Introduction to Pathogen Genomics for Public Health Webinar Series
Webinar: Wet-lab processes for pathogen whole genome sequencing
Part one: Tuesday 5 July 2022 14:00 - 17:00 (AEST)
Part two: Thursday 7 July 2022 14:00 - 17:00 (AEST)
Overview
Are you a clinical scientist, medical microbiologist or infectious diseases physician wanting to gain expertise in whole genome sequencing?
At this two-part webinar co-hosted by the Communicable Diseases Genomics Network (CDGN) and the Australian Pathogen Genomics Program, learn from leading experts and gain skills in Illumina and Nanopore (ONT) sequencing for bacterial and viral pathogens, nucleic acid extraction considerations and validation.
Learning outcomes
Key learning outcomes of the first webinar in the Introduction to Pathogen Genomics for Public Health Webinar Series include:
Knowledge of technical performance and considerations associated with sequencing techniques
Overview of genomic DNA/RNA extraction methods
Understanding of the role of positive, negative controls and reference strains
Introduction to the characteristics of key pathogens that impact on sequencing approaches
Webinar facilitators
Dr Susan Ballard, Principal Scientist, Microbiological Diagnostic Unit Public Health Laboratory
Dr Michelle Sait, Molecular Diagnostics Section Leader, Microbiological Diagnostic Unit Public Health Laboratory
Dr Irani Rathnayake, Senior Scientist, Forensic and Scientific Services, Queensland Health
Dr Louise Judd, Senior Genomic Laboratory Scientist, Doherty Applied Microbial Genomics
Dr Bethany Horsburgh, Research Associate, The Kirby Institute at UNSW Sydney
Dr Rikki Graham, Supervising Scientist, Forensic and Scientific Services, Queensland Health
Registration
Registration closed.
Program
Part one: Tuesday 5 July 2022 14:00 - 17:00 (AEST)
Overview of next generation sequencing - Dr Susan Ballard
Overview of second and third generation sequencing
Overview of implementation requirements for sequencing
Pre-analytical considerations for whole genome sequencing - Dr Michelle Sait
Understanding of the appropriate extraction method fit for purpose of sequencing (short and long read).
Understanding of best practice in measuring the quantity of nucleic acid and the impact of inhibitors.
Understanding the requirements for different species (ie bacterial, viral, parasite, fungi).
Understanding the role of positive and negative controls.
Sequencing 101: The Illumina platform - Dr Irani Rathnayake
An understanding of the technical performance, limitations and quality issues associated with sequencing library preparations and instruments.
How to manage batched sequencing of different species to ensure even sequence coverage across a variety of different genome sizes.
An understanding of sequencing capacity and how to choose the appropriate sequencing flow cell and instrument.
Understanding the role of spike-in, positive and negative controls.
Validating the sequencing platform - Dr Susan Ballard
An understanding of the performance measures required for platform validation and how they may be determined.
Part two: Thursday 7 July 2022 14:00 - 17:00 (AEST)
Sequencing 102: The Oxford Nanopore platform - Dr Louise Judd
An understanding of the technical performance, limitations and quality issues with ONT sequencing.
An understanding of sequencing capacity and real-time data capture.
Understanding the role of spike-in, positive and negative controls.
Sequencing 201: Viral genomics - Dr Bethany Horsburgh
An understanding of different library preparation and sequencing technologies applied to viral genomes and their limitations.
Sequencing 301: Metagenomics - Dr Rikki Graham
An understanding of the technical performance, limitations and quality issues with setting up a clinical metagenomics experiment
An understanding of the ethical challenges with clinical metagenomics