Strain Fitness in Shewanella oneidensis MR-1 around SO0476

Experiment: Ferric citrate electron acceptor; ground control

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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 ntSO0472.1 and SO0474 are separated by 73 nucleotidesSO0474 and SO0476 are separated by 245 nucleotidesSO0476 and nrfF are separated by 16 nucleotidesnrfF and ccmF-2 overlap by 4 nucleotides SO0472.1: SO0472.1 - hypothetical mitomycin resistance protein (NCBI ptt file), at 497,932 to 498,126 SO0472.1 SO0474: SO0474 - conserved hypothetical protein (NCBI ptt file), at 498,200 to 498,778 SO0474 SO0476: SO0476 - thioredoxin, putative (NCBI ptt file), at 499,024 to 499,608 SO0476 SO0477: nrfF - cytochrome c-type biogenesis protein NrfF precursor (NCBI ptt file), at 499,625 to 500,074 nrfF SO0478: ccmF-2 - cytochrome c-type biogenesis protein CcmF (NCBI ptt file), at 500,071 to 502,128 ccmF-2 Position (kb) 499 500Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 498.114 kb on - strandat 498.244 kb on - strandat 498.428 kb on + strand, within SO0474at 498.464 kb on + strand, within SO0474at 498.534 kb on + strand, within SO0474at 498.587 kb on + strand, within SO0474at 498.631 kb on + strand, within SO0474at 498.648 kb on + strand, within SO0474at 498.757 kb on + strandat 498.844 kb on - strandat 498.944 kb on + strandat 498.944 kb on + strandat 498.944 kb on + strandat 498.952 kb on - strandat 499.021 kb on + strandat 499.029 kb on - strandat 499.064 kb on - strandat 499.160 kb on + strand, within SO0476at 499.395 kb on + strand, within SO0476at 499.395 kb on + strand, within SO0476at 499.499 kb on - strand, within SO0476at 499.501 kb on + strand, within SO0476at 499.509 kb on - strand, within SO0476at 499.540 kb on + strand, within SO0476at 499.540 kb on + strand, within SO0476at 499.540 kb on + strand, within SO0476at 499.545 kb on + strand, within SO0476at 499.550 kb on + strandat 499.558 kb on - strandat 499.563 kb on + strandat 499.571 kb on + strandat 499.579 kb on - strandat 499.585 kb on + strandat 499.618 kb on - strandat 499.618 kb on - strandat 499.676 kb on + strand, within nrfFat 499.684 kb on - strand, within nrfFat 499.688 kb on + strand, within nrfFat 499.688 kb on + strand, within nrfFat 499.688 kb on + strand, within nrfFat 499.696 kb on - strand, within nrfFat 499.696 kb on - strand, within nrfFat 499.696 kb on - strand, within nrfFat 499.696 kb on - strand, within nrfFat 499.781 kb on + strand, within nrfFat 499.898 kb on - strand, within nrfFat 499.903 kb on + strand, within nrfFat 499.911 kb on - strand, within nrfFat 499.911 kb on - strand, within nrfFat 499.911 kb on - strand, within nrfFat 499.911 kb on - strand, within nrfFat 499.926 kb on - strand, within nrfFat 499.981 kb on - strand, within nrfFat 500.014 kb on + strand, within nrfFat 500.045 kb on + strandat 500.045 kb on + strandat 500.096 kb on - strandat 500.103 kb on + strandat 500.103 kb on + strandat 500.108 kb on + strandat 500.108 kb on + strandat 500.111 kb on - strandat 500.127 kb on + strandat 500.325 kb on - strand, within ccmF-2at 500.470 kb on + strand, within ccmF-2at 500.478 kb on - strand, within ccmF-2at 500.493 kb on - strand, within ccmF-2at 500.499 kb on - strand, within ccmF-2at 500.507 kb on + strand, within ccmF-2at 500.507 kb on + strand, within ccmF-2at 500.507 kb on + strand, within ccmF-2at 500.507 kb on + strand, within ccmF-2at 500.507 kb on + strand, within ccmF-2at 500.515 kb on - strand, within ccmF-2at 500.515 kb on - strand, within ccmF-2at 500.570 kb on + strand, within ccmF-2at 500.570 kb on + strand, within ccmF-2at 500.607 kb on + strand, within ccmF-2at 500.607 kb on + strand, within ccmF-2

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Per-strain Table

Position Strand Gene LocusTag Fraction Ferric citrate electron acceptor; ground control
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498,114 - -1.8
498,244 - +0.0
498,428 + SO0474 0.39 -1.4
498,464 + SO0474 0.46 +0.7
498,534 + SO0474 0.58 +1.4
498,587 + SO0474 0.67 +0.1
498,631 + SO0474 0.74 +0.4
498,648 + SO0474 0.77 +0.4
498,757 + +0.9
498,844 - +0.1
498,944 + +2.0
498,944 + -2.5
498,944 + +0.2
498,952 - -0.0
499,021 + +0.7
499,029 - -1.1
499,064 - -2.7
499,160 + SO0476 0.23 +1.9
499,395 + SO0476 0.63 +0.2
499,395 + SO0476 0.63 -2.2
499,499 - SO0476 0.81 +0.0
499,501 + SO0476 0.82 -0.1
499,509 - SO0476 0.83 +0.7
499,540 + SO0476 0.88 +0.7
499,540 + SO0476 0.88 +0.0
499,540 + SO0476 0.88 -1.8
499,545 + SO0476 0.89 -1.8
499,550 + -0.1
499,558 - -0.4
499,563 + -1.2
499,571 + -1.5
499,579 - -0.5
499,585 + -1.6
499,618 - -1.7
499,618 - -0.1
499,676 + nrfF SO0477 0.11 +1.1
499,684 - nrfF SO0477 0.13 -0.2
499,688 + nrfF SO0477 0.14 -0.9
499,688 + nrfF SO0477 0.14 +0.4
499,688 + nrfF SO0477 0.14 -0.0
499,696 - nrfF SO0477 0.16 -1.0
499,696 - nrfF SO0477 0.16 -2.0
499,696 - nrfF SO0477 0.16 -0.5
499,696 - nrfF SO0477 0.16 -0.4
499,781 + nrfF SO0477 0.35 -2.1
499,898 - nrfF SO0477 0.61 -0.6
499,903 + nrfF SO0477 0.62 +0.0
499,911 - nrfF SO0477 0.64 -0.4
499,911 - nrfF SO0477 0.64 -0.9
499,911 - nrfF SO0477 0.64 +0.1
499,911 - nrfF SO0477 0.64 +0.9
499,926 - nrfF SO0477 0.67 +0.3
499,981 - nrfF SO0477 0.79 -1.3
500,014 + nrfF SO0477 0.86 -2.1
500,045 + +0.0
500,045 + -3.4
500,096 - +0.1
500,103 + -0.3
500,103 + -2.6
500,108 + -0.6
500,108 + -0.0
500,111 - -1.7
500,127 + +0.4
500,325 - ccmF-2 SO0478 0.12 -0.8
500,470 + ccmF-2 SO0478 0.19 -0.4
500,478 - ccmF-2 SO0478 0.20 -1.9
500,493 - ccmF-2 SO0478 0.21 +0.2
500,499 - ccmF-2 SO0478 0.21 -0.8
500,507 + ccmF-2 SO0478 0.21 +0.3
500,507 + ccmF-2 SO0478 0.21 -0.3
500,507 + ccmF-2 SO0478 0.21 -2.4
500,507 + ccmF-2 SO0478 0.21 -0.3
500,507 + ccmF-2 SO0478 0.21 -0.9
500,515 - ccmF-2 SO0478 0.22 +0.2
500,515 - ccmF-2 SO0478 0.22 +1.4
500,570 + ccmF-2 SO0478 0.24 +1.9
500,570 + ccmF-2 SO0478 0.24 -0.8
500,607 + ccmF-2 SO0478 0.26 -0.9
500,607 + ccmF-2 SO0478 0.26 +0.3

Or see this region's nucleotide sequence