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Contextualising Samples: Supporting Reference Genomes Of European Biodiversity Through Sample And Associated Metadata Collection.

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Contextualising Samples: Supporting Reference Genomes Of European Biodiversity Through Sample And Associated Metadata Collection.

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Contextualising samples: supporting reference genomes of European biodiversity through sample and associated metadata

Astrid Böhne¹, Rosa Fernández², Jennifer A Leonard³

¹Leibniz Institute for the Analysis of Biodiversity Change, Museum Koenig Bonn, Centre for Molecular Biodiversity Research, Adenauerallee 127, 53113, Bonn, Germany. a.boehne@leibniz-lib.de.

Npj Biodiversity

|September 17, 2024

View abstract on PubMed

Summary

This summary is machine-generated.

The European Reference Genome Atlas (ERGA) developed standardized procedures for collecting and processing biological samples. This ensures high-quality genomic data for Europe's biodiversity, supporting the ERGA Pilot project.

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Area of Science:

Genomics
Biodiversity Research
Bioinformatics

Background:

The European Reference Genome Atlas (ERGA) consortium aims to create a comprehensive reference genome catalogue for Europe's eukaryotic biodiversity.
Biological samples are sourced through a pan-European network, necessitating standardized collection and processing protocols.
The ERGA Pilot project was launched to demonstrate the feasibility of this ambitious undertaking.

Purpose of the Study:

To detail the experiences and lessons learned by the ERGA Sampling and Sample Processing committee (SSP) in developing standardized operational procedures.
To support the ERGA Pilot project by establishing standards for sample metadata collection, species prioritization, and taxon-specific collection guidelines.
To share insights on incorporating FAIR and CARE principles, species prioritization, and workflow development for genomic resource initiatives.

Main Methods:

Formation of the ERGA Sampling and Sample Processing committee (SSP) with volunteer experts.
Development of standardized protocols for sample/specimen metadata collection.
Establishment of species prioritization criteria and taxon-specific collection guidelines, including logistics.
Implementation of FAIR (Findable, Accessible, Interoperable, Reusable) and CARE (Collective Benefit, Authority to Control, Responsibility, Ethics) principles.

Main Results:

Successful development of standardized operational procedures for sample collection and processing.
Established a clear pathway for sample providers to access the ERGA genomic resource production infrastructure.
Ensured adherence to ERGA's high-quality standards throughout the sample lifecycle.
Gained valuable experience in integrating FAIR and CARE principles into genomic data workflows.

Conclusions:

The ERGA SSP has successfully developed and implemented standardized procedures crucial for the ERGA mission.
The documented experiences provide a valuable resource for other genomics initiatives seeking to establish robust sample management workflows.
Standardization and adherence to ethical principles are key to generating high-quality, reliable genomic data for biodiversity research.