Sustainable use and integration of enhanced infrastructure into routine WGS-based surveillance and outbreak investigation activities in Portugal

The Portuguese National Institute of Health (Instituto Nacional de Sa√∫de Dr. Ricardo Jorge - INSA) is the State reference laboratory whose mission is to contribute to public health gains through research and technological development. The Genomics and Bioinformatics Unit and the Technology and Innovation Unit at INSA have been in charge, over the last decade, of performing the genome-based surveillance of infectious diseases at the national level, including the monitoring of SARS-CoV-2 and Monkeypox virus emergence and dissemination. INSA successfully applied to the previous HERA Incubator funding mechanism through ECDC, which aimed at strengthening the Portuguese capacity for whole-genome sequencing (WGS) and/or RT-PCR essentially to respond to the COVID-19 pandemic. Considering the need to consolidate the implemented infrastructure and to optimize the processes and workflows between the various actors, we are now, with 'ÄúGENEO'Äù, addressing the following main lines of action: 'Ä¢ Extend and consolidate highly specialized human resources contracts and positions 'Ä¢ Ensure medium-term computer storage capacity for genomic data 'Ä¢ Implement a Quality management system for genomic sequencing 'Ä¢ Conduct training in genomic epidemiology for health professionals 'Ä¢ Develop efficient communication strategies of project results The aimed integrated laboratory management, WGS workflow optimization and enhanced data communication will allow the rapid detection of emerging cross-border pathogens and the robust monitoring of circulating microbial threats. This will strongly influence the decision making process at the level of national and international public health and will contribute for the elaboration and implementation of measures to control potential epidemics.