Brandt, David; Simunovic, Marina; Busche, Tobias; Haak, Markus; Belmann, Peter; Jünemann, Sebastian; Schulz, Tizian; Klages, Levin Joe; Vinke, Svenja; Beckstette, Michael; Pohl, Ehmke; Scherer, Christiane; Sczyrba, Alexander; Kalinowski, Jörn: Multiple Occurrences of a 168-Nucleotide Deletion in SARS-CoV-2 ORF8, Unnoticed by Standard Amplicon Sequencing and Variant Calling Pipelines. In: Viruses. Jg.13 H. 9. 2021
Inhalt
- Materials and Methods
- RNA Extraction and RT-qPCR Assays
- Nanopore Sequencing
- Illumina Sequencing
- Sanger Sequencing
- Bioinformatic and Data Analysis
- Phylogenetic and ORF8 Deletion Analyses
- Structural Computational Analysis of ORF8
- Results
- Nanopore Long-Read Amplicon Sequencing Identified a Large Deletion in ORF8 in an Infection Chain from a Local Hospital
- The Same 168 Bases Long Deletion Has Occurred Independently throughout Europe
- Standard Amplicon Sequencing and Variant Calling Pipelines Potentially Hide Other Large Deletions
- Discussion
- References