The European projects pooling data to defeat COVID-19
Futuris travels to Marseille and Cambridge to look at two European projects pooling and sharing data to help the scientific community beat COVID-19.
While one part of the scientific world is struggling to fight the SARS-Cov2 virus, institutes like the European Virus Archive in Marseille are making sure pathogens like it still exist.
Twelve years since its launch, the EVA has become one of the most important databases in the world. It holds more than 3000 products, including viruses, test substances and other types of material.
“This collection is a virtual collection. The idea was not to put all the viruses in the same place, like a Fort Knox of virology. The viruses remain in each laboratory,” says Jean Louis Romette, the EVA’s project coordinator.
This non-profit EU project makes it possible to rapidly supply scientists with the knowledge and material they need during a virus-related emergency.
“When the coronavirus appeared in China, our coronavirus researchers in the EVA organisation immediately saw that this virus was one of the SARS family, and they quickly developed a diagnostic system to detect the virus in patient samples,” Romette adds.
The Marseille-based Institute brings together nearly forty cutting-edge labs in human, animal and plant virological research. Its online catalog allows users to have access to genetic material and other various products. The coronavirus pandemic has led to a rise in online traffic: in just two months requests for diagnostic kits and viral strains have matched that which was received in the previous four years.
“When you have an emerging virus and there is very little data available about it, it’s very important to be able to compare it with other existing viruses, from the same family. So the bio-banks are useful in that sense, as they allow us to confront what is new with what already exists,” explains Christine Prat, EVA’s Market Strategy Developer.
The virological material is sent by research centres, laboratories, universities and specialised companies. Once it has arrived, it is tested, certified and filed in an online catalog, along with in-depth information that’s key for the scientific community.
Bruno Coutard is responsible for collating what the EVA receives.
“We are increasing the amount of information through cell culture techniques. Using cell cultures, we are able to grow the virus, produce it and distinguish it. Distinguishing is what we call sequencing – to get the complete genome sequence of the virus. This enables us to associate this virus with a known virus species,” he says.
Xavier Lamballerie, the Director of the EVA’s Emerging Virus Unit, says when an epidemic strikes it is important for scientists to be able to quickly rely on updated models and studies.
“During an epidemic you don’t have much time to work. Epidemics are usually short. If people work with different and poorly defined material, we’re never able to put all the studies together to compare them. The role of a reference collection like EVA is to provide very quickly, to as many partners as possible, the same products, very well identified, so that they can do research with them.”
The French institute has also been able to provide assistance to developing countries by sending reliable and simple to use testing kit.
“The EVA database allows us to prepare and react, to develop diagnostic tools, that are freeze-dried, so they are stable, at room temperature. They can be sent without being refrigerated. They are usable, extremely stable over time and laboratories can use them under conditions that are similar to those that are in the field,” says Virus Collection Supervisor, Remi Charrel.
The biology portal fighting the pandemic
The European Molecular Biology Laboratory or EMBL is one of the world’s most important centres for the study of molecular biology. Home to the European Bioinformatics Institute, in April a project called the European COVID-19 Data Platform, was launched to share the latest data on SARS-CoV-2.
Gathering information from research centres and hospitals, once analysed, it is made available to the rest of the international scientific community.
“Just over 50,000 people from over 170 countries have accessed it. So it shows that it is globally accessible and actually used as well. We have had over 2 million web requests coming through the portal and over 90,000 scientific articles available for download and research,” explains Amonida Zadissa, a Senior Scientific Services Officer.
Data, such as genome sequences, proteins and microscope observations are all uploaded onto a portal. The platform also includes analytical tools that enable researchers to study different sources of information.
Guy Cochrane is Team Leader for Data Coordination and Archiving: “The focus is on new data that have been produced from scientific studies, from public health, labs, from clinics and bringing all that together into a valuable whole, where the user is consuming the data and building the science on top, can navigate access and move around within the data that are all in one place.”
A network of data hubs
The COVID-19 Data Portal is seen as the first step to creating a wider network of SARS-CoV-2 data hubs. Eventually the information from these should provide a comprehensive picture for the global research community. Rolf Apweiler, the Director of European Molecular Biology Laboratory, says improving data and knowledge sharing is key.
“Our ambition is first to harvest all the data which is already deposited in a central data basis and bring that together in the portal and then connect to the genetics data which is gathered right now, and then finally to connect to the clinical data which is out there. So the usage is going up quite quickly. The uptake is great, we have a lot of feedback, a lot of future collaborations. So, it’s science working at his best.”
Scientists in Cambridge are clear that the fight against COVID-19 is a global one, but they are confident sharing data in this way will shorten the route to a vaccine.
_The European COVID-19 Data Platform is one of the actions of the ERAvsCorona Action Plan, an initiative from the European Commission and national authorities to tackle the coronavirus with 10 short-term research and innovation actions. The action plan builds on the overall objectives and tools of the European Research Area (ERA)._