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BootScans and Genetic Organization of the DLS13-11685 genome.

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posted on 11.09.2018, 17:32 by Ka-Cheung Luk, Kelly E. Coller, George J. Dawson, Gavin A. Cloherty

BootScan analyses were performed on the 6,900 nt sequence alignment of Fig 1. DLS13-11685 genome was compared to five HEV reference sequences, including HEV-1 (1a-AF051830, green), HEV-2 (2a-M74506, brown), HEV-3 (3e-AB248520, red), HEV-4 (4g-AB108537, orange), and rabbit HEV (JQ013791, KY436898, or MF480298, blue). The three open reading frames (ORF1, ORF2 and ORF3) of the DLS13-11685 genome are shown below the three BootScan plots along with the approximate locations within ORF1 coding for methyltransferase domain (MT), Y domain (Y), papain-like cysteine protease (PCP), hypervariable region (HVR), proline-rich domain (Pro), X domain (X), helicase (Hel), and RNA-dependent RNA polymerase (RdRp). The vertical dashed lines denote the putative recombination breakpoints that partition the viral genome of DLS13-11685 into five fragments (1–5). Fragments 1, 3 and 5 (in brown) are designated as unclassified (containing a mixture of rabbit HEV and HEV-3 sequences), whereas fragments 2 and 4 (in red) have HEV-3 sequences.