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Sequence and comparative analysis of the genome of HSV-1 strain McKrae.
|Title||Sequence and comparative analysis of the genome of HSV-1 strain McKrae.|
|Publication Type||Journal Article|
|Year of Publication||2012|
|Authors||Watson G, Xu W, Reed A, Babra B, Putman T, Wick E, Wechsler SL, Rohrmann GF, Jin L|
|Date Published||2012 Nov 25|
|Keywords||Amino 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|
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.