Genomic surveillance of SARS-CoV-2 in the state of Delaware reveals tremendous genomic diversity
| العنوان: | Genomic surveillance of SARS-CoV-2 in the state of Delaware reveals tremendous genomic diversity |
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| المؤلفون: | Karl R. Franke, Robert Isett, Alan Robbins, Carrie Paquette-Straub, Craig A. Shapiro, Mary M. Lee, Erin L. Crowgey |
| المصدر: | PLoS ONE PLoS ONE, Vol 17, Iss 1 (2022) PLoS ONE, Vol 17, Iss 1, p e0262573 (2022) |
| سنة النشر: | 2021 |
| مصطلحات موضوعية: | RNA viruses, Viral Diseases, Genetic Linkage, Coronaviruses, Molecular biology, Geographical locations, Medical Conditions, Sequencing techniques, Phylogeny, Pathology and laboratory medicine, Data Management, Virus Testing, Vaccines, Multidisciplinary, High-Throughput Nucleotide Sequencing, Phylogenetic Analysis, RNA sequencing, Genomics, Medical microbiology, Phylogenetics, Infectious Diseases, Viruses, Medicine, RNA, Viral, SARS CoV 2, Pathogens, Research Article, Computer and Information Sciences, SARS coronavirus, Infectious Disease Control, Science, Genome, Viral, Microbiology, Diagnostic Medicine, Virology, Genetics, Humans, Evolutionary Systematics, Taxonomy, Medicine and health sciences, Evolutionary Biology, Biology and life sciences, SARS-CoV-2, Organisms, Viral pathogens, COVID-19, Covid 19, Viral Vaccines, Delaware, United States, Microbial pathogens, Research and analysis methods, Molecular biology techniques, North America, People and places |
| الوصف: | The use of next generation sequencing is critical for the surveillance of severe acute respiratory syndrome coronavirus 2, SARS-CoV-2, transmission, as single base mutations have been identified with differences in infectivity. A total of 1,459 high quality samples were collected, sequenced, and analyzed in the state of Delaware, a location that offers a unique perspective on transmission given its proximity to large international airports on the east coast. Pangolin and Nextclade were used to classify these sequences into 16 unique clades and 88 lineages. A total of 411 samples belonging to the Alpha 20I/501Y.V1 (B.1.1.7) strain of concern were identified, as well as one sample belonging to Beta 20H/501.V2 (B.1.351), thirteen belonging to Epsilon 20C/S:452R (B.1.427/B.1.429), two belonging to Delta 20A/S:478K (B.1.617.2), and 15 belonging to Gamma 20J/501Y.V3 (p.1). A total of 2217 unique coding mutations were observed with an average of 17.7 coding mutations per genome. These data paired with continued sample collection and sequencing will give a deeper understanding of the spread of SARS-CoV-2 strains within Delaware and its surrounding areas. |
| تدمد: | 1932-6203 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a8e3e46c2c2b5ef817f694790988285c https://pubmed.ncbi.nlm.nih.gov/35045124 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....a8e3e46c2c2b5ef817f694790988285c |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 19326203 |
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