A key lesson resulting from the COVID-19 pandemic is the importance of strong and agile genomic surveillance capabilities globally, to be able to react at pace to public health threats. Global experts share their personal learnings from the pandemic, and explain why tools and resources to strengthen genomic surveillance approaches are so important.
At the beginning of the pandemic, genomic researchers had to find innovative ways to urgently scale up their sequencing capacities. Some were able to draw on support from other scientists within their network until they could train and build up their teams, while others utilised students and staff volunteers to expand their output. “Working together with other teams and groups was the best option for us, because we could go further and produce more,” says Dr Paola Cristina Resende, Virologist, Oswaldo Cruz Institute (Brazil), “The power of collaboration was my greatest lesson.”
In Portsmouth, Dr Sam Robson, Lead Bioinformatician at the Centre for Enzyme Innovation (United Kingdom), had to quickly grow his lab team. He recalls that in the first few weeks of the pandemic, “there were only a small number of samples being sequenced, but they had a very big impact to help the local hospital, so we knew being able to upscale our output at pace would be critical.” For this reason, the ability of scientists across the world to be able to call upon researchers and bioinformaticians who were confident in genome sequencing and analysis was a hugely important component of the fight against COVID-19.
Labs also needed to embrace automated processes to streamline and standardise sequencing so that it could be shared with other facilities. “It’s so important that we share our data with the world so that they can make responsible decisions from it,” says Dr Senjuti Saha, Director and Scientist at the Child Health Research Foundation (Bangladesh).
Professor Christian Happi, Professor of Molecular Biology and Genomics and Director of the African Centre of Excellence for Genomics of Infectious Diseases (Nigeria), says that the biggest lesson he learnt from the pandemic was that “in Africa we are very dependent on others, and need to invest in necessary infrastructure, to ensure our own health security.” This inequality in genomic sequencing infrastructure is one of the key reasons why COG-Train exists today and aims to facilitate an increase in global genome sequencing and analysis capacity, alongside efforts from other organisations such as H3ABioNet, ARTIC Network, PhasAGE and SAGESA. Our training courses compliment other training offerings to help support global genomic surveillance efforts and pandemic preparedness.
We are therefore thrilled with our fourth COG-Train course, titled ‘A Practical Guide for SARS-CoV-2 Whole Genome Sequencing’. To date, over 1000 learners from over 100 countries have already joined the course. This free 3-week online training programme, housed on FutureLearn, provides tools and resources for capacity building aiming to strengthen genomics surveillance approaches.
By the end of this course learners can:
- Compare sequencing methodologies
- Critically evaluate different approaches to determine SARS-CoV-2 genomes and variants
- Apply SARS-CoV-2 sequencing best practices
- Identify ways in which to scale up SARS-CoV-2 sequencing
- Describe SARS-CoV-2 analysis pipelines
Sign up for the course by clicking here to register now.