TABLE 1.
Genome statistics of sequenced strains
| Strain | Platform (no. of raw reads; avg length [bp]) | Contig or no. of contigs | GC content (%) | Genome size (bp) | Contig type or N50 (bp) | Coverage (×) | No. of genes (CDS)a | ST (CC)b | Molecular Serotypec | Virulence genes determined by VirulenceFinder (total no.)d | GenBank accession no. | SRA accession no. |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Escherichia coli MBT-5 | Paired end using MiSeq (1,482,454; 251); MinION (127,117; 7,911) | Chromosome | 50.7 | 5,705,580 | Circular | 260 | 5,790 | ST25e | O26:H11 | astA, cif, eae, efa1, espB, espF, espJ, espP, fyuA, gad, iha, irp2, iss, iucC, iutA, lpfA, nleA, nleB, nleC, ompT stx1a, stx2a, terC, tir, tra (chromosome); ehxA, espA, katP, toxB (plasmid 5.1) (29) | CP058682 |
SRR12207194 (paired end), SRR12207193 (MinION) |
| Plasmid 5.1 | 47.8 | 92,578 | Circular | 281 | 93 | CP058683 | ||||||
| Plasmid 5.2 | 47.6 | 89,589 | Circular | 192 | 106 | CP058684 | ||||||
| Plasmid 5.3 | 39.7 | 34,196 | Circular | 386 | 36 | CP058685 | ||||||
| Plasmid 5.4 | 45.6 | 6,715 | Circular | 1,918 | 9 | CP058686 | ||||||
| Plasmid 5.5 | 41.2 | 4,742 | Circular | 1,151 | 4 | CP058687 | ||||||
| Plasmid 5.6 | 42.2 | 2,784 | Circular | 3,621 | 3 | CP058688 | ||||||
| Listeria monocytogenes MBT-6 | Paired end using MiSeq (669,662; 247) | 21 | 37.93 | 2,879,121 | 515,847 | 44 | 2,874 | ST1 (CC01) | 4b | agrA, flaA, flgC, flgE, gmar, lap, lapB, oatA, oppA, rli55, rli60, rsbv, bilE, bsh, chiA, clpB, clpc, clpe, clpp, codY, ctaP, ctsR, dal, degU, dltA, fbpA, fri, fur, hfq, hly, htrA, iap, inlA, inlB, inlC, inlH, inlJ, lgt, lhrC, lipA, lisR, lntA, lpeA, lplA1, lsp, mogR, mpl, mprf, murA, perR, pgdA, pgl, plcA, plcB, prfA, prsA2, pycA, recA, relA, secA2, sigB, sipX, sipZ, sod, srtA, srtB, stp, svpA, tcsA, tig, uhpT, virR (72) | JACBGM000000000 | SRR12207196 (paired end) |
| Listeria monocytogenes MBT-7 | Paired end using MiSeq (616,456; 247) | 24 | 37.83 | 2,975,327 | 482,161 | 45 | 2,985 | ST59 (CC59) | 1/2b | agrA, ami, aut, flaA, flgC, flgE, gmar, lap, lapB, oatA, oppA, rli55, rli60, rsbv, biLE, bsh, chiA, clpB, clpc, clpe, clpp, codY, ctaP, ctsR, dal, degU, dltA, fbpA, fri, fur, gtcA, hfq, hly, htrA, iap, inlA, inlB, inlC, inlH, inlJ, inlk, lgt, lhrC, lipA, lisR, lntA, lpeA, lplA1, lsp, mogR, mpl, mprf, murA, perR, pgdA, pgl, plcA, plcB, prfA, prsA2, pycA, recA, relA, secA2, sigB, sipX, sipZ, sod, srtA, srtB, stp, svpA, tcsA, tig, uHpt, virR (76) | JACBGL000000000 | SRR12207195 (paired end) |