Summary

Scientists are embarking on the Biodiversity Cell Atlas project, a revolutionary initiative to map the variety of cell types across numerous species, enhancing our understanding of life’s evolution
The Atlas will inform diverse fields such as conservation, and biotechnology and will provide new insights into cellular functions
Researchers from EMBL’s European Bioinformatics Institute (EMBL-EBI) will provide expertise to ensure that the vast data from the Biodiversity Cell Atlas remains an open resource for the scientific community

The Biodiversity Cell Atlas is an emerging international initiative that aims to coordinate global efforts to chart cell types across many different species. The project is a joint effort of different research communities that develop and apply single-cell sequencing technology to build cell atlases of model organisms, sequence genomes of a diversity of species and compare single-cell genomics datasets.

The creation of a Biodiversity Cell Atlas would have profound implications for many different areas ranging from industrial applications, drug discovery and understanding the evolution of life. Comparing cell types across species and life stages has already revealed important insights that the Biodiversity Cell Atlas can eventually support and expand upon.

A living tapestry of cells

To understand biodiversity at the cellular level, the Biodiversity Cell Atlas will create detailed maps of all the different types of cells in many different organisms similar to those created as part of the Human Cell Atlas initiative. This requires collecting species in their natural habitat and finding ways of sequencing all the transcripts expressed inside each of these cells. Doing this at scale is a monumental effort requiring large-scale international collaborations.

One of the main hurdles of creating cell atlases for many different species is that scientists have yet to agree on a standard set of methodologies they can use to make comparing cell types across different species feasible in the first place. After addressing this, the next big challenge to overcome is how to process and store the huge amounts of data generated and make these accessible to the scientific community.

A collaborative effort led by Arnau Sebé-Pedrós at the Centre for Genomic Regulation (CRG) in Barcelona aims to develop, test and benchmark techniques required to chart cell types in many different species. Backed by a $3.8 million grant from the Gordon and Betty Moore Foundation, the project will lay the groundwork for the ambitious work to chart the diversity of the different cell types on Earth – the Biodiversity Cell Atlas.

“Our planet has a vast living tapestry of cells, each with specialised functions and structures and a unique evolutionary story,” said Arnau Sebé-Pedrós, ICREA Research Professor at the CRG. “This funding is a bold first step towards explaining each type of cell’s journey on Earth, knowledge that can illuminate how these foundational units of life have evolved over time and provide new insights into the functional diversity and interactions between organisms”

Understanding cellular biodiversity

Rapid advancements in sequencing technologies such as single-cell RNA sequencing have made creating cell atlases at scale possible. Cell atlases allow researchers to interrogate what each individual cell is doing at any given moment. However, there is no universal solution for creating cell atlases across animal, plant, fungus or other lifeforms. To address this challenge, the researchers will use this funding to test and benchmark methodologies for profiling single-cell atlases in non-model organisms.

Researchers at EMBL’s European Bioinformatics Institute (EMBL-EBI) and the Earlham Institute will help to tackle the challenge of data analysis, integration, storage and accessibility for the project. Standardised pipelines across the project will help ensure that everyone processes their data in the same way to enable accurate and meaningful comparisons between studies. The team will also create a comprehensive database for storing these cell atlases, fostering worldwide knowledge sharing and collaboration.

“This work has immense potential to advance our understanding of cellular biodiversity,” said Irene Papatheodorou, Team Leader at EMBL-EBI and soon to be Head of Data Science at the Earlham Institute. “I will continue this work at the Earlham Institute, where we have a shared vision of creating a coordinated effort with EMBL-EBI to host and make these data from the Biodiversity Cell Atlas openly available to help accelerate research in this field. We are at the cusp of a new era in biological discovery, where open data and international collaboration will allow us to chart the rich mosaic of life at a cellular level.”