat 515.774 kb on + strandat 515.782 kb on + strandat 515.851 kb on + strand, within PP_0428at 515.851 kb on + strand, within PP_0428at 515.851 kb on + strand, within PP_0428at 515.851 kb on + strand, within PP_0428at 515.851 kb on + strand, within PP_0428at 515.852 kb on - strand, within PP_0428at 515.852 kb on - strand, within PP_0428at 515.852 kb on - strand, within PP_0428at 515.852 kb on - strand, within PP_0428at 515.863 kb on - strand, within PP_0428at 516.090 kb on + strand, within PP_0428at 516.090 kb on + strand, within PP_0428at 516.090 kb on + strand, within PP_0428at 516.090 kb on + strand, within PP_0428at 516.090 kb on + strand, within PP_0428at 516.091 kb on - strand, within PP_0428at 516.091 kb on - strand, within PP_0428at 516.091 kb on - strand, within PP_0428at 516.091 kb on - strand, within PP_0428at 516.097 kb on + strand, within PP_0428at 516.097 kb on + strand, within PP_0428at 516.097 kb on + strand, within PP_0428at 516.097 kb on + strand, within PP_0428at 516.097 kb on + strand, within PP_0428at 516.098 kb on - strand, within PP_0428at 516.098 kb on - strand, within PP_0428at 516.098 kb on - strand, within PP_0428at 516.098 kb on - strand, within PP_0428at 516.098 kb on - strand, within PP_0428at 516.134 kb on + strandat 516.135 kb on - strandat 516.135 kb on - strandat 516.181 kb on - strandat 516.210 kb on + strandat 516.210 kb on + strandat 516.520 kb on - strand, within PP_0429at 516.608 kb on + strand, within PP_0429at 516.608 kb on + strand, within PP_0429at 516.608 kb on + strand, within PP_0429at 516.609 kb on - strand, within PP_0429at 516.714 kb on + strand, within PP_0429at 516.714 kb on + strand, within PP_0429at 516.714 kb on + strand, within PP_0429at 516.714 kb on + strand, within PP_0429at 516.714 kb on + strand, within PP_0429at 516.715 kb on - strand, within PP_0429at 516.715 kb on - strand, within PP_0429at 516.715 kb on - strand, within PP_0429at 516.715 kb on - strand, within PP_0429at 516.776 kb on + strand, within PP_0429at 516.777 kb on - strand, within PP_0429at 516.777 kb on - strand, within PP_0429at 517.022 kb on + strandat 517.022 kb on + strandat 517.023 kb on - strandat 517.027 kb on + strandat 517.027 kb on + strandat 517.028 kb on - strandat 517.028 kb on - strandat 517.028 kb on - strandat 517.028 kb on - strandat 517.060 kb on + strandat 517.188 kb on + strand, within PP_0430at 517.188 kb on + strand, within PP_0430at 517.188 kb on + strand, within PP_0430at 517.189 kb on - strand, within PP_0430at 517.189 kb on - strand, within PP_0430at 517.189 kb on - strand, within PP_0430at 517.189 kb on - strand, within PP_0430at 517.426 kb on + strand, within PP_0430at 517.426 kb on + strand, within PP_0430at 517.426 kb on + strand, within PP_0430at 517.427 kb on - strand, within PP_0430at 517.427 kb on - strand, within PP_0430at 517.427 kb on - strand, within PP_0430at 517.427 kb on - strand, within PP_0430at 517.478 kb on + strand, within PP_0430at 517.478 kb on + strand, within PP_0430at 517.479 kb on - strand, within PP_0430at 517.695 kb on + strand, within PP_0430at 517.695 kb on + strand, within PP_0430at 517.695 kb on + strand, within PP_0430at 517.696 kb on - strand, within PP_0430at 517.696 kb on - strand, within PP_0430at 517.726 kb on - strand, within PP_0430at 517.726 kb on - strand, within PP_0430at 517.726 kb on - strand, within PP_0430at 517.801 kb on + strand, within PP_0430

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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515,723 - -0.5
515,774 + +0.2
515,782 + +2.4
515,851 + PP_0428 0.13 -0.5
515,851 + PP_0428 0.13 +0.8
515,851 + PP_0428 0.13 +0.4
515,851 + PP_0428 0.13 -0.3
515,851 + PP_0428 0.13 -0.7
515,852 - PP_0428 0.13 +5.0
515,852 - PP_0428 0.13 -0.4
515,852 - PP_0428 0.13 -0.3
515,852 - PP_0428 0.13 -0.4
515,863 - PP_0428 0.17 -1.4
516,090 + PP_0428 0.83 -1.5
516,090 + PP_0428 0.83 -1.6
516,090 + PP_0428 0.83 +0.3
516,090 + PP_0428 0.83 +0.9
516,090 + PP_0428 0.83 +0.5
516,091 - PP_0428 0.84 +0.5
516,091 - PP_0428 0.84 -0.9
516,091 - PP_0428 0.84 -1.5
516,091 - PP_0428 0.84 +0.3
516,097 + PP_0428 0.86 +0.9
516,097 + PP_0428 0.86 -0.1
516,097 + PP_0428 0.86 -0.1
516,097 + PP_0428 0.86 -1.5
516,097 + PP_0428 0.86 +0.5
516,098 - PP_0428 0.86 +1.0
516,098 - PP_0428 0.86 -0.5
516,098 - PP_0428 0.86 +1.3
516,098 - PP_0428 0.86 +0.4
516,098 - PP_0428 0.86 +0.5
516,134 + +1.5
516,135 - +0.3
516,135 - -0.6
516,181 - -0.1
516,210 + +1.0
516,210 + +0.2
516,520 - PP_0429 0.40 +1.2
516,608 + PP_0429 0.51 -1.4
516,608 + PP_0429 0.51 -0.4
516,608 + PP_0429 0.51 +0.3
516,609 - PP_0429 0.51 +1.6
516,714 + PP_0429 0.64 -0.3
516,714 + PP_0429 0.64 -0.5
516,714 + PP_0429 0.64 +1.0
516,714 + PP_0429 0.64 -0.1
516,714 + PP_0429 0.64 -0.2
516,715 - PP_0429 0.65 +1.6
516,715 - PP_0429 0.65 +0.1
516,715 - PP_0429 0.65 -3.1
516,715 - PP_0429 0.65 -1.1
516,776 + PP_0429 0.72 -0.2
516,777 - PP_0429 0.73 -0.6
516,777 - PP_0429 0.73 +0.7
517,022 + -0.2
517,022 + +0.3
517,023 - +0.3
517,027 + -1.7
517,027 + +0.1
517,028 - +1.2
517,028 - +0.2
517,028 - -0.1
517,028 - -0.5
517,060 + -0.3
517,188 + PP_0430 0.13 -1.4
517,188 + PP_0430 0.13 -1.1
517,188 + PP_0430 0.13 -0.2
517,189 - PP_0430 0.14 +0.6
517,189 - PP_0430 0.14 +0.1
517,189 - PP_0430 0.14 -0.4
517,189 - PP_0430 0.14 +0.3
517,426 + PP_0430 0.38 +0.1
517,426 + PP_0430 0.38 +0.5
517,426 + PP_0430 0.38 +0.6
517,427 - PP_0430 0.38 +0.0
517,427 - PP_0430 0.38 -0.2
517,427 - PP_0430 0.38 -0.7
517,427 - PP_0430 0.38 +0.3
517,478 + PP_0430 0.44 -0.5
517,478 + PP_0430 0.44 +0.3
517,479 - PP_0430 0.44 -1.8
517,695 + PP_0430 0.66 -0.1
517,695 + PP_0430 0.66 +1.2
517,695 + PP_0430 0.66 +0.9
517,696 - PP_0430 0.67 +0.2
517,696 - PP_0430 0.67 +0.2
517,726 - PP_0430 0.70 -0.3
517,726 - PP_0430 0.70 +1.1
517,726 - PP_0430 0.70 +0.0
517,801 + PP_0430 0.78 +1.0

Or see this region's nucleotide sequence