September 3 2019
Saori C. Iwase
Saori C. Iwase, Paola Miyazato, Hiroo Katsuya, Saiful Islam, Benjy Tan Jek Yang, Jumpei Ito, Misaki Matsuo, Hiroaki Takeuchi, Takaomi Ishida, Kouki Matsuda, Kenji Maeda & Yorifumi Satou
HIV-1 DNA-capture-seq is a useful tool for the comprehensive characterization of HIV-1 provirus
Human immunodeficiency virus type 1 (HIV-1) is the causative agent for AIDS. Despite reductions in mortality with anti-retroviral drugs, it is still extremely difficult to eradicate HIV-1 from infected individuals. The characterization of the HIV-1 provirus with a high resolution is key to HIV-1 cure research. We use biotinylated DNA probes targeting the entire HIV-1 sequence to capture fragments containing HIV-1 sequences from DNA-seq libraries prepared for high throughput sequencing. This approach provides not only the complete proviral sequence, but also the viral integration site information in a cost-effective manner. By using commonly used HIV-1 infected cell lines and newly established ones, we demonstrate that this HIV-1 DNA-capture-seq is a powerful tool to characterize the HIV-1 provirus at a single nucleotide resolution and therefore might be useful for various experiments aiming for an HIV-1 cure.