Sequence and comparative analysis of the genome of HSV-1 strain McKrae.

TitleSequence and comparative analysis of the genome of HSV-1 strain McKrae.
Publication TypeJournal Article
Year of Publication2012
AuthorsWatson G, Xu W, Reed A, Babra B, Putman T, Wick E, Wechsler SL, Rohrmann GF, Jin L
JournalVirology
Volume433
Issue2
Pagination528-37
Date Published2012 Nov 25
ISSN1096-0341
KeywordsAmino Acid Sequence, Animals, Base Sequence, Conserved Sequence, DNA, Viral, Genetic Variation, Genome, Viral, Herpesvirus 1, Human, Inverted Repeat Sequences, Mice, Molecular Sequence Data, Protein Structure, Tertiary, Rabbits, Replication Origin, Sequence Homology, Amino Acid, Species Specificity, Tandem Repeat Sequences, Viral Proteins, Virulence
Abstract

Ocular infection by HSV-1 strain McKrae is neurovirulent in both mice and rabbits and causes fatal encephalitis in approximately 50% of animals. In addition, it spontaneously reactivates with high frequency relative to other HSV-1 strains in rabbits. We sequenced the McKrae strain genome and compared its coding protein sequences with those of six other HSV-1 strains. Most of the 74 predicted protein sequences are conserved; only eleven are less than 98% conserved. Eight proteins were identified to be unique for McKrae based on sequence homology bit score ratio (BSR). These include five proteins showing significant variations (RL1, RS1, UL49A, US7 and US11), two truncated proteins (UL36 and UL56) and one (US10) containing an extended open reading frame. The McKrae strain also has unique features in its 'a' sequence and non-coding sequences, such as LAT and miRNA. These data are indicative of strain variation but need further work to connect observed differences with phenotype effects.

DOI10.1016/j.virol.2012.08.043
Alternate JournalVirology