High-throughput sequence analysis of variants of human cytomegalovirus strains Towne and AD169

• Published in: Journal of general virology Vol. 90; no. 10; pp. 2375 - 2380
• Main Authors: Bradley, Amanda J, Lurain, Nell S, Ghazal, Peter, Trivedi, Urmi, Cunningham, Charles, Baluchova, Katarina, Gatherer, Derek, Wilkinson, Gavin W. G, Dargan, Derrick J, Davison, Andrew J
• Format: Journal Article
• Language: English
• Published: Reading Soc General Microbiol 01.10.2009; Society for General Microbiology
• Subjects: Animal; Base Sequence; Biological and medical sciences; Cytomegalovirus - classification; Cytomegalovirus - genetics; DNA, Viral; Fundamental and applied biological sciences. Psychology; Genetic Variation; Genome, Viral; Human cytomegalovirus; Humans; Microbiology; Miscellaneous; Mutation; Virology; Virus; Microbiology; Betaherpesvirinae; Herpesviridae; Human cytomegalovirus; Strain
• ISSN: 0022-1317; 1465-2099
• DOI: 10.1099/vir.0.013250-0

1 MRC Virology Unit, Institute of Virology, Church Street, Glasgow G11 5JR, UK 2 Department of Immunology and Microbiology, Rush University Medical Center, 1653 West Congress Parkway, Chicago, IL 60612, USA 3 Division of Pathway Medicine, University of Edinburgh Medical School, Chancellor's Building, 49 Little France Crescent, Edinburgh EH16 4SB, UK 4 The Gene Pool, Ashworth Laboratories, Institute of Evolutionary Biology, King's Buildings, Edinburgh EH9 3JT, UK 5 Department of Medical Microbiology, Tenovus Building, School of Medicine, Cardiff University, Heath Park, Cardiff CF14 4XX, UK Correspondence Andrew J. Davison a.davison{at}mrcvu.gla.ac.uk The genomes of commonly used variants of human cytomegalovirus (HCMV) strains Towne and AD169 each contain a substantial mutation in which a region (U L / b' ) at the right end of the long unique region has been replaced by an inverted duplication of a region from the left end of the genome. Using high-throughput technology, we have sequenced HCMV strain Towne (ATCC VR-977) and confirmed the presence of two variants, one exhibiting the replacement in U L / b' and the other intact in this region. Both variants are mutated in genes RL13, UL1, UL40, UL130, US1 and US9. We have also sequenced a novel AD169 variant (varUC) that is intact in U L / b' except for a small deletion that affects genes UL144, UL142, UL141 and UL140. Like other AD169 variants, varUC is mutated in genes RL5A, RL13, UL36 and UL131A. A subpopulation of varUC contains an additional deletion affecting genes IRS1, US1 and US2. Present address: BioReliance Ltd, Todd Campus, West of Scotland Science Park, Glasgow G20 0XA, UK. The GenBank/EMBL/DDBJ accession numbers for the genome sequences of HCMV strains Towne and AD169varUC are FJ616285 [GenBank] and FJ527563 [GenBank] , respectively. The Illumina Genome Analyzer sequence datasets are available from the corresponding author.