Experiment: Denitrifying in presence of WT Pseudomonas N2-E3; replicate B; timepoint 1
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.
500 nt Pf1N1B4_478 and Pf1N1B4_479 are separated by 249 nucleotides Pf1N1B4_479 and Pf1N1B4_480 overlap by 20 nucleotides Pf1N1B4_480 and Pf1N1B4_481 are separated by 100 nucleotides Pf1N1B4_481 and Pf1N1B4_482 are separated by 196 nucleotides
Pf1N1B4_478 - Transglutaminase-like enzymes, putative cysteine proteases, at 569,762 to 570,421
_478
Pf1N1B4_479 - Butyryl-CoA dehydrogenase (EC 1.3.99.2), at 570,671 to 570,949
_479
Pf1N1B4_480 - Butyryl-CoA dehydrogenase (EC 1.3.99.2), at 570,930 to 573,119
_480
Pf1N1B4_481 - FIG00956241: hypothetical protein, at 573,220 to 573,627
_481
Pf1N1B4_482 - Transcriptional regulator, LysR family, at 573,824 to 574,822
_482
Position (kb) 570
571
572
573
574 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 569.931 kb on + strand, within Pf1N1B4_478 at 569.931 kb on + strand, within Pf1N1B4_478 at 569.932 kb on - strand, within Pf1N1B4_478 at 570.045 kb on + strand, within Pf1N1B4_478 at 570.045 kb on + strand, within Pf1N1B4_478 at 570.045 kb on + strand, within Pf1N1B4_478 at 570.046 kb on - strand at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.047 kb on + strand, within Pf1N1B4_478 at 570.048 kb on - strand, within Pf1N1B4_478 at 570.048 kb on - strand, within Pf1N1B4_478 at 570.048 kb on - strand, within Pf1N1B4_478 at 570.048 kb on - strand, within Pf1N1B4_478 at 570.058 kb on - strand at 570.121 kb on + strand, within Pf1N1B4_478 at 570.121 kb on + strand, within Pf1N1B4_478 at 570.171 kb on - strand, within Pf1N1B4_478 at 570.171 kb on - strand, within Pf1N1B4_478 at 570.171 kb on - strand, within Pf1N1B4_478 at 570.204 kb on + strand, within Pf1N1B4_478 at 570.204 kb on + strand, within Pf1N1B4_478 at 570.204 kb on + strand, within Pf1N1B4_478 at 570.205 kb on - strand, within Pf1N1B4_478 at 570.205 kb on - strand, within Pf1N1B4_478 at 570.267 kb on + strand, within Pf1N1B4_478 at 570.276 kb on + strand, within Pf1N1B4_478 at 570.276 kb on + strand, within Pf1N1B4_478 at 570.277 kb on - strand, within Pf1N1B4_478 at 570.277 kb on - strand, within Pf1N1B4_478 at 570.277 kb on - strand, within Pf1N1B4_478 at 570.277 kb on - strand at 570.277 kb on - strand, within Pf1N1B4_478 at 570.277 kb on - strand, within Pf1N1B4_478 at 570.300 kb on + strand, within Pf1N1B4_478 at 570.301 kb on - strand, within Pf1N1B4_478 at 570.303 kb on + strand, within Pf1N1B4_478 at 570.303 kb on + strand, within Pf1N1B4_478 at 570.303 kb on + strand, within Pf1N1B4_478 at 570.304 kb on - strand at 570.304 kb on - strand, within Pf1N1B4_478 at 570.304 kb on - strand, within Pf1N1B4_478 at 570.411 kb on + strand at 570.412 kb on - strand at 570.412 kb on - strand at 570.412 kb on - strand at 570.412 kb on - strand at 570.550 kb on - strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.577 kb on + strand at 570.578 kb on - strand at 570.612 kb on + strand at 570.612 kb on + strand at 570.612 kb on + strand at 570.612 kb on + strand at 570.613 kb on - strand at 570.625 kb on + strand at 570.625 kb on + strand at 570.625 kb on + strand at 570.670 kb on + strand at 570.670 kb on + strand at 570.670 kb on + strand at 570.671 kb on - strand at 570.671 kb on - strand at 570.671 kb on - strand at 570.671 kb on - strand at 570.713 kb on + strand, within Pf1N1B4_479 at 570.767 kb on + strand, within Pf1N1B4_479 at 570.871 kb on + strand, within Pf1N1B4_479 at 570.871 kb on + strand, within Pf1N1B4_479 at 570.899 kb on - strand, within Pf1N1B4_479 at 570.899 kb on - strand, within Pf1N1B4_479 at 570.899 kb on - strand, within Pf1N1B4_479 at 571.221 kb on + strand, within Pf1N1B4_480 at 571.354 kb on - strand, within Pf1N1B4_480 at 571.515 kb on + strand, within Pf1N1B4_480 at 571.516 kb on - strand at 571.516 kb on - strand, within Pf1N1B4_480 at 571.566 kb on + strand, within Pf1N1B4_480 at 571.566 kb on + strand, within Pf1N1B4_480 at 571.567 kb on - strand, within Pf1N1B4_480 at 571.567 kb on - strand, within Pf1N1B4_480 at 571.567 kb on - strand, within Pf1N1B4_480 at 571.583 kb on - strand, within Pf1N1B4_480 at 571.646 kb on - strand, within Pf1N1B4_480 at 571.651 kb on + strand, within Pf1N1B4_480 at 571.652 kb on - strand, within Pf1N1B4_480 at 571.652 kb on - strand, within Pf1N1B4_480 at 571.652 kb on - strand, within Pf1N1B4_480 at 571.714 kb on + strand at 571.714 kb on + strand, within Pf1N1B4_480 at 571.714 kb on + strand, within Pf1N1B4_480 at 571.714 kb on + strand, within Pf1N1B4_480 at 571.714 kb on + strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.715 kb on - strand, within Pf1N1B4_480 at 571.949 kb on + strand, within Pf1N1B4_480 at 572.017 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.037 kb on + strand, within Pf1N1B4_480 at 572.038 kb on - strand, within Pf1N1B4_480 at 572.038 kb on - strand, within Pf1N1B4_480 at 572.038 kb on - strand, within Pf1N1B4_480 at 572.038 kb on - strand at 572.038 kb on - strand at 572.124 kb on + strand, within Pf1N1B4_480 at 572.124 kb on + strand, within Pf1N1B4_480 at 572.124 kb on + strand at 572.125 kb on - strand, within Pf1N1B4_480 at 572.125 kb on - strand, within Pf1N1B4_480 at 572.135 kb on + strand, within Pf1N1B4_480 at 572.416 kb on - strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.533 kb on + strand, within Pf1N1B4_480 at 572.534 kb on - strand, within Pf1N1B4_480 at 572.534 kb on - strand, within Pf1N1B4_480 at 572.534 kb on - strand, within Pf1N1B4_480 at 572.542 kb on - strand, within Pf1N1B4_480 at 572.547 kb on + strand, within Pf1N1B4_480 at 572.548 kb on - strand, within Pf1N1B4_480 at 572.548 kb on - strand, within Pf1N1B4_480 at 572.600 kb on + strand, within Pf1N1B4_480 at 572.600 kb on + strand, within Pf1N1B4_480 at 572.692 kb on + strand, within Pf1N1B4_480 at 572.693 kb on - strand, within Pf1N1B4_480 at 572.693 kb on - strand, within Pf1N1B4_480 at 572.693 kb on - strand, within Pf1N1B4_480 at 572.822 kb on - strand, within Pf1N1B4_480 at 573.095 kb on - strand at 573.153 kb on + strand at 573.153 kb on + strand at 573.153 kb on + strand at 573.154 kb on - strand at 573.154 kb on - strand at 573.156 kb on + strand at 573.156 kb on + strand at 573.156 kb on + strand at 573.156 kb on + strand at 573.156 kb on + strand at 573.156 kb on + strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.157 kb on - strand at 573.181 kb on + strand at 573.181 kb on + strand at 573.181 kb on + strand at 573.182 kb on - strand at 573.182 kb on - strand at 573.183 kb on + strand at 573.183 kb on + strand at 573.183 kb on + strand at 573.184 kb on - strand at 573.184 kb on - strand at 573.184 kb on - strand at 573.184 kb on - strand at 573.184 kb on - strand at 573.214 kb on + strand at 573.214 kb on + strand at 573.214 kb on + strand at 573.214 kb on + strand at 573.215 kb on - strand at 573.215 kb on - strand at 573.215 kb on - strand at 573.215 kb on - strand at 573.284 kb on + strand, within Pf1N1B4_481 at 573.285 kb on - strand, within Pf1N1B4_481 at 573.285 kb on - strand, within Pf1N1B4_481 at 573.285 kb on - strand, within Pf1N1B4_481 at 573.386 kb on - strand, within Pf1N1B4_481 at 573.466 kb on + strand, within Pf1N1B4_481 at 573.466 kb on + strand, within Pf1N1B4_481 at 573.466 kb on + strand at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.490 kb on + strand, within Pf1N1B4_481 at 573.491 kb on - strand at 573.491 kb on - strand, within Pf1N1B4_481 at 573.491 kb on - strand, within Pf1N1B4_481 at 573.491 kb on - strand, within Pf1N1B4_481 at 573.491 kb on - strand, within Pf1N1B4_481 at 573.491 kb on - strand, within Pf1N1B4_481 at 573.491 kb on - strand, within Pf1N1B4_481 at 573.517 kb on + strand, within Pf1N1B4_481 at 573.593 kb on + strand at 573.662 kb on + strand at 573.663 kb on - strand at 573.855 kb on + strand at 573.855 kb on + strand at 573.855 kb on + strand at 573.856 kb on - strand at 573.856 kb on - strand at 573.937 kb on - strand, within Pf1N1B4_482 at 574.083 kb on + strand, within Pf1N1B4_482
Per-strain Table
Position Strand Gene LocusTag Fraction Denitrifying in presence of WT Pseudomonas N2-E3; replicate B; timepoint 1 remove 569,931 + Pf1N1B4_478 0.26 -0.6 569,931 + Pf1N1B4_478 0.26 +0.7 569,932 - Pf1N1B4_478 0.26 -0.4 570,045 + Pf1N1B4_478 0.43 -1.6 570,045 + Pf1N1B4_478 0.43 +1.2 570,045 + Pf1N1B4_478 0.43 -0.3 570,046 - -0.5 570,047 + Pf1N1B4_478 0.43 -0.3 570,047 + Pf1N1B4_478 0.43 -1.9 570,047 + Pf1N1B4_478 0.43 -0.9 570,047 + Pf1N1B4_478 0.43 +1.1 570,047 + Pf1N1B4_478 0.43 -0.5 570,047 + Pf1N1B4_478 0.43 -2.2 570,047 + Pf1N1B4_478 0.43 +0.9 570,047 + Pf1N1B4_478 0.43 -0.5 570,048 - Pf1N1B4_478 0.43 -0.5 570,048 - Pf1N1B4_478 0.43 -0.3 570,048 - Pf1N1B4_478 0.43 +0.2 570,048 - Pf1N1B4_478 0.43 -1.5 570,058 - -0.5 570,121 + Pf1N1B4_478 0.54 -0.6 570,121 + Pf1N1B4_478 0.54 -1.3 570,171 - Pf1N1B4_478 0.62 -0.3 570,171 - Pf1N1B4_478 0.62 -0.4 570,171 - Pf1N1B4_478 0.62 -0.5 570,204 + Pf1N1B4_478 0.67 +1.0 570,204 + Pf1N1B4_478 0.67 -2.3 570,204 + Pf1N1B4_478 0.67 -0.5 570,205 - Pf1N1B4_478 0.67 +0.7 570,205 - Pf1N1B4_478 0.67 +1.5 570,267 + Pf1N1B4_478 0.77 -2.0 570,276 + Pf1N1B4_478 0.78 +0.3 570,276 + Pf1N1B4_478 0.78 -1.0 570,277 - Pf1N1B4_478 0.78 -0.7 570,277 - Pf1N1B4_478 0.78 +2.0 570,277 - Pf1N1B4_478 0.78 -0.5 570,277 - +2.1 570,277 - Pf1N1B4_478 0.78 +0.5 570,277 - Pf1N1B4_478 0.78 -0.2 570,300 + Pf1N1B4_478 0.82 -1.0 570,301 - Pf1N1B4_478 0.82 -0.5 570,303 + Pf1N1B4_478 0.82 +1.2 570,303 + Pf1N1B4_478 0.82 -0.7 570,303 + Pf1N1B4_478 0.82 -0.6 570,304 - -0.5 570,304 - Pf1N1B4_478 0.82 -0.5 570,304 - Pf1N1B4_478 0.82 -1.5 570,411 + +0.4 570,412 - -0.8 570,412 - +0.5 570,412 - +0.9 570,412 - -0.8 570,550 - -0.1 570,577 + -1.6 570,577 + -0.2 570,577 + +0.2 570,577 + +0.1 570,577 + -1.0 570,577 + -0.0 570,577 + -1.5 570,577 + +2.5 570,578 - -0.1 570,612 + -0.1 570,612 + +0.3 570,612 + -2.4 570,612 + -1.6 570,613 - +0.8 570,625 + -0.5 570,625 + -0.9 570,625 + -2.8 570,670 + +0.4 570,670 + +2.0 570,670 + +0.6 570,671 - -1.2 570,671 - -0.5 570,671 - +0.9 570,671 - -0.7 570,713 + Pf1N1B4_479 0.15 +1.0 570,767 + Pf1N1B4_479 0.34 -1.6 570,871 + Pf1N1B4_479 0.72 +1.0 570,871 + Pf1N1B4_479 0.72 -0.6 570,899 - Pf1N1B4_479 0.82 -0.8 570,899 - Pf1N1B4_479 0.82 -0.6 570,899 - Pf1N1B4_479 0.82 +0.6 571,221 + Pf1N1B4_480 0.13 +0.7 571,354 - Pf1N1B4_480 0.19 -0.0 571,515 + Pf1N1B4_480 0.27 +0.4 571,516 - -0.5 571,516 - Pf1N1B4_480 0.27 -0.0 571,566 + Pf1N1B4_480 0.29 +0.3 571,566 + Pf1N1B4_480 0.29 -1.3 571,567 - Pf1N1B4_480 0.29 -0.7 571,567 - Pf1N1B4_480 0.29 +0.3 571,567 - Pf1N1B4_480 0.29 -1.5 571,583 - Pf1N1B4_480 0.30 -0.3 571,646 - Pf1N1B4_480 0.33 +1.9 571,651 + Pf1N1B4_480 0.33 +0.5 571,652 - Pf1N1B4_480 0.33 +0.2 571,652 - Pf1N1B4_480 0.33 +1.3 571,652 - Pf1N1B4_480 0.33 +1.1 571,714 + -0.0 571,714 + Pf1N1B4_480 0.36 +0.8 571,714 + Pf1N1B4_480 0.36 +0.7 571,714 + Pf1N1B4_480 0.36 +0.4 571,714 + Pf1N1B4_480 0.36 -0.5 571,715 - Pf1N1B4_480 0.36 +1.3 571,715 - Pf1N1B4_480 0.36 +2.5 571,715 - Pf1N1B4_480 0.36 +1.5 571,715 - Pf1N1B4_480 0.36 +0.4 571,715 - Pf1N1B4_480 0.36 -0.2 571,715 - Pf1N1B4_480 0.36 -0.2 571,715 - Pf1N1B4_480 0.36 -1.5 571,715 - Pf1N1B4_480 0.36 -1.7 571,715 - Pf1N1B4_480 0.36 +1.0 571,949 + Pf1N1B4_480 0.47 -0.5 572,017 + Pf1N1B4_480 0.50 +2.1 572,037 + Pf1N1B4_480 0.51 -0.1 572,037 + Pf1N1B4_480 0.51 +0.2 572,037 + Pf1N1B4_480 0.51 +1.5 572,037 + Pf1N1B4_480 0.51 +0.9 572,037 + Pf1N1B4_480 0.51 +0.4 572,037 + Pf1N1B4_480 0.51 -0.0 572,037 + Pf1N1B4_480 0.51 +1.2 572,038 - Pf1N1B4_480 0.51 +0.0 572,038 - Pf1N1B4_480 0.51 +0.4 572,038 - Pf1N1B4_480 0.51 -0.4 572,038 - +0.5 572,038 - +1.1 572,124 + Pf1N1B4_480 0.55 +0.2 572,124 + Pf1N1B4_480 0.55 -1.0 572,124 + +0.5 572,125 - Pf1N1B4_480 0.55 +1.1 572,125 - Pf1N1B4_480 0.55 -1.3 572,135 + Pf1N1B4_480 0.55 -0.3 572,416 - Pf1N1B4_480 0.68 +1.0 572,533 + Pf1N1B4_480 0.73 -0.0 572,533 + Pf1N1B4_480 0.73 +0.5 572,533 + Pf1N1B4_480 0.73 +0.8 572,533 + Pf1N1B4_480 0.73 -0.6 572,533 + Pf1N1B4_480 0.73 +1.5 572,533 + Pf1N1B4_480 0.73 -0.1 572,533 + Pf1N1B4_480 0.73 +0.1 572,534 - Pf1N1B4_480 0.73 -2.0 572,534 - Pf1N1B4_480 0.73 +0.6 572,534 - Pf1N1B4_480 0.73 -1.7 572,542 - Pf1N1B4_480 0.74 -0.8 572,547 + Pf1N1B4_480 0.74 -2.8 572,548 - Pf1N1B4_480 0.74 +1.5 572,548 - Pf1N1B4_480 0.74 -0.5 572,600 + Pf1N1B4_480 0.76 +0.4 572,600 + Pf1N1B4_480 0.76 -1.5 572,692 + Pf1N1B4_480 0.80 +0.7 572,693 - Pf1N1B4_480 0.81 -0.9 572,693 - Pf1N1B4_480 0.81 -1.3 572,693 - Pf1N1B4_480 0.81 +0.3 572,822 - Pf1N1B4_480 0.86 +1.3 573,095 - -0.3 573,153 + -0.2 573,153 + +0.3 573,153 + -2.2 573,154 - -0.3 573,154 - -1.8 573,156 + -0.0 573,156 + +0.5 573,156 + +0.2 573,156 + +1.5 573,156 + +1.0 573,156 + +0.8 573,157 - -0.2 573,157 - +0.1 573,157 - -0.1 573,157 - +1.5 573,157 - +0.3 573,157 - -0.2 573,157 - -2.3 573,181 + -1.0 573,181 + +0.5 573,181 + +0.5 573,182 - -0.2 573,182 - -0.7 573,183 + +1.1 573,183 + +0.9 573,183 + -2.2 573,184 - -0.1 573,184 - -0.8 573,184 - -0.8 573,184 - -0.5 573,184 - +0.4 573,214 + -0.0 573,214 + +1.3 573,214 + +1.5 573,214 + +0.8 573,215 - +0.4 573,215 - -0.0 573,215 - -1.6 573,215 - -1.0 573,284 + Pf1N1B4_481 0.16 +1.0 573,285 - Pf1N1B4_481 0.16 -1.2 573,285 - Pf1N1B4_481 0.16 +0.5 573,285 - Pf1N1B4_481 0.16 +1.0 573,386 - Pf1N1B4_481 0.41 +1.5 573,466 + Pf1N1B4_481 0.60 +0.5 573,466 + Pf1N1B4_481 0.60 -0.8 573,466 + +1.5 573,490 + Pf1N1B4_481 0.66 -0.6 573,490 + Pf1N1B4_481 0.66 +1.0 573,490 + Pf1N1B4_481 0.66 +0.5 573,490 + Pf1N1B4_481 0.66 -1.5 573,490 + Pf1N1B4_481 0.66 +0.2 573,490 + Pf1N1B4_481 0.66 -0.4 573,490 + Pf1N1B4_481 0.66 -1.5 573,490 + Pf1N1B4_481 0.66 -0.2 573,491 - +0.2 573,491 - Pf1N1B4_481 0.66 +0.2 573,491 - Pf1N1B4_481 0.66 +0.5 573,491 - Pf1N1B4_481 0.66 +1.3 573,491 - Pf1N1B4_481 0.66 -1.6 573,491 - Pf1N1B4_481 0.66 +0.7 573,491 - Pf1N1B4_481 0.66 -2.7 573,517 + Pf1N1B4_481 0.73 -1.0 573,593 + -1.5 573,662 + -0.8 573,663 - -2.5 573,855 + -0.0 573,855 + -1.0 573,855 + +0.5 573,856 - -1.8 573,856 - -0.7 573,937 - Pf1N1B4_482 0.11 +0.8 574,083 + Pf1N1B4_482 0.26 -1.1
Or see this region's nucleotide sequence