Frontiers in Virology | Viral Diversification and Evolution section | New and Recent Articles https://www.frontiersin.org/journals/virology/sections/viral-diversification-and-evolution RSS Feed for Viral Diversification and Evolution section in the Frontiers in Virology journal | New and Recent Articles en-us Frontiers Feed Generator,version:1 2026-05-14T20:11:10.350+00:00 60 https://www.frontiersin.org/articles/10.3389/fviro.2025.1696495 https://www.frontiersin.org/articles/10.3389/fviro.2025.1696495 <![CDATA[Editorial: Epidemiology and control of blood-borne viruses in low- and middle-income countries: genomic insights and public health strategies]]> 2025-10-13T00:00:00Z Editorial Nidia S. TrovaoSana TamimMarceline Djuidje Ngounoue https://www.frontiersin.org/articles/10.3389/fviro.2025.1619249 https://www.frontiersin.org/articles/10.3389/fviro.2025.1619249 <![CDATA[Current trends in the epidemiology and management of viral co-infections and comorbidities in Africa: a systematic review]]> 2025-08-01T00:00:00Z Systematic Review Axel Cyriaque AmbassaFabrice ChethkwoElise GuiedemBrenda Grace LeleIronne Valdese Ayemfouo FofouMarceline Djuidje Ngounoue https://www.frontiersin.org/articles/10.3389/fviro.2024.1527580 https://www.frontiersin.org/articles/10.3389/fviro.2024.1527580 <![CDATA[Editorial: Impact of the SARS-CoV-2 pandemic on the evolution and epidemiology of other viruses]]> 2024-12-19T00:00:00Z Editorial Alfonso J. Rodríguez-MoralesJorge X. Velasco-HernándezAndreu Comas-Garcia https://www.frontiersin.org/articles/10.3389/fviro.2024.1399993 https://www.frontiersin.org/articles/10.3389/fviro.2024.1399993 <![CDATA[An overview of SARS-CoV-2 viral proteins with relevance to improved diagnostic and therapeutic platforms]]> 2024-10-03T00:00:00Z Review Christopher ChungPratiba IrudayarajEmran LallowZiyang XuYoung K. ParkSagar B. KudchodkarLuis J. MontanerAlagarsamy SrinivasanKar Muthumani https://www.frontiersin.org/articles/10.3389/fviro.2024.1465702 https://www.frontiersin.org/articles/10.3389/fviro.2024.1465702 <![CDATA[Editorial: Characterization of HIV-1 variants: implications for HIV-1 prevention, treatment and cure]]> 2024-08-16T00:00:00Z Editorial Jaclyn K. MannMarcel TongoTakamasa Ueno https://www.frontiersin.org/articles/10.3389/fviro.2024.1433931 https://www.frontiersin.org/articles/10.3389/fviro.2024.1433931 <![CDATA[Phylogenetic-based methods for fine-scale classification of PRRSV-2 ORF5 sequences: a comparison of their robustness and reproducibility]]> 2024-08-13T00:00:00Z Original Research Kimberly VanderWaalNakarin PamornchainavakulMariana KikutiDaniel C. L. LinharesGiovani TrevisanJianqiang ZhangTavis K. AndersonMichael ZellerStephanie RossowDerald J. HoltkampDennis N. MakauCesar A. CorzoIgor A. D. Paploski 55% of the U.S. pig population. In total, we compared 140 approaches that differed in their tree-building method, criteria, and thresholds for defining variants within phylogenetic trees. Three approaches resulted in variant classifications that were reproducible and robust even when the input data or input phylogenies were changed. For these approaches, the average genetic distance among sequences belonging to the same variant was 2.1–2.5%, and the genetic divergence between variants was 2.5–2.7%. Machine learning classification algorithms were trained to assign new sequences to an existing variant with >95% accuracy, which shows that newly generated sequences can be assigned to a variant without repeating the phylogenetic and clustering analyses. Finally, we identified 73 sequence-clusters (dated <1 year apart with close phylogenetic relatedness) associated with circulation events on single farms. The percent of farm sequence-clusters with an ID change was 6.5–8.7% for our approaches. In contrast, ~43% of farm sequence-clusters had variation in their RFLP-type, further demonstrating how our proposed fine-scale classification system addresses shortcomings of RFLP-typing. Through identifying robust and reproducible classification approaches for PRRSV-2, this work lays the foundation for a fine-scale system that would more reliably group related field viruses and provide better resolution for decision-making surrounding disease management.]]> https://www.frontiersin.org/articles/10.3389/fviro.2024.1393475 https://www.frontiersin.org/articles/10.3389/fviro.2024.1393475 <![CDATA[HIV latency potential may be influenced by intra-subtype genetic differences in the viral long-terminal repeat]]> 2024-06-24T00:00:00Z Original Research Deelan Sudhir DoolabhPhilippe SelhorstCarolyn WilliamsonDenis ChoperaMelissa-Rose Abrahams https://www.frontiersin.org/articles/10.3389/fviro.2024.1379217 https://www.frontiersin.org/articles/10.3389/fviro.2024.1379217 <![CDATA[No detectable differences in Nef-mediated downregulation of HLA-I and CD4 molecules among HIV-1 group M lineages circulating in Cameroon, where the pandemic originated]]> 2024-05-29T00:00:00Z Original Research Nelson SonelaJaclyn MannCelestin GodweOumarou H. GoniMérime TchakouteNathalie NkoueTulio de OliveiraMark A. BrockmanZabrina L. BrummeThumbi Ndung’uMarcel Tongo https://www.frontiersin.org/articles/10.3389/fviro.2024.1363092 https://www.frontiersin.org/articles/10.3389/fviro.2024.1363092 <![CDATA[Evolutionary engineering and characterization of Sendai virus mutants capable of persistent infection and autonomous production]]> 2024-04-02T00:00:00Z Original Research Moe IwataRyoko KawabataNao MorimotoRyosuke F. TakeuchiTakemasa SakaguchiTakashi IrieFumitaka Osakada https://www.frontiersin.org/articles/10.3389/fviro.2023.1291996 https://www.frontiersin.org/articles/10.3389/fviro.2023.1291996 <![CDATA[Evolution driven by a varying host environment selects for distinct HIV-1 entry phenotypes and other informative variants]]> 2023-11-16T00:00:00Z Review Shuntai ZhouNathan LongRonald Swanstrom https://www.frontiersin.org/articles/10.3389/fviro.2023.1253661 https://www.frontiersin.org/articles/10.3389/fviro.2023.1253661 <![CDATA[Dolutegravir resistance in sub-Saharan Africa: should resource-limited settings be concerned for future treatment?]]> 2023-09-25T00:00:00Z Mini Review Doreen KamoriGodfrey Barabona https://www.frontiersin.org/articles/10.3389/fviro.2023.1225818 https://www.frontiersin.org/articles/10.3389/fviro.2023.1225818 <![CDATA[Mixed viral infection constrains the genome formula of multipartite cucumber mosaic virus]]> 2023-09-07T00:00:00Z Original Research Dieke BoezenMaritta VermeulenMarcelle L. JohnsonRené A. A. van der VlugtCarolyn M. MalmstromMark P. Zwart https://www.frontiersin.org/articles/10.3389/fviro.2023.1221156 https://www.frontiersin.org/articles/10.3389/fviro.2023.1221156 <![CDATA[Phylogenomic and population genetics analyses of extant tomato yellow leaf curl virus strains on a global scale]]> 2023-07-25T00:00:00Z Hypothesis and Theory Wendy G. MarchantHabibu MugerwaSaurabh GautamHamed Al-AqeelJane E. PolstonGabriel RennbergerHugh SmithBill TurechekScott AdkinsJudith K. BrownRajagopalbabu Srinivasan https://www.frontiersin.org/articles/10.3389/fviro.2023.1158703 https://www.frontiersin.org/articles/10.3389/fviro.2023.1158703 <![CDATA[The emergence of the Omicron XBB.1.5 variant in India: a brief report on clinical presentation of a few cases]]> 2023-06-02T00:00:00Z Perspective Jasmine SamalArjun BhugraVarun SuroliyaPramod GautamReshu AgarwalChhagan BihariEkta Gupta https://www.frontiersin.org/articles/10.3389/fviro.2023.1215709 https://www.frontiersin.org/articles/10.3389/fviro.2023.1215709 <![CDATA[Editorial: Predicting virus evolution: from genome evolution to epidemiological trends]]> 2023-05-19T00:00:00Z Editorial Mark P. ZwartAnne KupczokJaime Iranzo https://www.frontiersin.org/articles/10.3389/fviro.2023.1156012 https://www.frontiersin.org/articles/10.3389/fviro.2023.1156012 <![CDATA[Co-detection of respiratory syncytial virus with other respiratory viruses across all age groups before and during the COVID-19 pandemic]]> 2023-03-24T00:00:00Z Original Research Haya HayekJustin Z. AmarinYasmeen Z. QwaiderAsim KhanfarTess StopczynskiJonathan SchmitzJames D. ChappellJesse O. WrennAndrew J. SpiekerNatasha B. HalasaLeigh M. Howard https://www.frontiersin.org/articles/10.3389/fviro.2023.1066147 https://www.frontiersin.org/articles/10.3389/fviro.2023.1066147 <![CDATA[Detecting punctuated evolution in SARS-CoV-2 over the first year of the pandemic]]> 2023-02-23T00:00:00Z Original Research Kevin SuryaJacob D. GardnerChris L. Organ https://www.frontiersin.org/articles/10.3389/fviro.2022.1064882 https://www.frontiersin.org/articles/10.3389/fviro.2022.1064882 <![CDATA[In-depth genetic characterization of the SARS-CoV-2 pandemic in a two-year frame in North Macedonia using second and third generation sequencing technologies]]> 2023-01-04T00:00:00Z Original Research Maja VukovikjGolubinka BoshevskaElizabeta JanchevskaTeodora BuzharovaArdian PreshovaMilica SimovaAneta PeshnackaDragan KocinskiGordana KuzmanovskaShaban MemetiIcko Gjorgoski https://www.frontiersin.org/articles/10.3389/fviro.2022.1077155 https://www.frontiersin.org/articles/10.3389/fviro.2022.1077155 <![CDATA[Renewed global threat by the novel SARS-CoV-2 variants ‘XBB, BF.7, BQ.1, BA.2.75, BA.4.6’: A discussion]]> 2022-12-23T00:00:00Z Opinion Ranjan K. MohapatraAhmed MahalLV Simhachalam KutikuppalaMadhumita PalVenkataramana KandiAshish K. SarangiAhmad J. ObaidullahSnehasish Mishra https://www.frontiersin.org/articles/10.3389/fviro.2022.1047852 https://www.frontiersin.org/articles/10.3389/fviro.2022.1047852 <![CDATA[Corrigendum: Investigating the evolutionary origins of the first three SARS-CoV-2 variants of concern]]> 2022-10-07T00:00:00Z Correction Mahan GhafariQihan LiuArushi DhillonAris KatzourakisDaniel B. Weissman