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This document focuses on providing guidance for ensuring the quality of DNA extracted for Whole Genome Sequencing.

January 24, 2026Open Access

Supporting document for preparing high quality DNA for Whole Genome Sequencing

VMValeria MichelacciIstituto Superiore di Sanità

Key Points

This document focuses on providing guidance for ensuring the quality of DNA extracted for Whole Genome Sequencing.
Review of existing practices for DNA quality assessment
Consensus on essential quality checks for DNA extraction
Initial focus on pathogens like Listeria monocytogenes, Salmonella, and Shiga toxin-producing E. coli (STEC)
Identification of essential guidelines for DNA quality checks
Framework established for expanding guidelines to additional pathogens
Enhanced molecular typing data collection for targeted pathogens

Abstract

In the framework of the activities of the Inter EURLs Working Group on Next Generation Sequencing, the need for guidelines for checking the quality of extracted DNA to be used for sequencing was highlighted. This document is meant to provide guidance in this crucial preliminary step of the laboratory work to produce NGS data.It was agreed to start considering the three pathogens Listeria monocytogenes, Salmonella and Shiga toxin-producing E. coli (STEC), on which the Joint EFSA-ECDC molecular typing data collection is currently focused, with the aim of expanding the topic to other pathogens in a second step.

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