Nature Communications (May 2018)
Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection
- Hongshuo Song,
- Elena E. Giorgi,
- Vitaly V. Ganusov,
- Fangping Cai,
- Gayathri Athreya,
- Hyejin Yoon,
- Oana Carja,
- Bhavna Hora,
- Peter Hraber,
- Ethan Romero-Severson,
- Chunlai Jiang,
- Xiaojun Li,
- Shuyi Wang,
- Hui Li,
- Jesus F. Salazar-Gonzalez,
- Maria G. Salazar,
- Nilu Goonetilleke,
- Brandon F. Keele,
- David C. Montefiori,
- Myron S. Cohen,
- George M. Shaw,
- Beatrice H. Hahn,
- Andrew J. McMichael,
- Barton F. Haynes,
- Bette Korber,
- Tanmoy Bhattacharya,
- Feng Gao
Affiliations
- Hongshuo Song
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Elena E. Giorgi
- Theoretical Division, Los Alamos National Laboratory
- Vitaly V. Ganusov
- Department of Microbiology, University of Tennessee
- Fangping Cai
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Gayathri Athreya
- Office for Research & Discovery, University of Arizona
- Hyejin Yoon
- Theoretical Division, Los Alamos National Laboratory
- Oana Carja
- Department of Biology, University of Pennsylvania
- Bhavna Hora
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Peter Hraber
- Theoretical Division, Los Alamos National Laboratory
- Ethan Romero-Severson
- Theoretical Division, Los Alamos National Laboratory
- Chunlai Jiang
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Xiaojun Li
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Shuyi Wang
- Department of Medicine, University of Pennsylvania
- Hui Li
- Department of Medicine, University of Pennsylvania
- Jesus F. Salazar-Gonzalez
- Department of Medicine, University of Alabama at Birmingham
- Maria G. Salazar
- Department of Medicine, University of Alabama at Birmingham
- Nilu Goonetilleke
- Departments of Microbiology and Immunology & Medicine, University of North Carolina at Chapel Hill
- Brandon F. Keele
- AIDS and Cancer Virus Program, Frederick National Laboratory for Cancer Research
- David C. Montefiori
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Myron S. Cohen
- Departments of Microbiology and Immunology & Medicine, University of North Carolina at Chapel Hill
- George M. Shaw
- Department of Medicine, University of Pennsylvania
- Beatrice H. Hahn
- Department of Medicine, University of Pennsylvania
- Andrew J. McMichael
- Weatherall Institute of Molecular Medicine, University of Oxford
- Barton F. Haynes
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- Bette Korber
- Theoretical Division, Los Alamos National Laboratory
- Tanmoy Bhattacharya
- Theoretical Division, Los Alamos National Laboratory
- Feng Gao
- Duke Human Vaccine Institute and Department of Medicine, Duke University Medical Center
- DOI
- https://doi.org/10.1038/s41467-018-04217-5
- Journal volume & issue
-
Vol. 9,
no. 1
pp. 1 – 15
Abstract
Recombination contributes to HIV evolution in patients, but its identification can be difficult. Here, the authors develop a computational tool called RAPR to track recombination in patients, identify recombination hot spots, and show contribution of recombination to antibody escape.
