A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells
HIV-1 replication capacity is an important characteristic to understand the replication competence of single variants or virus populations. It can further aid in the understanding of HIV-1 pathogenicity, disease progression, and drug resistance mutations. To effectively study RC, many assays have be...
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doaj-3d484e9b79d34979b47a9d6d1db4d2fa2021-03-05T00:05:50ZengMDPI AGViruses1999-49152021-03-011340440410.3390/v13030404A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary CellsAudrey E. Rindler0Herbert Kuster1Kathrin Neumann2Christine Leemann3Dominique L. Braun4Karin J. Metzner5Huldrych F. Günthard6Division of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandDivision of Infectious Diseases and Hospital Epidemiology, University Hospital Zürich, 8091 Zürich, SwitzerlandHIV-1 replication capacity is an important characteristic to understand the replication competence of single variants or virus populations. It can further aid in the understanding of HIV-1 pathogenicity, disease progression, and drug resistance mutations. To effectively study RC, many assays have been established. However, there is still demand for a high throughput replication capacity assay using primary cells which is robust and reproducible. In this study, we established such an assay and validated it using 346 primary HIV-1 isolates from patients enrolled in the Zurich Primary HIV Infection study (ZPHI) and two control viruses, HIV-1 JR-CSF<sub>WT</sub> and HIV-1 JR-CSF<sub>K65R_M184V</sub>. Replication capacity was determined by measuring the viral growth on PBMCs over 10 days by longitudinally transferring cell culture supernatant to TZM-bl reporter cells. By utilizing the TZM-bl luciferase reporter assay, we determined replication capacity by measuring viral infectivity. The simplicity of the experimental setup allowed for all 346 primary HIV-1 isolates to be replicated at one time. Although the infectious input dose for each virus was normalized, a broad range of replication capacity values over 4 logs was observed. The approach was confirmed by two repeated experiments and we demonstrated that the reproducibility of the replication capacity values is statistically comparable between the two separate experiments. In summary, these results endorse our high throughput replication capacity assay as reproducible and robust and can be utilized for large scale HIV-1 replication capacity experiments in primary cells.https://www.mdpi.com/1999-4915/13/3/404HIV-1replication capacityprimary cellshigh throughputparallel infectionprimary HIV-1 isolates |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Audrey E. Rindler Herbert Kuster Kathrin Neumann Christine Leemann Dominique L. Braun Karin J. Metzner Huldrych F. Günthard |
spellingShingle |
Audrey E. Rindler Herbert Kuster Kathrin Neumann Christine Leemann Dominique L. Braun Karin J. Metzner Huldrych F. Günthard A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells Viruses HIV-1 replication capacity primary cells high throughput parallel infection primary HIV-1 isolates |
author_facet |
Audrey E. Rindler Herbert Kuster Kathrin Neumann Christine Leemann Dominique L. Braun Karin J. Metzner Huldrych F. Günthard |
author_sort |
Audrey E. Rindler |
title |
A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells |
title_short |
A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells |
title_full |
A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells |
title_fullStr |
A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells |
title_full_unstemmed |
A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells |
title_sort |
novel high throughput, parallel infection assay for determining the replication capacities of 346 primary hiv-1 isolates of the zurich primary hiv-1 infection study in primary cells |
publisher |
MDPI AG |
series |
Viruses |
issn |
1999-4915 |
publishDate |
2021-03-01 |
description |
HIV-1 replication capacity is an important characteristic to understand the replication competence of single variants or virus populations. It can further aid in the understanding of HIV-1 pathogenicity, disease progression, and drug resistance mutations. To effectively study RC, many assays have been established. However, there is still demand for a high throughput replication capacity assay using primary cells which is robust and reproducible. In this study, we established such an assay and validated it using 346 primary HIV-1 isolates from patients enrolled in the Zurich Primary HIV Infection study (ZPHI) and two control viruses, HIV-1 JR-CSF<sub>WT</sub> and HIV-1 JR-CSF<sub>K65R_M184V</sub>. Replication capacity was determined by measuring the viral growth on PBMCs over 10 days by longitudinally transferring cell culture supernatant to TZM-bl reporter cells. By utilizing the TZM-bl luciferase reporter assay, we determined replication capacity by measuring viral infectivity. The simplicity of the experimental setup allowed for all 346 primary HIV-1 isolates to be replicated at one time. Although the infectious input dose for each virus was normalized, a broad range of replication capacity values over 4 logs was observed. The approach was confirmed by two repeated experiments and we demonstrated that the reproducibility of the replication capacity values is statistically comparable between the two separate experiments. In summary, these results endorse our high throughput replication capacity assay as reproducible and robust and can be utilized for large scale HIV-1 replication capacity experiments in primary cells. |
topic |
HIV-1 replication capacity primary cells high throughput parallel infection primary HIV-1 isolates |
url |
https://www.mdpi.com/1999-4915/13/3/404 |
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