Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.
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ABSTRACT:
SUBMITTER: Song H
PROVIDER: S-EPMC5954121 | biostudies-literature | 2018 May
REPOSITORIES: biostudies-literature
Publications
Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.
Song Hongshuo H Giorgi Elena E EE Ganusov Vitaly V VV Cai Fangping F Athreya Gayathri G Yoon Hyejin H Carja Oana O Hora Bhavna B Hraber Peter P Romero-Severson Ethan E Jiang Chunlai C Li Xiaojun X Wang Shuyi S Li Hui H Salazar-Gonzalez Jesus F JF Salazar Maria G MG Goonetilleke Nilu N Keele Brandon F BF Montefiori David C DC Cohen Myron S MS Shaw George M GM Hahn Beatrice H BH McMichael Andrew J AJ Haynes Barton F BF Korber Bette B Bhattacharya Tanmoy T Gao Feng F
Nature communications 20180515 1
Recombination in HIV-1 is well documented, but its importance in the low-diversity setting of within-host diversification is less understood. Here we develop a novel computational tool (RAPR (Recombination Analysis PRogram)) to enable a detailed view of in vivo viral recombination during early infection, and we apply it to near-full-length HIV-1 genome sequences from longitudinal samples. Recombinant genomes rapidly replace transmitted/founder (T/F) lineages, with a median half-time of 27 days, ...[more]
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