CAP333_3110 Multiplexed Illumina MiSeq of HIV: 33 weeks post-infection
Viral RNA was reverse transcribed to cDNA using Superscript IV Reverse Transcriptase (Invitrogen). Multiple cDNA primers (with PrimerIDs) were multiplexed to generate cDNA templates corresponding to multiple regions of the genome. A first round PCR was performed using the KAPA2G Fast Multiplex Mix (Kapa Biosystems), followed by a second round PCR using the Expand High Fidelity PCR System (Roche) to incorporate Illumina MiSeq version 3 indexes and adapters. PCR products were purified using AMPureXP beads (Beckman Coulter).