6533b850fe1ef96bd12a8582
RESEARCH PRODUCT
Genome-scale analysis of evolutionary rate and selection in a fast-expanding Spanish cluster of HIV-1 subtype F1.
José M. CuevasElena DelgadoMichael M. ThomsonFrancisco DomínguezJuan ÁNgel Patiño-galindoFernando González-candelasLucía Pérez-álvarezRafael SanjuánMaría Teresa CuevasMónica Sánchezsubject
0301 basic medicineMicrobiology (medical)GenotypeBayesian probabilityGenome scaleEpitopes T-LymphocyteHIV InfectionsGenome ViralBiologyDisease clusterMicrobiologyArticlelaw.inventionMen who have sex with menCoalescent theoryEvolution MolecularSubtype F103 medical and health sciencesSex FactorslawPhylogeneticsDatabases GeneticGeneticsHumansSelection GeneticSelectionMolecular BiologyAntigens ViralEcology Evolution Behavior and SystematicsSelection (genetic algorithm)PhylogenyRecombination GeneticGenomicsMen who have sex with men030104 developmental biologyInfectious DiseasesTransmission (mechanics)Evolutionary biologySpainHIV-1Transmission clusterdescription
Abstract 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.
| year | journal | country | edition | language |
|---|---|---|---|---|
| 2018-01-01 | Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases |