Abstract
CD8(+) T lymphocytes (CD8-TL) select viral escape variants in both human immunodeficiency virus and simian immunodeficiency virus (SIV) infections. The frequency of CD8-TL viral escape as well as the contribution of escape to overall virus diversification has not been assessed. We quantified CD8-TL selection in SIV infections by sequencing viral genomes from 35 SIVmac239-infected animals at the time of euthanasia. Here we show that positive selection for sequences encoding 46 known CD8-TL epitopes is comparable to the positive selection observed for the variable loops of env. We also found that >60% of viral variation outside of the viral envelope occurs within recognized CD8-TL epitopes. Therefore, we conclude that CD8-TL selection is the dominant cause of SIV diversification outside of the envelope.
Publication types
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Research Support, U.S. Gov't, P.H.S.
MeSH terms
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Amino Acid Sequence
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Animals
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CD8-Positive T-Lymphocytes / immunology*
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Epitopes, T-Lymphocyte / genetics*
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Epitopes, T-Lymphocyte / immunology
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Genetic Variation*
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Histocompatibility Antigens Class I / metabolism
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Macaca mulatta
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Molecular Sequence Data
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Sequence Analysis, DNA
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Simian Acquired Immunodeficiency Syndrome / immunology*
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Simian Acquired Immunodeficiency Syndrome / virology
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Simian Immunodeficiency Virus / genetics*
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Simian Immunodeficiency Virus / immunology
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Viral Proteins / chemistry
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Viral Proteins / genetics
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Viral Proteins / metabolism
Substances
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Epitopes, T-Lymphocyte
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Histocompatibility Antigens Class I
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Viral Proteins
Associated data
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GENBANK/AY576480
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GENBANK/AY576481
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GENBANK/AY587015
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GENBANK/AY611495