Strain Fitness in Pseudomonas putida KT2440 around PP_0626

Experiment: Plant=Zea_mays; PlantTreatment=34_degrees_celsius; 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_0625 and PP_t07 are separated by 362 nucleotidesPP_t07 and PP_t08 are separated by 4 nucleotidesPP_t08 and PP_t09 are separated by 6 nucleotidesPP_t09 and PP_t10 are separated by 46 nucleotidesPP_t10 and PP_t11 are separated by 5 nucleotidesPP_t11 and PP_0626 are separated by 190 nucleotidesPP_0626 and PP_0627 are separated by 84 nucleotidesPP_0627 and PP_0628 are separated by 132 nucleotides PP_0625: PP_0625 - Chaperone protein ClpB, at 730,461 to 733,025 _0625 PP_t07: PP_t07 - tRNA-Asn, at 733,388 to 733,463 _t07 PP_t08: PP_t08 - tRNA-Pro, at 733,468 to 733,544 _t08 PP_t09: PP_t09 - tRNA-Lys, at 733,551 to 733,626 _t09 PP_t10: PP_t10 - tRNA-Pro, at 733,673 to 733,749 _t10 PP_t11: PP_t11 - tRNA-Lys, at 733,755 to 733,830 _t11 PP_0626: PP_0626 - NADH dehydrogenase, at 734,021 to 735,316 _0626 PP_0627: PP_0627 - conserved protein of unknown function, at 735,401 to 735,574 _0627 PP_0628: PP_0628 - conserved protein of unknown function, at 735,707 to 736,336 _0628 Position (kb) 734 735 736Strain fitness (log2 ratio) -2 -1 0 1 2at 733.179 kb on + strandat 733.181 kb on + strandat 733.181 kb on + strandat 733.181 kb on + strandat 733.475 kb on + strandat 733.475 kb on + strandat 733.629 kb on + strandat 733.681 kb on - strand, within PP_t10at 733.681 kb on - strand, within PP_t10at 733.763 kb on - strand, within PP_t11at 733.763 kb on - strand, within PP_t11at 733.775 kb on - strand, within PP_t11at 733.775 kb on - strand, within PP_t11at 733.775 kb on - strand, within PP_t11at 733.912 kb on + strandat 733.913 kb on - strandat 733.913 kb on - strandat 733.930 kb on + strandat 733.931 kb on - strandat 733.931 kb on - strandat 733.934 kb on + strandat 733.934 kb on + strandat 733.934 kb on + strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.935 kb on - strandat 733.989 kb on - strandat 734.022 kb on + strandat 734.023 kb on - strandat 734.100 kb on + strandat 734.124 kb on + strandat 734.124 kb on + strandat 734.136 kb on + strandat 734.136 kb on + strandat 734.137 kb on - strandat 734.137 kb on - strandat 734.137 kb on - strandat 734.137 kb on - strandat 734.137 kb on - strandat 734.238 kb on + strand, within PP_0626at 734.238 kb on + strand, within PP_0626at 734.239 kb on - strand, within PP_0626at 734.239 kb on - strand, within PP_0626at 734.247 kb on + strand, within PP_0626at 734.248 kb on - strand, within PP_0626at 734.253 kb on + strand, within PP_0626at 734.254 kb on - strandat 734.254 kb on - strand, within PP_0626at 734.254 kb on - strand, within PP_0626at 734.254 kb on - strand, within PP_0626at 734.254 kb on - strand, within PP_0626at 734.347 kb on + strand, within PP_0626at 734.731 kb on - strand, within PP_0626at 734.731 kb on - strand, within PP_0626at 734.777 kb on + strand, within PP_0626at 734.778 kb on - strand, within PP_0626at 734.807 kb on + strand, within PP_0626at 734.853 kb on + strand, within PP_0626at 735.123 kb on + strand, within PP_0626at 735.123 kb on + strand, within PP_0626at 735.124 kb on - strand, within PP_0626at 735.124 kb on - strand, within PP_0626at 735.251 kb on - strandat 735.322 kb on + strandat 735.329 kb on + strandat 735.329 kb on + strandat 735.330 kb on - strandat 735.330 kb on - strandat 735.330 kb on - strandat 735.405 kb on - strandat 735.405 kb on - strandat 735.405 kb on - strandat 735.528 kb on + strand, within PP_0627at 735.528 kb on + strand, within PP_0627at 735.529 kb on - strand, within PP_0627at 735.529 kb on - strand, within PP_0627at 735.591 kb on + strandat 735.659 kb on + strandat 735.677 kb on + strandat 735.678 kb on - strandat 735.722 kb on + strandat 735.722 kb on + strandat 735.723 kb on - strandat 735.846 kb on + strand, within PP_0628at 735.847 kb on - strand, within PP_0628at 736.204 kb on - strand, within PP_0628at 736.261 kb on + strand, within PP_0628at 736.262 kb on - strand, within PP_0628at 736.306 kb on + strandat 736.307 kb on - strandat 736.307 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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733,179 + -1.2
733,181 + +1.4
733,181 + -1.3
733,181 + +0.1
733,475 + +0.8
733,475 + -0.2
733,629 + +1.0
733,681 - PP_t10 0.10 -2.1
733,681 - PP_t10 0.10 -0.1
733,763 - PP_t11 0.11 +2.1
733,763 - PP_t11 0.11 -0.2
733,775 - PP_t11 0.26 +0.6
733,775 - PP_t11 0.26 +2.4
733,775 - PP_t11 0.26 -1.3
733,912 + -1.0
733,913 - -0.6
733,913 - -1.4
733,930 + +0.1
733,931 - +1.1
733,931 - +0.3
733,934 + +1.0
733,934 + -0.9
733,934 + -0.6
733,935 - -0.2
733,935 - +0.5
733,935 - -0.1
733,935 - -1.2
733,935 - -0.0
733,935 - +0.3
733,935 - +0.4
733,935 - +0.5
733,989 - -1.2
734,022 + -1.7
734,023 - -0.4
734,100 + -0.6
734,124 + +0.7
734,124 + -0.2
734,136 + -0.5
734,136 + -1.2
734,137 - +0.3
734,137 - +0.6
734,137 - +1.4
734,137 - -1.9
734,137 - +0.0
734,238 + PP_0626 0.17 -0.4
734,238 + PP_0626 0.17 -1.0
734,239 - PP_0626 0.17 -0.9
734,239 - PP_0626 0.17 +1.2
734,247 + PP_0626 0.17 -1.0
734,248 - PP_0626 0.18 -1.3
734,253 + PP_0626 0.18 -0.2
734,254 - +0.8
734,254 - PP_0626 0.18 +1.4
734,254 - PP_0626 0.18 -0.3
734,254 - PP_0626 0.18 -0.7
734,254 - PP_0626 0.18 -2.3
734,347 + PP_0626 0.25 -0.2
734,731 - PP_0626 0.55 -1.0
734,731 - PP_0626 0.55 -0.5
734,777 + PP_0626 0.58 -0.7
734,778 - PP_0626 0.58 +0.6
734,807 + PP_0626 0.61 +0.5
734,853 + PP_0626 0.64 -0.7
735,123 + PP_0626 0.85 -0.6
735,123 + PP_0626 0.85 -1.0
735,124 - PP_0626 0.85 +0.8
735,124 - PP_0626 0.85 -0.8
735,251 - +0.0
735,322 + -0.5
735,329 + +0.1
735,329 + -0.7
735,330 - +1.8
735,330 - -1.2
735,330 - +1.4
735,405 - -2.5
735,405 - +0.6
735,405 - -0.7
735,528 + PP_0627 0.73 -1.4
735,528 + PP_0627 0.73 -1.4
735,529 - PP_0627 0.74 -0.2
735,529 - PP_0627 0.74 +0.3
735,591 + +0.8
735,659 + +1.2
735,677 + +0.5
735,678 - +0.3
735,722 + +0.3
735,722 + -0.4
735,723 - +0.6
735,846 + PP_0628 0.22 -1.9
735,847 - PP_0628 0.22 -1.1
736,204 - PP_0628 0.79 -2.2
736,261 + PP_0628 0.88 -2.2
736,262 - PP_0628 0.88 -1.5
736,306 + +1.4
736,307 - -0.8
736,307 - -2.5

Or see this region's nucleotide sequence