Whole genome sequencing (WGS) was performed using either Illumina MiSeq (Illumina Inc., USA), PacBio Sequel IIe (Pacific Biosciences Inc., USA) or Genexus Ion Torrent (Thermo Scientific, USA) platforms. SARS-CoV-2 WGS with Illumina MiSeq was performed on libraries prepared using Nextera DNA Flex Library kit (Illumina) according to the protocol described in [18 (link)]. For PacBio, the manufacturer’s Sequel IIe WGS workflow was used. Briefly, fourteen overlapping 2.5 kb amplicons based on primers designed by John-Eden Sebastian, University Sydney, Australia, tiled across the 29 kb genome was used. Finally, for Genexus sequencing, Thermo Fisher manufacturer’s instructions for the Ion AmpliSeq™ SARS‑CoV‑2 Research Panel workflow was used.
Pacbio sequel iie
Manufactured by Pacific Biosciences
Sourced in United States, China
The PacBio Sequel IIe is a high-throughput, long-read sequencing system designed for genomic research. It utilizes single-molecule, real-time (SMRT) sequencing technology to generate long, accurate reads that can help resolve complex genomic regions and provide insights into structural variations.
Automatically generated - may contain errors
2 protocols using pacbio sequel iie
1
SARS-CoV-2 Whole Genome Sequencing Protocols
2
Whole-Genome Sequencing of S. haemolyticus
Check if the same lab product or an alternative is used in the 5 most similar protocols
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Whole-genome sequencing of the two strains of S. haemolyticus were performed by Genewiz Biotechnology Co. Ltd. (Suzhou, China) using paired-end sequencing with Novaseq 6000 (Illumina, 2×150 bp paired-end reads) and long sequencing with PacBio Sequel IIe (Pacific Biosciences, 10–15 Kb insert whole-genome shotgun libraries). PacBio reads were assembled using the Hifiasm software15 (link) version 0.13-r308 and Canu16 (link) version 1.7. The genome assembly was then polished using Pilon software version 1.2217 (link) using Illumina reads. The assembled genomes of the two strains of S. haemolyticus were submitted to the National Center for Biotechnology Information (NCBI) GenBank database and annotated using the NCBI Prokaryotic Annotation Pipeline (PGAP).
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