Strain Fitness in Pseudomonas putida KT2440 around PP_0286

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_5440 and PP_t72 are separated by 188 nucleotidesPP_t72 and PP_0285 are separated by 90 nucleotidesPP_0285 and PP_0286 overlap by 4 nucleotidesPP_0286 and PP_0287 overlap by 4 nucleotides PP_5440: PP_5440 - conserved protein of unknown function, at 343,684 to 343,911 _5440 PP_t72: PP_t72 - tRNA-Phe, at 344,100 to 344,175 _t72 PP_0285: PP_0285 - Fe(2+)-trafficking protein, at 344,266 to 344,538 _0285 PP_0286: PP_0286 - adenine glycosylase, at 344,535 to 345,602 _0286 PP_0287: PP_0287 - conserved exported protein of unknown function, at 345,599 to 347,845 _0287 Position (kb) 344 345 346Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5at 343.548 kb on + strandat 343.548 kb on + strandat 343.548 kb on + strandat 343.548 kb on + strandat 343.548 kb on + strandat 343.548 kb on + strandat 343.549 kb on - strandat 343.549 kb on - strandat 343.549 kb on - strandat 343.553 kb on - strandat 343.553 kb on - strandat 343.561 kb on + strandat 343.583 kb on + strandat 343.584 kb on - strandat 343.584 kb on - strandat 343.584 kb on - strandat 343.584 kb on - strandat 343.669 kb on + strandat 343.669 kb on + strandat 343.697 kb on - strandat 343.717 kb on + strand, within PP_5440at 343.717 kb on + strand, within PP_5440at 343.739 kb on - strand, within PP_5440at 343.739 kb on - strand, within PP_5440at 343.739 kb on - strand, within PP_5440at 343.739 kb on - strand, within PP_5440at 343.741 kb on + strand, within PP_5440at 343.742 kb on - strand, within PP_5440at 343.779 kb on + strand, within PP_5440at 343.779 kb on + strand, within PP_5440at 343.780 kb on - strand, within PP_5440at 343.852 kb on + strand, within PP_5440at 343.852 kb on + strand, within PP_5440at 343.853 kb on - strand, within PP_5440at 343.853 kb on - strand, within PP_5440at 343.853 kb on - strand, within PP_5440at 343.909 kb on + strandat 343.909 kb on + strandat 343.910 kb on - strandat 343.961 kb on + strandat 343.962 kb on - strandat 344.286 kb on - strandat 344.511 kb on - strandat 344.633 kb on - strandat 344.633 kb on - strandat 344.633 kb on - strandat 344.633 kb on - strandat 344.861 kb on - strand, within PP_0286at 345.026 kb on + strand, within PP_0286at 345.064 kb on + strand, within PP_0286at 345.065 kb on - strand, within PP_0286at 345.089 kb on + strand, within PP_0286at 345.111 kb on + strand, within PP_0286at 345.111 kb on + strand, within PP_0286at 345.112 kb on - strand, within PP_0286at 345.112 kb on - strand, within PP_0286at 345.112 kb on - strandat 345.160 kb on + strand, within PP_0286at 345.160 kb on + strand, within PP_0286at 345.161 kb on - strand, within PP_0286at 345.270 kb on - strand, within PP_0286at 345.355 kb on + strand, within PP_0286at 345.355 kb on + strand, within PP_0286at 345.356 kb on - strand, within PP_0286at 345.356 kb on - strand, within PP_0286at 345.356 kb on - strand, within PP_0286at 345.358 kb on + strand, within PP_0286at 345.451 kb on + strand, within PP_0286at 345.452 kb on - strand, within PP_0286at 345.452 kb on - strand, within PP_0286at 345.452 kb on - strand, within PP_0286at 345.562 kb on + strandat 345.810 kb on + strandat 345.810 kb on + strandat 345.811 kb on - strandat 345.811 kb on - strandat 345.882 kb on + strand, within PP_0287at 345.882 kb on + strand, within PP_0287at 345.882 kb on + strand, within PP_0287at 345.882 kb on - strand, within PP_0287at 345.883 kb on - strand, within PP_0287at 345.883 kb on - strand, within PP_0287at 345.883 kb on - strand, within PP_0287at 346.353 kb on + strand, within PP_0287at 346.353 kb on + strand, within PP_0287at 346.353 kb on + strand, within PP_0287at 346.353 kb on + strandat 346.354 kb on - strand, within PP_0287at 346.354 kb on - strand, within PP_0287at 346.436 kb on - strand, within PP_0287

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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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343,548 + +2.3
343,548 + +1.0
343,548 + -0.4
343,548 + +0.2
343,548 + +2.4
343,548 + -0.3
343,549 - +1.4
343,549 - -0.2
343,549 - -0.1
343,553 - +0.1
343,553 - -0.3
343,561 + +0.4
343,583 + +0.4
343,584 - +0.7
343,584 - -1.5
343,584 - -0.1
343,584 - +1.9
343,669 + +2.0
343,669 + +0.8
343,697 - +2.5
343,717 + PP_5440 0.14 +1.7
343,717 + PP_5440 0.14 -0.1
343,739 - PP_5440 0.24 +0.6
343,739 - PP_5440 0.24 -1.4
343,739 - PP_5440 0.24 +0.6
343,739 - PP_5440 0.24 +1.8
343,741 + PP_5440 0.25 +1.9
343,742 - PP_5440 0.25 +2.6
343,779 + PP_5440 0.42 -0.3
343,779 + PP_5440 0.42 -1.3
343,780 - PP_5440 0.42 +0.6
343,852 + PP_5440 0.74 -0.1
343,852 + PP_5440 0.74 +1.1
343,853 - PP_5440 0.74 +1.1
343,853 - PP_5440 0.74 -0.2
343,853 - PP_5440 0.74 +0.5
343,909 + -1.9
343,909 + -1.4
343,910 - -1.5
343,961 + +0.8
343,962 - -0.5
344,286 - +0.4
344,511 - +2.1
344,633 - +0.5
344,633 - +0.3
344,633 - -2.2
344,633 - +0.8
344,861 - PP_0286 0.31 -0.6
345,026 + PP_0286 0.46 +0.8
345,064 + PP_0286 0.50 -0.3
345,065 - PP_0286 0.50 -1.4
345,089 + PP_0286 0.52 -0.9
345,111 + PP_0286 0.54 +1.9
345,111 + PP_0286 0.54 +0.2
345,112 - PP_0286 0.54 +2.0
345,112 - PP_0286 0.54 +0.8
345,112 - +0.9
345,160 + PP_0286 0.59 -0.6
345,160 + PP_0286 0.59 +0.4
345,161 - PP_0286 0.59 +0.7
345,270 - PP_0286 0.69 -1.1
345,355 + PP_0286 0.77 +0.2
345,355 + PP_0286 0.77 +0.2
345,356 - PP_0286 0.77 +1.9
345,356 - PP_0286 0.77 -2.0
345,356 - PP_0286 0.77 +5.0
345,358 + PP_0286 0.77 -0.9
345,451 + PP_0286 0.86 +2.4
345,452 - PP_0286 0.86 +1.4
345,452 - PP_0286 0.86 +1.1
345,452 - PP_0286 0.86 -0.4
345,562 + +1.6
345,810 + -0.4
345,810 + +0.1
345,811 - +0.5
345,811 - -0.5
345,882 + PP_0287 0.13 +0.9
345,882 + PP_0287 0.13 +1.0
345,882 + PP_0287 0.13 -1.8
345,882 - PP_0287 0.13 +2.1
345,883 - PP_0287 0.13 -0.4
345,883 - PP_0287 0.13 -0.7
345,883 - PP_0287 0.13 +1.6
346,353 + PP_0287 0.34 -2.1
346,353 + PP_0287 0.34 -0.5
346,353 + PP_0287 0.34 +2.3
346,353 + +1.9
346,354 - PP_0287 0.34 -0.9
346,354 - PP_0287 0.34 -1.0
346,436 - PP_0287 0.37 -2.3

Or see this region's nucleotide sequence