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. 2008 Feb;46(2):780-4.
doi: 10.1128/JCM.01615-07. Epub 2007 Dec 12.

Discrimination of herpes simplex virus type 2 strains by nucleotide sequence variations

Hisatoshi Kaneko  1 , Takashi Kawana, Ken Ishioka, Eiko Fukushima, Tatsuo Suzutani
Affiliations

Discrimination of herpes simplex virus type 2 strains by nucleotide sequence variations

Hisatoshi Kaneko et al. J Clin Microbiol. 2008 Feb.

Abstract

We determined the polymorphous 400-bp regions in UL53, US1, and US4 for the discrimination of herpes simplex virus type 2 (HSV-2) strains. Thirty-six HSV-2 clinical strains could be differentiated into 35 groups using these three regions and into 36 groups by additional analysis of three noncoding regions previously reported as polymorphous.

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Figures

FIG. 1.
FIG. 1.
Nucleotide diversity of each HSV-2 gene. The diversities of 19 UL and 4 US genes were analyzed using sequence data registered in GenBank.
FIG. 2.
FIG. 2.
Phylogenetic analyses of 400-bp regions in the UL53 (A), US1 (B), and US4 (C) genes and in NC3 (D). Sequence data from all 36 HSV-2 clinical strains (shown as strains 1 to 36) and strain HG52 (3) were analyzed by the neighbor-joining method. The names of strains with common sequences in the 400-bp regions from UL53 and US4 are shown in red and underlined, respectively. The 26 American strains registered in GenBank (7) were added for the phylogenetic analysis of NC3. These American strains are shown in blue.
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