Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations
The evolution of drug resistance in pathogens such as HIV is an important and widely known example in the field of evolutionary medicine. Here, we focus on a unique data set from the late 1990s with multiple viral sequences from multiple time points in 118 patients. We study patterns of evolutionary...
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doaj-bfef21e2ea3f40d483b0e5e90ca01f732021-07-02T11:08:32ZengOxford University PressG3: Genes, Genomes, Genetics2160-18362020-04-011041213122310.1534/g3.119.4007728Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance MutationsKadie-Ann WilliamsPleuni PenningsThe evolution of drug resistance in pathogens such as HIV is an important and widely known example in the field of evolutionary medicine. Here, we focus on a unique data set from the late 1990s with multiple viral sequences from multiple time points in 118 patients. We study patterns of evolutionary dynamics in the viral populations in these patients who were treated with Reverse Transcriptase Inhibitors and Protease Inhibitors in the late 1990s. Specifically, we aim to visualize and analyze examples of population genetic processes such as selective sweeps and clonal interference. The figures and descriptions in this paper can be used in evolution and population genetics classes. We show and analyze a wide variety of patterns, specifically: soft sweeps, hard sweeps, softening sweeps and hardening sweeps, simultaneous sweeps, accumulation of mutations and clonal interference.http://g3journal.org/lookup/doi/10.1534/g3.119.400772clonal interferencedrug resistanceevolutionhard sweephivsoft sweep |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Kadie-Ann Williams Pleuni Pennings |
spellingShingle |
Kadie-Ann Williams Pleuni Pennings Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations G3: Genes, Genomes, Genetics clonal interference drug resistance evolution hard sweep hiv soft sweep |
author_facet |
Kadie-Ann Williams Pleuni Pennings |
author_sort |
Kadie-Ann Williams |
title |
Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations |
title_short |
Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations |
title_full |
Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations |
title_fullStr |
Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations |
title_full_unstemmed |
Drug Resistance Evolution in HIV in the Late 1990s: Hard Sweeps, Soft Sweeps, Clonal Interference and the Accumulation of Drug Resistance Mutations |
title_sort |
drug resistance evolution in hiv in the late 1990s: hard sweeps, soft sweeps, clonal interference and the accumulation of drug resistance mutations |
publisher |
Oxford University Press |
series |
G3: Genes, Genomes, Genetics |
issn |
2160-1836 |
publishDate |
2020-04-01 |
description |
The evolution of drug resistance in pathogens such as HIV is an important and widely known example in the field of evolutionary medicine. Here, we focus on a unique data set from the late 1990s with multiple viral sequences from multiple time points in 118 patients. We study patterns of evolutionary dynamics in the viral populations in these patients who were treated with Reverse Transcriptase Inhibitors and Protease Inhibitors in the late 1990s. Specifically, we aim to visualize and analyze examples of population genetic processes such as selective sweeps and clonal interference. The figures and descriptions in this paper can be used in evolution and population genetics classes. We show and analyze a wide variety of patterns, specifically: soft sweeps, hard sweeps, softening sweeps and hardening sweeps, simultaneous sweeps, accumulation of mutations and clonal interference. |
topic |
clonal interference drug resistance evolution hard sweep hiv soft sweep |
url |
http://g3journal.org/lookup/doi/10.1534/g3.119.400772 |
work_keys_str_mv |
AT kadieannwilliams drugresistanceevolutioninhivinthelate1990shardsweepssoftsweepsclonalinterferenceandtheaccumulationofdrugresistancemutations AT pleunipennings drugresistanceevolutioninhivinthelate1990shardsweepssoftsweepsclonalinterferenceandtheaccumulationofdrugresistancemutations |
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1721331376802758656 |