ArticleProceedings of the National Academy of Sciences of the United States of America2020
Phylogenetic network analysis of SARS-CoV-2 genomes.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 514 papers, 4 of them syntheses that pooled it.
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Who cites it
514 citing papers in PubMed, 4 syntheses or guidelines pooled it.
- Transmissibility and pathogenicity of the severe acute respiratory syndrome coronavirus 2: A systematic review and meta-analysis of secondary attack rate and asymptomatic infection.Journal of infection and public health · 2022Pooled it
- The incubation period of COVID-19: a global meta-analysis of 53 studies and a Chinese observation study of 11 545 patients.Infectious diseases of poverty · 2021Pooled it
- Epidemiological and clinical characteristics of cancer patients with COVID-19: A systematic review and meta-analysis of global data.Cancer letters · 2021Pooled it
- Characterization of SARS-CoV-2 different variants and related morbidity and mortality: a systematic review.European journal of medical research · 2021Pooled it
- Near complete genome sequences from Southern Vietnam revealed local features of genetic diversity and intergenerational changes in SARS- CoV-2 variants in 2020-2021.BMC infectious diseases · 2023Trial
- Gapmers targeting conserved SARS-CoV-2 single-stranded regions reduce viral load and reshape inflammatory macrophage responses.iScience · 2026Article
- Heat Shock Protein Inhibitor Tanespimycin (17AAG) Suppresses SARS-CoV-2 Main Protease Activity and Is More Potent Than Clinically Approved Antiviral Nirmatrelvir.Chembiochem : a European journal of chemical biology · 2026Article
- Spatiotemporal dynamics of dengue: a town level study in Guangdong, China.BMC infectious diseases · 2026Article
- Ethical considerations and the social context of HIV phylogenetic research in uMkhanyakude district, KwaZulu-Natal, South Africa.Southern African journal of HIV medicine · 2026Article
- Genomics in Epidemiology and Disease Surveillance: An Exploratory Analysis.Life (Basel, Switzerland) · 2025Review
- Finding maximum common contractions between phylogenetic networks.Algorithms for molecular biology : AMB · 2025Article
- Patient-Related Metadata Reported in Sequencing Studies of SARS-CoV-2: Protocol for a Scoping Review and Bibliometric Analysis.JMIR research protocols · 2025Article
- The lives of cells, recorded.Nature reviews. Genetics · 2025Review
- Using minor variant genomes and machine learning to study the genome biology of SARS-CoV-2 over time.Nucleic acids research · 2025Article
- Machine Learning Early Detection of SARS-CoV-2 High-Risk Variants.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Drupacine as a potent SARS-CoV-2 replication inhibitorBiosafety and health · 2024Article
- Article
- Towards a Comprehensive Definition of Pandemics and Strategies for Prevention: A Historical Review and Future Perspectives.Microorganisms · 2024Review
- Population differentiation and dynamics of five pioneer species of Gaultheria from the secondary forests in subtropical China.BMC plant biology · 2024Article
- Phylo-geo haplotype network-based characterization of SARS-CoV-2 strains circulating in India (2020-2022).The Indian journal of medical research · 2024Article
454 more citing papers are in PubMed but not listed here.
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4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In a phylogenetic network analysis of 160 complete human severe acute respiratory syndrome coronavirus 2 (SARS-Cov-2) genomes, we find three central variants distinguished by amino acid changes, which we have named A, B, and C, with A being the ancestral type according to the bat outgroup coronavirus. The A and C types are found in significant proportions outside East Asia, that is, in Europeans and Americans. In contrast, the B type is the most common type in East Asia, and its ancestral genome appears not to have spread outside East Asia without first mutating into derived B types, pointing to founder effects or immunological or environmental resistance against this type outside Asia. The network faithfully traces routes of infections for documented coronavirus disease 2019 (COVID-19) cases, indicating that phylogenetic networks can likewise be successfully used to help trace undocumented COVID-19 infection sources, which can then be quarantined to prevent recurrent spread of the disease worldwide.
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