title: Quantification system for the viral dynamics of a highly pathogenic simian/human immunodeficiency virus based on an in vitro experiment and a mathematical model.
abstract: BACKGROUND
  Developing a quantitative understanding of viral kinetics is useful for determining the pathogenesis and transmissibility of the virus, predicting the course of disease, and evaluating the effects of antiviral therapy. The availability of data in clinical, animal, and cell culture studies, however, has been quite limited. Many studies of virus infection kinetics have been based solely on measures of total or infectious virus count. Here, we introduce a new mathematical model which tracks both infectious and total viral load, as well as the fraction of infected and uninfected cells within a cell culture, and apply it to analyze time-course data of an SHIV infection in vitro.
  
  
  RESULTS
  We infected HSC-F cells with SHIV-KS661 and measured the concentration of Nef-negative (target) and Nef-positive (infected) HSC-F cells, the total viral load, and the infectious viral load daily for nine days. The experiments were repeated at four different MOIs, and the model was fitted to the full dataset simultaneously. Our analysis allowed us to extract an infected cell half-life of 14.1 h, a half-life of SHIV-KS661 infectiousness of 17.9 h, a virus burst size of 22.1 thousand RNA copies or 0.19 TCID50, and a basic reproductive number of 62.8. Furthermore, we calculated that SHIV-KS661 virus-infected cells produce at least 1 infectious virion for every 350 virions produced.
  
  
  CONCLUSIONS
  Our method, combining in vitro experiments and a mathematical model, provides detailed quantitative insights into the kinetics of the SHIV infection which could be used to significantly improve the understanding of SHIV and HIV-1 pathogenesis. The method could also be applied to other viral infections and used to improve the in vitro determination of the effect and efficacy of antiviral compounds.
authors.affiliation: Precursory Research for Embryonic Science and Technology (PRESTO), Japan Science and Technology Agency (JST), Kawaguchi, Saitama 332-0012, Japan. siwami@ms.u-tokyo.ac.jp
authors.forename: Shingo
authors.initials: S
authors.lastname: Iwami
authors.forename: Benjamin P
authors.initials: BP
authors.lastname: Holder
authors.forename: Catherine A A
authors.initials: CA
authors.lastname: Beauchemin
authors.forename: Satoru
authors.initials: S
authors.lastname: Morita
authors.forename: Tetsuko
authors.initials: T
authors.lastname: Tada
authors.forename: Kei
authors.initials: K
authors.lastname: Sato
authors.forename: Tatsuhiko
authors.initials: T
authors.lastname: Igarashi
authors.forename: Tomoyuki
authors.initials: T
authors.lastname: Miura
mesh_terms: D000818:Animals; D002460:Cell Line; D015497:HIV-1 / Q000235:genetics / Q000254:growth & development* / Q000472:pathogenicity; D008252:Macaca fascicularis; D008962:Models, Theoretical; D015302:Simian Immunodeficiency Virus / Q000235:genetics / Q000254:growth & development* / Q000472:pathogenicity; D013601:T-Lymphocytes / Q000821:virology*; D019562:Viral Load