Strain Fitness in Pseudomonas putida KT2440 around PP_1259

Experiment: Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=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_1257 and PP_1258 are separated by 42 nucleotidesPP_1258 and PP_1259 are separated by 23 nucleotidesPP_1259 and PP_1260 are separated by 658 nucleotides PP_1257: PP_1257 - putative 1-pyrroline-4-hydroxy-2-carboxylate deaminase, at 1,436,116 to 1,437,063 _1257 PP_1258: PP_1258 - 4-hydroxyproline epimerase, at 1,437,106 to 1,438,032 _1258 PP_1259: PP_1259 - Aspartate-proton symporter, at 1,438,056 to 1,439,669 _1259 PP_1260: PP_1260 - transposase, at 1,440,328 to 1,441,656 _1260 Position (kb) 1438 1439 1440Strain fitness (log2 ratio) -2 -1 0 1at 1437.168 kb on - strandat 1437.168 kb on - strandat 1437.168 kb on - strandat 1437.341 kb on + strand, within PP_1258at 1437.342 kb on - strand, within PP_1258at 1437.342 kb on - strand, within PP_1258at 1437.342 kb on - strand, within PP_1258at 1437.479 kb on + strand, within PP_1258at 1437.480 kb on - strand, within PP_1258at 1437.736 kb on + strand, within PP_1258at 1437.737 kb on - strand, within PP_1258at 1437.843 kb on - strand, within PP_1258at 1437.843 kb on - strand, within PP_1258at 1438.023 kb on + strandat 1438.049 kb on + strandat 1438.050 kb on - strandat 1438.085 kb on + strandat 1438.168 kb on + strandat 1438.171 kb on + strandat 1438.172 kb on - strandat 1438.172 kb on - strandat 1438.172 kb on - strandat 1438.172 kb on - strandat 1438.424 kb on - strand, within PP_1259at 1438.550 kb on - strand, within PP_1259at 1438.550 kb on - strand, within PP_1259at 1438.724 kb on - strand, within PP_1259at 1438.750 kb on + strand, within PP_1259at 1438.750 kb on + strand, within PP_1259at 1438.750 kb on + strand, within PP_1259at 1438.750 kb on + strand, within PP_1259at 1438.751 kb on - strand, within PP_1259at 1438.751 kb on - strand, within PP_1259at 1438.751 kb on - strand, within PP_1259at 1438.751 kb on - strand, within PP_1259at 1438.751 kb on - strand, within PP_1259at 1438.802 kb on - strand, within PP_1259at 1439.042 kb on - strand, within PP_1259at 1439.148 kb on + strand, within PP_1259at 1439.338 kb on + strand, within PP_1259at 1439.411 kb on - strand, within PP_1259at 1439.434 kb on + strand, within PP_1259at 1439.491 kb on + strand, within PP_1259at 1439.491 kb on + strand, within PP_1259at 1439.492 kb on - strand, within PP_1259at 1439.512 kb on - strandat 1439.643 kb on + strandat 1439.643 kb on + strandat 1439.643 kb on + strandat 1439.698 kb on - strandat 1439.772 kb on + strandat 1439.772 kb on + strandat 1439.995 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays-B73; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=0.5X_MS_agar; Collection=outgrowth_LB; Time=7_days
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1,437,168 - +1.5
1,437,168 - -1.6
1,437,168 - -1.9
1,437,341 + PP_1258 0.25 +1.2
1,437,342 - PP_1258 0.25 +0.3
1,437,342 - PP_1258 0.25 +0.8
1,437,342 - PP_1258 0.25 -1.3
1,437,479 + PP_1258 0.40 -1.0
1,437,480 - PP_1258 0.40 -0.0
1,437,736 + PP_1258 0.68 -0.0
1,437,737 - PP_1258 0.68 +1.0
1,437,843 - PP_1258 0.80 -0.0
1,437,843 - PP_1258 0.80 +0.5
1,438,023 + +0.4
1,438,049 + +0.9
1,438,050 - -0.0
1,438,085 + +0.9
1,438,168 + +0.5
1,438,171 + -0.6
1,438,172 - -1.5
1,438,172 - +0.2
1,438,172 - -0.0
1,438,172 - -0.9
1,438,424 - PP_1259 0.23 +0.1
1,438,550 - PP_1259 0.31 +1.3
1,438,550 - PP_1259 0.31 -0.3
1,438,724 - PP_1259 0.41 -0.0
1,438,750 + PP_1259 0.43 +1.4
1,438,750 + PP_1259 0.43 +1.4
1,438,750 + PP_1259 0.43 -0.2
1,438,750 + PP_1259 0.43 +0.5
1,438,751 - PP_1259 0.43 +0.6
1,438,751 - PP_1259 0.43 -0.5
1,438,751 - PP_1259 0.43 -2.6
1,438,751 - PP_1259 0.43 +0.0
1,438,751 - PP_1259 0.43 -1.3
1,438,802 - PP_1259 0.46 -0.8
1,439,042 - PP_1259 0.61 +0.2
1,439,148 + PP_1259 0.68 +1.0
1,439,338 + PP_1259 0.79 -1.5
1,439,411 - PP_1259 0.84 +0.0
1,439,434 + PP_1259 0.85 -1.0
1,439,491 + PP_1259 0.89 -1.6
1,439,491 + PP_1259 0.89 +0.2
1,439,492 - PP_1259 0.89 +1.4
1,439,512 - -0.8
1,439,643 + -0.2
1,439,643 + +0.2
1,439,643 + +1.6
1,439,698 - -0.5
1,439,772 + -0.6
1,439,772 + -1.7
1,439,995 - -0.9

Or see this region's nucleotide sequence