Author: Marcolungo, L.; Beltrami, C.; Degli Esposti, C.; Lopatriello, G.; Piubelli, C.; Mori, A.; Pomari, E.; Deiana, M.; Scarso, S.; Bisoffi, Z.; Grosso, V.; Cosentino, E.; Maestri, S.; Lavezzari, D.; Iadarola, B.; Paterno, M.; Segala, E.; Giovannone, B.; Gallinaro, M.; Rossato, M.; Delledonne, M.
Title: ACoRE: Accurate SARS-CoV-2 genome reconstruction for the characterization of intra-host and inter-host viral diversity in clinical samples and for the evaluation of re-infections Cord-id: 0beey8tv Document date: 2021_1_26
ID: 0beey8tv
Snippet: We report Accurate SARS-CoV-2 genome Reconstruction (ACoRE), an amplicon-based viral genome sequencing workflow for the complete and accurate reconstruction of SARS-CoV-2 sequences from clinical samples, including suboptimal ones that would usually be excluded even if unique and irreplaceable. We demonstrated the utility of the approach by achieving complete genome reconstruction and the identification of false-positive variants in >170 clinical samples, thus avoiding the generation of inaccurat
Document: We report Accurate SARS-CoV-2 genome Reconstruction (ACoRE), an amplicon-based viral genome sequencing workflow for the complete and accurate reconstruction of SARS-CoV-2 sequences from clinical samples, including suboptimal ones that would usually be excluded even if unique and irreplaceable. We demonstrated the utility of the approach by achieving complete genome reconstruction and the identification of false-positive variants in >170 clinical samples, thus avoiding the generation of inaccurate and/or incomplete sequences. Most importantly, ACoRE was crucial to identify the correct viral strain responsible of a relapse case, that would be otherwise mis-classified as a re-infection due to missing or incorrect variant identification by a standard workflow.
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