Genome-wide analyses of avian sarcoma virus integration sites

Anna Narezkina, Konstantin D. Taganov, Samuel Litwin, Radka Stoyanova, Junpei Hayashi, Christoph Seeger, Anna Marie Skalka, Richard A. Katz

Research output: Contribution to journalArticle

132 Citations (Scopus)

Abstract

The chromosomal features that influence retroviral integration site selection are not well understood. Here, we report the mapping of 226 avian sarcoma virus (ASV) integration sites in the human genome. The results show that the sites are distributed over all chromosomes, and no global bias for integration site selection was detected. However, RNA polymerase II transcription units (protein-encoding genes) appear to be favored targets of ASV integration. The integration frequency within genes is similar to that previously described for murine leukemia virus but distinct from the higher frequency observed with human immunodeficiency virus type 1. We found no evidence for preferred ASV integration sites over the length of genes and immediate flanking regions. Microarray analysis of uninfected HeLa cells revealed that the expression levels of ASV target genes were similar to the median level for all genes represented in the array. Although expressed genes were targets for integration, we found no preference for integration into highly expressed genes. Our results provide a more detailed description of the chromosomal features that may influence ASV integration and support the idea that distinct, virus-specific mechanisms mediate integration site selection. Such differences may be relevant to viral pathogenesis and provide utility in retroviral vector design.

Original languageEnglish
Pages (from-to)11656-11663
Number of pages8
JournalJournal of Virology
Volume78
Issue number21
DOIs
StatePublished - Nov 1 2004
Externally publishedYes

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Avian Sarcoma Viruses
Rous sarcoma virus
Virus Integration
Genome
genome
Genes
genes
Murine Leukemia Viruses
RNA Polymerase II
Human Genome
Microarray Analysis
Murine leukemia virus
retroviral vectors
HeLa Cells
Gene Frequency
HIV-1
Chromosomes
DNA-directed RNA polymerase
Human immunodeficiency virus 1
Viruses

ASJC Scopus subject areas

  • Immunology

Cite this

Narezkina, A., Taganov, K. D., Litwin, S., Stoyanova, R., Hayashi, J., Seeger, C., ... Katz, R. A. (2004). Genome-wide analyses of avian sarcoma virus integration sites. Journal of Virology, 78(21), 11656-11663. https://doi.org/10.1128/JVI.78.21.11656-11663.2004

Genome-wide analyses of avian sarcoma virus integration sites. / Narezkina, Anna; Taganov, Konstantin D.; Litwin, Samuel; Stoyanova, Radka; Hayashi, Junpei; Seeger, Christoph; Skalka, Anna Marie; Katz, Richard A.

In: Journal of Virology, Vol. 78, No. 21, 01.11.2004, p. 11656-11663.

Research output: Contribution to journalArticle

Narezkina, A, Taganov, KD, Litwin, S, Stoyanova, R, Hayashi, J, Seeger, C, Skalka, AM & Katz, RA 2004, 'Genome-wide analyses of avian sarcoma virus integration sites', Journal of Virology, vol. 78, no. 21, pp. 11656-11663. https://doi.org/10.1128/JVI.78.21.11656-11663.2004
Narezkina A, Taganov KD, Litwin S, Stoyanova R, Hayashi J, Seeger C et al. Genome-wide analyses of avian sarcoma virus integration sites. Journal of Virology. 2004 Nov 1;78(21):11656-11663. https://doi.org/10.1128/JVI.78.21.11656-11663.2004
Narezkina, Anna ; Taganov, Konstantin D. ; Litwin, Samuel ; Stoyanova, Radka ; Hayashi, Junpei ; Seeger, Christoph ; Skalka, Anna Marie ; Katz, Richard A. / Genome-wide analyses of avian sarcoma virus integration sites. In: Journal of Virology. 2004 ; Vol. 78, No. 21. pp. 11656-11663.
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