Abstract
Herpes simplex virus 1 (HSV-1) strain McKrae is highly virulent and relatively neuroinvasive in animal models compared with other wild-type HSV-1 strains. To identify the genetic determinants that lead to the unique phenotypes of the McKrae strain, we sequenced its genome with PacBio single-molecule real-time (SMRT) technology and resolved the complete sequence.
Highlights
Herpes simplex virus 1 (HSV-1) strain McKrae is highly virulent and relatively neuroinvasive in animal models compared with other wild-type HSV-1 strains
The HSV-1 genome (Fig. 1a) is GC rich and contains many repeat elements, including two copies of a long inverted repeat (RL) (ϳ8.75 kb each), two copies of a short inverted repeat (RS) (ϳ6.25 kb each) [8], and three copies of an “a” sequence, which is repeated at both ends of the genome and at the internal long-short (L-S) junction [12]
Number JN555585) by BLASR (v2.0.0) [14], with default settings, shows that contig 1 (126,990 bp) and contig 2 (44,947 bp) jointly covered the full length of the reference genome from the 5= to 3= ends, and we merged them into a draft sequence
Summary
Herpes simplex virus 1 (HSV-1) strain McKrae is highly virulent and relatively neuroinvasive in animal models compared with other wild-type HSV-1 strains. The HSV-1 genome (Fig. 1a) is GC rich and contains many repeat elements, including two copies of a long inverted repeat (RL) (ϳ8.75 kb each), two copies of a short inverted repeat (RS) (ϳ6.25 kb each) [8], and three copies of an “a” sequence, which is repeated at both ends of the genome and at the internal long-short (L-S) junction [12]. The alignment of the five contigs (Fig. 1a) against the genome sequence of HSV-1 reference strain 17
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