![]() Because information about protocols from individual laboratories is generally difficult to obtain, the aims of the study were to identify whether large under-sequenced regions were present in deposited Delta variant genome sequences (from April to August 2021), to investigate the extent of the coverage dropout among all the currently available Delta sequences in six countries, and to propose simple PCR primer modifications to sequence the missing region, especially for the first circulating Delta variants observed in 2021 in Switzerland. In this study, we investigated whether the sequencing community adopted the new sets of primers, especially in the context of the spread of the Delta lineage, in July 2021. A new set of primers (v4) was designed to circumvent this issue in June 2021. The ARTIC v3 protocol for SARS-CoV-2 whole-genome sequencing, which relies on a large number of PCR primers, was among the first available early in the pandemic, but may be prone to coverage dropouts that result in incomplete genome sequences. The SARS-CoV-2 Delta variant, corresponding to the Pangolin lineage B.1.617.2, was first detected in India in July 2020 and rapidly became dominant worldwide. ![]() Institute for Infectious Diseases, University of Bern, Bern, Switzerland.Leib, Pascal Bittel, Stefan Neuenschwander and Alban Ramette * Terrazos Miani, Christian Baumann, Carole Grädel, Ronald Dijkman, Franziska Suter-Riniker, Stephen L. Loïc Borcard, Sonja Gempeler, Miguel A.
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