Artículo
DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2
Yermanos, Alexander; Hong, Kai Lin; Agrafiotis, Andreas; Han, Jiami; Nadeau, Sarah; Valenzuela, Cecilia; Azizoglu, Asli; Ehling, Roy; Gao, Beichen; Spahr, Michael; Neumeier, Daniel; Chang, Ching Hsiang; Dounas, Andreas; Petrillo, Ezequiel
; Nissen, Ina; Burcklen, Elodie; Feldkamp, Mirjam; Beisel, Christian; Oxenius, Annette; Savic, Miodrag; Stadler, Tanja; Rudolf, Fabian; Reddy, Sai T.
Fecha de publicación:
12/2022
Editorial:
BioMed Central
Revista:
BMC Genomics
ISSN:
1471-2164
Idioma:
Inglés
Tipo de recurso:
Artículo publicado
Clasificación temática:
Resumen
Background: The continued spread of SARS-CoV-2 and emergence of new variants with higher transmission rates and/or partial resistance to vaccines has further highlighted the need for large-scale testing and genomic surveillance. However, current diagnostic testing (e.g., PCR) and genomic surveillance methods (e.g., whole genome sequencing) are performed separately, thus limiting the detection and tracing of SARS-CoV-2 and emerging variants. Results: Here, we developed DeepSARS, a high-throughput platform for simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2 by the integration of molecular barcoding, targeted deep sequencing, and computational phylogenetics. DeepSARS enables highly sensitive viral detection, while also capturing genomic diversity and viral evolution. We show that DeepSARS can be rapidly adapted for identification of emerging variants, such as alpha, beta, gamma, and delta strains, and profile mutational changes at the population level. Conclusions: DeepSARS sets the foundation for quantitative diagnostics that capture viral evolution and diversity.
Palabras clave:
CORONAVIRUS
,
RNA
,
GENOME
,
COVID-19
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Identificadores
Colecciones
Articulos(IFIBYNE)
Articulos de INST.DE FISIOL., BIOL.MOLECULAR Y NEUROCIENCIAS
Articulos de INST.DE FISIOL., BIOL.MOLECULAR Y NEUROCIENCIAS
Citación
Yermanos, Alexander; Hong, Kai Lin; Agrafiotis, Andreas; Han, Jiami; Nadeau, Sarah; et al.; DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2; BioMed Central; BMC Genomics; 23; 1; 12-2022; 1-16
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