Enhancing public health infectious disease response through the Australian Pathogen Genomics program (AusPathoGen):...

Area of Science:

• Public Health
• Genomics
• Infectious Disease Surveillance

Background:

• Pathogen genomics, particularly whole genome sequencing (WGS), is crucial for infectious disease surveillance and response.
• Evidence is limited on how WGS influences public health strategies and decision-making.
• The Australian Pathogen Genomics (AusPathoGen) program aims to address this gap.

Purpose of the Study:

• To evaluate the utility of whole genome sequencing (WGS) in informing public health responses to infectious diseases in Australia.
• To assess the impact of WGS on public health action and decision-making.
• To provide a framework for optimizing pathogen genomics programs.

Main Methods:

• A mixed-methods approach combining situation assessment surveys, expert elicitation, and case study analysis.
• Surveys will collect data on laboratory processes, practices, and costs associated with WGS.
• Case studies will analyze the influence of WGS on outbreak response using genomic and epidemiological data.

Main Results:

• Evaluation protocol for the AusPathoGen program presented.
• Methodology designed to systematically explore WGS utility in public health.
• Framework for assessing impact and informing resource allocation.

Conclusions:

• Comprehensive evaluation of pathogen WGS in Australia will enhance understanding of its application in public health.
• The evaluation methods are adaptable to global pathogen genomic surveillance systems.
• Systematic evaluation is vital for optimizing quality, efficiency, and resource allocation in pathogen genomics for improved public health.