British And Irish project at forefront of global effort to map genomes of all life on Earth
The Darwin Tree of Life project, including a team from the Natural History Museum, is working to sequence the genomes of 70,000 species of animal, plant, fungi in Britain and Ireland as part of the Earth BioGenome Project.
The Earth BioGenome Project (EBP), a global effort to map the genomes of all plants, animals, fungi and other microbial life on Earth, is entering a new phase as it moves from pilot projects to full scale production sequencing. This new phase is marked with a collection of papers published in the Proceedings of the National Academies of Science, describing the goals, achievements to date and future plans of the largest coordinated effort in the history of biology.
One contribution focuses on the Darwin Tree of Life project which aims to sequence genomes for around 70,000 species in Britain and Ireland. The Darwin project, is at the forefront of this global effort, having submitted over 200 complete reference genomes to public databases in its first two years.
Without action to curb climate change and protect the health of global ecosystems, Earth is forecast to lose 50 per cent of its biodiversity by the end of this century. Creating a digital library of DNA sequences for all known eukaryotic life can help generate effective tools for preventing biodiversity loss and pathogen spread, monitoring and protecting ecosystems, and enhancing ecosystem services.
The EBP was launched in 2018 to meet this need. It aims to provide a complete DNA sequence catalogue of 1.8 million species of plants, animals, fungi and protists, covering the vast majority of species identified to date worldwide.
The goal for phase 1 of EBP, which runs until 2023, is to produce reference genomes representing around 9,400 taxonomic families. So far, affiliated projects1 have produced about 300 such reference genomes, with the majority of these coming from the Darwin Tree of Life project.
Professor Ian Barnes, Principal Investigator for the Darwin Tree of Life Project at the Natural History Museum, said: "For over a century, the Natural History Museum has collected species from across Britain and Ireland, and made those specimens available for visiting scientists and the public, to better understand the natural world. Now, with a team of universities, museums, botanic gardens and many other naturalists, we are using that expertise to find, identify and deliver specimens for genome sequencing, at a massive scale, for anyone in the world to work with."
The first phase of DToL has been successful in laying the foundation to move from sequencing a handful of species to sequencing all species in Britain and Ireland. This has required close collaboration between diverse communities of researchers with expertise in biodiversity, sequencing, genomics, and analysis. The result is an end-to-end process that assures integrity, accuracy, and quality in the genomes produced, capable of scaling up to sequence many thousands more by 2030.
Professor Mark Blaxter, Director of the Tree of Life programme at the Wellcome Sanger Institute, said: "As climate change, globalization of trade, and the degradation of agricultural and natural habitats drive the sixth mass extinction, it has never been more important to catalogue and understand the biodiversity of our planet. Openly accessible understanding of species' biology is a global good."
Michelle Hart, from the Royal Botanic Garden Edinburgh, said: "Centuries of natural history research have created a uniquely rich knowledge base on the diversity and ecology of the plants, animal and fungi of Britain and Ireland. This is a perfect system for deploying massive scale genome sequencing of all species to give unprecedented and transformative insights into the nature of biodiversity and how it functions."
With the groundwork done on EBP and affiliated projects, 2022 will see activity ramp up considerably. EBP expects 3,000 genomes to be sequenced in the year ahead, with DToL aiming to sequence and publish at least 2,000 reference genomes by the end of 2022.
Harris Lewin, chair of the EBP Working Group and Distinguished Professor of Evolution and Ecology at the University of California, Davis, said: "The special feature on the EBP captures the essence and excitement of the largest-scale coordinated effort in the history of biology. From fundamental science to breakthrough applications across a wide range of pressing global problems, such as preventing biodiversity loss and adapting food crops to climate change, the EBP's progress in sequencing eukaryotic life is humbling and inspiring. Achieving the ultimate goal of sequencing all eukaryotic life now seems within our reach."
Darwin Tree of Life project is funded by Wellcome.