Genome-scale analysis of evolutionary rate and selection in a fast-expanding Spanish cluster of HIV-1 subtype F1
| Autor: | José M. Cuevas, Elena Delgado, Michael M. Thomson, Francisco Domínguez, Juan Ángel Patiño-Galindo, Fernando González-Candelas, Lucía Pérez-Álvarez, Rafael Sanjuán, María Teresa Cuevas, Mónica Sánchez |
|---|---|
| Rok vydání: | 2018 |
| Předmět: |
0301 basic medicine
Microbiology (medical) Genotype Bayesian probability Genome scale Epitopes T-Lymphocyte HIV Infections Genome Viral Biology Disease cluster Microbiology Article law.invention Men who have sex with men Coalescent theory Evolution Molecular Subtype F1 03 medical and health sciences Sex Factors law Phylogenetics Databases Genetic Genetics Humans Selection Genetic Selection Molecular Biology Antigens Viral Ecology Evolution Behavior and Systematics Selection (genetic algorithm) Phylogeny Recombination Genetic Genomics 030104 developmental biology Infectious Diseases Transmission (mechanics) Evolutionary biology Spain HIV-1 Transmission cluster |
| Zdroj: | INFECTION GENETICS AND EVOLUTION r-FISABIO. Repositorio Institucional de Producción Científica instname r-FISABIO: Repositorio Institucional de Producción Científica Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana (FISABIO) Infection, Genetics and Evolution |
| ISSN: | 1567-7257 1567-1348 |
| Popis: | This work is aimed at assessing the presence of positive selection and/or shifts of the evolutionary rate in a fast-expanding HIV-1 subtype F1 transmission cluster affecting men who have sex with men in Spain. We applied Bayesian coalescent phylogenetics and selection analyses to 23 full-coding region sequences from patients belonging to that cluster, along with other 19 F1 epidemiologically-unrelated sequences. A shift in the overall evolutionary rate of the virus, explained by positively selected sites in the cluster, was detected. We also found one substitution in Nef (H89F) that was specific to the cluster and experienced positive selection. These results suggest that fast transmission could have been facilitated by some inherent genetic properties of this HIV-1 variant. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|
Full Text from ScienceDirect