title: Ultradeep pyrosequencing detects complex patterns of CD8+ T-lymphocyte escape in simian immunodeficiency virus-infected macaques.
abstract: Human and simian immunodeficiency viruses (HIV/SIV) exhibit enormous sequence heterogeneity within each infected host. Here, we use ultradeep pyrosequencing to create a comprehensive picture of CD8(+) T-lymphocyte (CD8-TL) escape in SIV-infected macaques, revealing a previously undetected complex pattern of viral variants. This increased sensitivity enabled the detection of acute CD8-TL escape as early as 17 days postinfection, representing the earliest published example of CD8-TL escape in intrarectally infected macaques. These data demonstrate that pyrosequencing can be used to study the evolution of CD8-TL escape during immunodeficiency virus infection with an unprecedented degree of sensitivity.
authors.affiliation: Wisconsin National Primate Research Center, University of Wisconsin-Madison, 53706, USA.
authors.forename: Benjamin N
authors.initials: BN
authors.lastname: Bimber
authors.forename: Benjamin J
authors.initials: BJ
authors.lastname: Burwitz
authors.forename: Shelby
authors.initials: S
authors.lastname: O'Connor
authors.forename: Ann
authors.initials: A
authors.lastname: Detmer
authors.forename: Emma
authors.initials: E
authors.lastname: Gostick
authors.forename: Simon M
authors.initials: SM
authors.lastname: Lank
authors.forename: David A
authors.initials: DA
authors.lastname: Price
authors.forename: Austin
authors.initials: A
authors.lastname: Hughes
authors.forename: David
authors.initials: D
authors.lastname: O'Connor
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D018414:CD8-Positive T-Lymphocytes / Q000737:chemistry / Q000276:immunology / Q000821:virology*; D000939:Epitopes / Q000737:chemistry / Q000235:genetics / Q000276:immunology; D014644:Genetic Variation; D008253:Macaca mulatta; D008969:Molecular Sequence Data; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*; D016097:Simian Acquired Immunodeficiency Syndrome / Q000235:genetics / Q000276:immunology / Q000821:virology*; D015302:Simian Immunodeficiency Virus / Q000737:chemistry / Q000235:genetics* / Q000276:immunology; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics
chemical_list: D000939:Epitopes; D014764:Viral Proteins