Strain Fitness in Shewanella oneidensis MR-1 around SO0035

Experiment: Nickel (II) chloride 0.4 mM

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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 ntSO0034 and smg are separated by 2 nucleotidessmg and SO0036 are separated by 112 nucleotidesSO0036 and SO0037 are separated by 138 nucleotides SO0034: SO0034 - DNA processing protein DprA, putative (NCBI ptt file), at 39,244 to 40,260 SO0034 SO0035: smg - smg protein (NCBI ptt file), at 40,263 to 40,739 smg SO0036: SO0036 - topoisomerase DNA-binding C4 zinc finger domain protein (NCBI ptt file), at 40,852 to 41,418 SO0036 SO0037: SO0037 - Sua5/YciO/YrdC/YwlC family protein (NCBI ptt file), at 41,557 to 42,123 SO0037 Position (kb) 40 41Strain fitness (log2 ratio) -1 0 1 2 3at 39.265 kb on - strandat 39.362 kb on + strand, within SO0034at 39.408 kb on + strand, within SO0034at 39.408 kb on + strand, within SO0034at 39.416 kb on - strand, within SO0034at 39.416 kb on - strand, within SO0034at 39.416 kb on - strand, within SO0034at 39.421 kb on - strand, within SO0034at 39.470 kb on + strand, within SO0034at 39.615 kb on - strand, within SO0034at 39.616 kb on - strand, within SO0034at 39.625 kb on + strand, within SO0034at 39.625 kb on - strand, within SO0034at 39.625 kb on - strand, within SO0034at 39.633 kb on - strand, within SO0034at 39.633 kb on - strand, within SO0034at 39.633 kb on - strand, within SO0034at 39.649 kb on + strand, within SO0034at 39.661 kb on + strand, within SO0034at 39.737 kb on + strand, within SO0034at 39.763 kb on + strand, within SO0034at 39.880 kb on - strand, within SO0034at 40.061 kb on + strand, within SO0034at 40.227 kb on + strandat 40.234 kb on + strandat 40.234 kb on + strandat 40.239 kb on + strandat 40.239 kb on + strandat 40.246 kb on + strandat 40.247 kb on - strandat 40.252 kb on - strandat 40.335 kb on + strand, within smgat 40.344 kb on - strand, within smgat 40.350 kb on - strand, within smgat 40.362 kb on + strand, within smgat 40.430 kb on + strand, within smgat 40.430 kb on + strand, within smgat 40.435 kb on + strand, within smgat 40.435 kb on + strand, within smgat 40.435 kb on + strand, within smgat 40.435 kb on + strand, within smgat 40.435 kb on + strand, within smgat 40.436 kb on + strand, within smgat 40.436 kb on + strand, within smgat 40.436 kb on + strand, within smgat 40.438 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.443 kb on - strand, within smgat 40.445 kb on + strand, within smgat 40.511 kb on - strand, within smgat 40.564 kb on + strand, within smgat 40.660 kb on - strand, within smgat 40.727 kb on + strandat 40.735 kb on - strandat 40.750 kb on - strandat 40.878 kb on + strandat 40.978 kb on - strand, within SO0036at 41.015 kb on - strand, within SO0036at 41.023 kb on - strand, within SO0036at 41.025 kb on + strand, within SO0036at 41.057 kb on + strand, within SO0036at 41.149 kb on - strand, within SO0036at 41.180 kb on + strand, within SO0036at 41.188 kb on - strand, within SO0036at 41.216 kb on + strand, within SO0036at 41.216 kb on + strand, within SO0036at 41.360 kb on + strand, within SO0036at 41.371 kb on + strandat 41.379 kb on - strandat 41.426 kb on - strandat 41.454 kb on + strandat 41.454 kb on - strandat 41.462 kb on - strandat 41.462 kb on - strandat 41.481 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Nickel (II) chloride 0.4 mM
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39,265 - +0.8
39,362 + SO0034 0.12 -0.9
39,408 + SO0034 0.16 -0.2
39,408 + SO0034 0.16 +0.3
39,416 - SO0034 0.17 +0.7
39,416 - SO0034 0.17 -1.1
39,416 - SO0034 0.17 +0.3
39,421 - SO0034 0.17 +0.8
39,470 + SO0034 0.22 -1.0
39,615 - SO0034 0.36 -1.3
39,616 - SO0034 0.37 -0.1
39,625 + SO0034 0.37 +1.9
39,625 - SO0034 0.37 +1.3
39,625 - SO0034 0.37 +1.0
39,633 - SO0034 0.38 -0.1
39,633 - SO0034 0.38 -0.4
39,633 - SO0034 0.38 +0.0
39,649 + SO0034 0.40 -1.0
39,661 + SO0034 0.41 -0.7
39,737 + SO0034 0.48 +3.2
39,763 + SO0034 0.51 +1.1
39,880 - SO0034 0.63 +0.4
40,061 + SO0034 0.80 +0.9
40,227 + +1.0
40,234 + +1.4
40,234 + +0.4
40,239 + -0.3
40,239 + +0.5
40,246 + -0.8
40,247 - +1.3
40,252 - +0.4
40,335 + smg SO0035 0.15 +2.8
40,344 - smg SO0035 0.17 +0.9
40,350 - smg SO0035 0.18 -0.3
40,362 + smg SO0035 0.21 +1.8
40,430 + smg SO0035 0.35 +1.4
40,430 + smg SO0035 0.35 +0.7
40,435 + smg SO0035 0.36 +0.1
40,435 + smg SO0035 0.36 -0.6
40,435 + smg SO0035 0.36 +0.1
40,435 + smg SO0035 0.36 +1.5
40,435 + smg SO0035 0.36 +1.2
40,436 + smg SO0035 0.36 +0.3
40,436 + smg SO0035 0.36 +2.5
40,436 + smg SO0035 0.36 +3.0
40,438 - smg SO0035 0.37 +0.9
40,443 - smg SO0035 0.38 +1.9
40,443 - smg SO0035 0.38 +0.6
40,443 - smg SO0035 0.38 -0.0
40,443 - smg SO0035 0.38 +2.4
40,443 - smg SO0035 0.38 +0.5
40,443 - smg SO0035 0.38 +1.1
40,443 - smg SO0035 0.38 +1.6
40,443 - smg SO0035 0.38 +2.8
40,443 - smg SO0035 0.38 +0.8
40,445 + smg SO0035 0.38 +0.4
40,511 - smg SO0035 0.52 +1.2
40,564 + smg SO0035 0.63 -0.5
40,660 - smg SO0035 0.83 +1.8
40,727 + +1.1
40,735 - +0.6
40,750 - -0.1
40,878 + +0.5
40,978 - SO0036 0.22 -0.1
41,015 - SO0036 0.29 -1.1
41,023 - SO0036 0.30 -1.3
41,025 + SO0036 0.31 +0.5
41,057 + SO0036 0.36 -1.7
41,149 - SO0036 0.52 -0.4
41,180 + SO0036 0.58 +0.1
41,188 - SO0036 0.59 +0.4
41,216 + SO0036 0.64 +0.2
41,216 + SO0036 0.64 -0.9
41,360 + SO0036 0.90 +0.0
41,371 + -1.0
41,379 - -0.1
41,426 - -1.0
41,454 + -0.1
41,454 - -1.3
41,462 - +1.4
41,462 - +0.6
41,481 + +0.1

Or see this region's nucleotide sequence