Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR
Open Access
- 3 December 2021
- journal article
- Published by F1000 Research Ltd in F1000Research
- Vol. 10, 1238
- https://doi.org/10.12688/f1000research.73825.1
Abstract
Threats to global biodiversity are increasingly recognised by scientists and the public as a critical challenge. Molecular sequencing technologies offer means to catalogue, explore, and monitor the richness and biogeography of life on Earth. However, exploiting their full potential requires tools that connect biodiversity infrastructures and resources. As a research infrastructure developing services and technical solutions that help integrate and coordinate life science resources across Europe, ELIXIR is a key player. To identify opportunities, highlight priorities, and aid strategic thinking, here we survey approaches by which molecular technologies help inform understanding of biodiversity. We detail example use cases to highlight how DNA sequencing is: resolving taxonomic issues; Increasing knowledge of marine biodiversity; helping understand how agriculture and biodiversity are critically linked; and playing an essential role in ecological studies. Together with examples of national biodiversity programmes, the use cases show where progress is being made but also highlight common challenges and opportunities for future enhancement of underlying technologies and services that connect molecular and wider biodiversity domains. Based on emerging themes, we propose key recommendations to guide future funding for biodiversity research: biodiversity and bioinformatic infrastructures need to collaborate closely and strategically; taxonomic efforts need to be aligned and harmonised across domains; metadata needs to be standardised and common data management approaches widely adopted; current approaches need to be scaled up dramatically to address the anticipated explosion of molecular data; bioinformatics support for biodiversity research needs to be enabled and sustained; training for end users of biodiversity research infrastructures needs to be prioritised; and community initiatives need to be proactive and focused on enabling solutions. For sequencing data to deliver their full potential they must be connected to knowledge: together, molecular sequence data collection initiatives and biodiversity research infrastructures can advance global efforts to prevent further decline of Earth’s biodiversity.Keywords
Funding Information
- Norges Forskningsråd (270068)
- Biotechnology and Biological Sciences Research Council (BB/CSP1720/1, BBS/E/T/000PR9817, BB/P016855/1, BBS/E/T/000PR9783, BB/CCG1720/1, BBS/E/T/000PR9814)
- Horizon 2020 (817580)
- Grantová Agentura České Republiky (21-17749S)
- Arcadia Fund
- Ministry of Education, Youth and Sports of the Czech Republic (LM2015047)
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (PP00P3_170664, PP00P3_202669)
This publication has 87 references indexed in Scilit:
- The Norway spruce genome sequence and conifer genome evolutionNature, 2013
- Signatures of Diversifying Selection in European Pig BreedsPLoS Genetics, 2013
- The SILVA ribosomal RNA gene database project: improved data processing and web-based toolsNucleic Acids Research, 2012
- Integrating Genome-based Informatics to Modernize Global Disease Monitoring, Information Sharing, and ResponseEmerging Infectious Diseases, 2012
- The ABCD of primary biodiversity data accessPlant Biosystems - An International Journal Dealing with all Aspects of Plant Biology, 2012
- Darwin Core: An Evolving Community-Developed Biodiversity Data StandardPLOS ONE, 2012
- The NCBI Taxonomy databaseNucleic Acids Research, 2011
- Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specificationsNature Biotechnology, 2011
- Taxonomic information exchange and copyright: the Plazi approachBMC Research Notes, 2009
- bold: The Barcode of Life Data System (http://www.barcodinglife.org)Molecular Ecology Notes, 2007