Fig. 4. Virus released in MDM-QVOAs can spread in an activated CD4 T cell line and are distinct.
a,b, QVOA culture supernatants were used to spinoculate MT-4s and determine whether viral isolates produced in the QVOAs are capable of spread. One representative positive CD4-QVOA well from 4 vsPWH (a) and one representative positive MDM-QVOA well from 5 vsPWH (b) are shown; viral input was normalized to 800 copies of HIV gag RNA per ml. c, The nef gene was sequenced at limiting dilution from positive QVOA wells in the CD4 and MDM assays. Nef sequences were aligned and a tree was generated using maximum likelihood estimation using the bootstrap method to test phylogeny (1,000 replications). Bootstrap outcomes are labelled at each participant node, >80 was considered significant. Each color represents a specific participant, circles indicate CD4 sequences, squares MDM sequences and diamond the reference sequence.