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  Parallel evolution of HIV-1 in a long-term experiment

Bertels, F., Leemann, C., Metzner, K. J., & Regoes, R. (2019). Parallel evolution of HIV-1 in a long-term experiment. Molecular Biology and Evolution, msz155. doi:10.1093/molbev/msz155.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0004-48DA-6 Version Permalink: http://hdl.handle.net/21.11116/0000-0004-48DB-5
Genre: Journal Article

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 Creators:
Bertels, Frederic1, Author              
Leemann, Christine, Author
Metzner, Karin J, Author
Regoes, Roland, Author
Affiliations:
1Research Group Microbial Molecular Evolution, Department Microbial Population Biology, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_2497692              

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 Abstract: One of the most intriguing puzzles in biology is the degree to which evolution is repeatable. The repeatability of evolution, or parallel evolution, has been studied in a variety of model systems, but has rarely been investigated with clinically relevant viruses. To investigate parallel evolution of HIV-1, we passaged two replicate HIV-1 populations for almost one year in each of two human T-cell lines. For each of the four evolution lines, we determined the genetic composition of the viral population at nine time points by deep sequencing the entire genome. Mutations that were carried by the majority of the viral population accumulated continuously over one year in each evolution line. Many majority mutations appeared in more than one evolution line, i.e. our experiments showed an extreme degree of parallel evolution. In one of the evolution lines, 62% of the majority mutations also occur in another line. The parallelism impairs our ability to reconstruct the evolutionary history by phylogenetic methods. We show that one can infer the correct phylogenetic topology by including minority mutations in our analysis. We also find that mutation diversity at the beginning of the experiment is predictive of the frequency of majority mutations at the end of the experiment.

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Language(s): eng - English
 Dates: 2018-12-122019-06-222019-06-282019-06-28
 Publication Status: Published in print
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 Identifiers: DOI: 10.1093/molbev/msz155
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Title: Molecular Biology and Evolution
  Other : Mol. Biol. Evol.
Source Genre: Journal
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Publ. Info: Oxford : Oxford University Press
Pages: 29 Volume / Issue: - Sequence Number: msz155 Start / End Page: - Identifier: ISSN: 0737-4038
CoNE: https://pure.mpg.de/cone/journals/resource/954925536119