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Article

Understanding the Genetic Diversity of Picobirnavirus: A Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches

Infectious Diseases Research, Abbott Diagnostics, Abbott Park, IL 60064, USA
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Academic Editors: Jean-Michel Heraud, Anne Lavergne and Richard Njouom
Viruses 2021, 13(8), 1476; https://doi.org/10.3390/v13081476
Received: 27 June 2021 / Revised: 20 July 2021 / Accepted: 23 July 2021 / Published: 28 July 2021
(This article belongs to the Special Issue Viral Genetic Diversity)
Picobirnaviruses (PBVs) are small, double stranded RNA viruses with an ability to infect a myriad of hosts and possessing a high degree of genetic diversity. PBVs are currently classified into two genogroups based upon classification of a 200 nt sequence of RdRp. We demonstrate here that this phylogenetic marker is saturated, affected by homoplasy, and has high phylogenetic noise, resulting in 34% unsolved topologies. By contrast, full-length RdRp sequences provide reliable topologies that allow ancestralism of members to be correctly inferred. MAFFT alignment and maximum likelihood trees were established as the optimal methods to determine phylogenetic relationships, providing complete resolution of PBV RdRp and capsid taxa, each into three monophyletic groupings. Pairwise distance calculations revealed these lineages represent three species. For RdRp, the application of cutoffs determined by theoretical taxonomic distributions indicates that there are five genotypes in species 1, eight genotypes in species 2, and three genotypes in species 3. Capsids were also divided into three species, but sequences did not segregate into statistically supported subdivisions, indicating that diversity is lower than RdRp. We thus propose the adoption of a new nomenclature to indicate the species of each segment (e.g., PBV-C1R2). View Full-Text
Keywords: picobirnavirus; phylogenetics; pairwise sequence comparison; RdRp; capsid; reassortment picobirnavirus; phylogenetics; pairwise sequence comparison; RdRp; capsid; reassortment
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MDPI and ACS Style

Perez, L.J.; Cloherty, G.A.; Berg, M.G. Understanding the Genetic Diversity of Picobirnavirus: A Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches. Viruses 2021, 13, 1476. https://doi.org/10.3390/v13081476

AMA Style

Perez LJ, Cloherty GA, Berg MG. Understanding the Genetic Diversity of Picobirnavirus: A Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches. Viruses. 2021; 13(8):1476. https://doi.org/10.3390/v13081476

Chicago/Turabian Style

Perez, Lester J., Gavin A. Cloherty, and Michael G. Berg. 2021. "Understanding the Genetic Diversity of Picobirnavirus: A Classification Update Based on Phylogenetic and Pairwise Sequence Comparison Approaches" Viruses 13, no. 8: 1476. https://doi.org/10.3390/v13081476

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