Strain Fitness in Pseudomonas putida KT2440 around PP_0620

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_0619 and PP_0620 are separated by 90 nucleotidesPP_0620 and PP_0621 are separated by 266 nucleotidesPP_0621 and PP_0622 are separated by 13 nucleotides PP_0619: PP_0619 - Branched-chain amino acid ABC transporter, periplasmic amino acid-binding protein, at 724,696 to 725,898 _0619 PP_0620: PP_0620 - GntR family transcriptional regulator, at 725,989 to 726,753 _0620 PP_0621: PP_0621 - conserved protein of unknown function, at 727,020 to 727,331 _0621 PP_0622: PP_0622 - Outer membrane protein assembly factor BamD, at 727,345 to 728,364 _0622 Position (kb) 725 726 727Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 725.000 kb on + strand, within PP_0619at 725.000 kb on + strand, within PP_0619at 725.000 kb on + strand, within PP_0619at 725.000 kb on + strand, within PP_0619at 725.060 kb on + strand, within PP_0619at 725.075 kb on + strand, within PP_0619at 725.075 kb on + strand, within PP_0619at 725.294 kb on + strand, within PP_0619at 725.295 kb on - strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.368 kb on + strand, within PP_0619at 725.369 kb on - strand, within PP_0619at 725.369 kb on - strand, within PP_0619at 725.372 kb on + strand, within PP_0619at 725.372 kb on + strand, within PP_0619at 725.373 kb on - strand, within PP_0619at 725.390 kb on + strand, within PP_0619at 725.391 kb on - strand, within PP_0619at 725.391 kb on - strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.453 kb on + strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.454 kb on - strand, within PP_0619at 725.750 kb on + strand, within PP_0619at 725.759 kb on + strand, within PP_0619at 725.759 kb on + strand, within PP_0619at 725.795 kb on + strandat 725.796 kb on - strandat 725.796 kb on - strandat 725.796 kb on - strandat 725.852 kb on - strandat 725.852 kb on - strandat 725.852 kb on - strandat 725.852 kb on - strandat 725.852 kb on - strandat 725.886 kb on + strandat 725.886 kb on + strandat 725.887 kb on - strandat 725.902 kb on + strandat 725.902 kb on + strandat 725.903 kb on - strandat 725.903 kb on - strandat 725.921 kb on - strandat 725.923 kb on + strandat 725.923 kb on + strandat 725.923 kb on + strandat 725.924 kb on - strandat 725.924 kb on - strandat 725.924 kb on - strandat 725.924 kb on - strandat 725.924 kb on - strandat 725.980 kb on - strandat 726.095 kb on - strand, within PP_0620at 726.185 kb on + strand, within PP_0620at 726.186 kb on - strand, within PP_0620at 726.377 kb on + strand, within PP_0620at 726.446 kb on + strand, within PP_0620at 726.446 kb on + strand, within PP_0620at 726.447 kb on - strand, within PP_0620at 726.447 kb on - strand, within PP_0620at 726.482 kb on + strand, within PP_0620at 726.482 kb on + strand, within PP_0620at 726.482 kb on + strand, within PP_0620at 726.482 kb on + strand, within PP_0620at 726.483 kb on - strand, within PP_0620at 726.839 kb on + strandat 726.840 kb on - strandat 726.840 kb on - strandat 726.840 kb on - strandat 726.867 kb on + strandat 727.066 kb on + strand, within PP_0621at 727.066 kb on + strand, within PP_0621at 727.066 kb on + strand, within PP_0621at 727.067 kb on - strand, within PP_0621at 727.067 kb on - strand, within PP_0621at 727.067 kb on - strand, within PP_0621at 727.189 kb on + strand, within PP_0621at 727.189 kb on + strand, within PP_0621at 727.190 kb on - strand, within PP_0621at 727.370 kb on + strandat 727.371 kb on - strandat 727.371 kb on - strandat 727.371 kb on - strandat 727.371 kb on - strandat 727.444 kb on - strandat 727.643 kb on + strand, within PP_0622

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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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725,000 + PP_0619 0.25 -0.2
725,000 + PP_0619 0.25 -0.3
725,000 + PP_0619 0.25 -0.6
725,000 + PP_0619 0.25 -0.9
725,060 + PP_0619 0.30 -0.8
725,075 + PP_0619 0.32 +0.8
725,075 + PP_0619 0.32 +2.3
725,294 + PP_0619 0.50 -0.6
725,295 - PP_0619 0.50 -1.6
725,368 + PP_0619 0.56 -2.7
725,368 + PP_0619 0.56 -0.7
725,368 + PP_0619 0.56 +1.1
725,368 + PP_0619 0.56 -2.2
725,368 + PP_0619 0.56 -0.2
725,368 + PP_0619 0.56 +0.0
725,369 - PP_0619 0.56 -1.0
725,369 - PP_0619 0.56 -1.0
725,372 + PP_0619 0.56 -0.2
725,372 + PP_0619 0.56 -1.7
725,373 - PP_0619 0.56 -1.8
725,390 + PP_0619 0.58 +1.0
725,391 - PP_0619 0.58 +0.2
725,391 - PP_0619 0.58 +1.3
725,453 + PP_0619 0.63 -1.8
725,453 + PP_0619 0.63 -1.2
725,453 + PP_0619 0.63 +0.6
725,453 + PP_0619 0.63 -0.4
725,453 + PP_0619 0.63 -1.5
725,453 + PP_0619 0.63 +0.3
725,453 + PP_0619 0.63 -2.3
725,454 - PP_0619 0.63 -1.0
725,454 - PP_0619 0.63 +0.1
725,454 - PP_0619 0.63 -2.3
725,454 - PP_0619 0.63 +0.6
725,454 - PP_0619 0.63 +2.3
725,454 - PP_0619 0.63 +3.8
725,454 - PP_0619 0.63 -1.3
725,750 + PP_0619 0.88 -0.3
725,759 + PP_0619 0.88 +1.0
725,759 + PP_0619 0.88 -0.4
725,795 + +1.4
725,796 - -0.9
725,796 - -0.8
725,796 - +0.2
725,852 - -0.8
725,852 - -0.8
725,852 - +0.2
725,852 - -0.4
725,852 - -1.1
725,886 + +1.4
725,886 + -0.4
725,887 - +0.6
725,902 + -0.6
725,902 + -0.7
725,903 - -0.7
725,903 - -0.1
725,921 - -2.1
725,923 + -2.3
725,923 + -0.1
725,923 + -1.3
725,924 - -0.8
725,924 - -2.1
725,924 - +1.7
725,924 - -0.1
725,924 - -1.0
725,980 - -1.6
726,095 - PP_0620 0.14 -0.6
726,185 + PP_0620 0.26 -0.3
726,186 - PP_0620 0.26 -1.0
726,377 + PP_0620 0.51 -0.9
726,446 + PP_0620 0.60 +0.1
726,446 + PP_0620 0.60 -1.4
726,447 - PP_0620 0.60 +0.4
726,447 - PP_0620 0.60 -0.5
726,482 + PP_0620 0.64 +0.9
726,482 + PP_0620 0.64 -0.7
726,482 + PP_0620 0.64 -0.4
726,482 + PP_0620 0.64 +0.6
726,483 - PP_0620 0.65 -0.7
726,839 + +1.0
726,840 - +0.1
726,840 - +0.1
726,840 - +0.9
726,867 + +0.8
727,066 + PP_0621 0.15 -0.6
727,066 + PP_0621 0.15 -1.2
727,066 + PP_0621 0.15 -2.4
727,067 - PP_0621 0.15 +0.3
727,067 - PP_0621 0.15 -0.1
727,067 - PP_0621 0.15 +0.3
727,189 + PP_0621 0.54 +0.4
727,189 + PP_0621 0.54 -1.0
727,190 - PP_0621 0.54 +1.1
727,370 + +0.7
727,371 - +0.4
727,371 - +0.9
727,371 - -0.3
727,371 - -1.0
727,444 - -0.3
727,643 + PP_0622 0.29 -1.1

Or see this region's nucleotide sequence