global-reference-genome-inequities-sequencing-resources-biodiversity

Global Reference Genome Inequities: The Critical Need for Sequencing Resources in Biodiverse Ecosystems

Introduction

Researchers from Montana State University and Universidad de los Andes have identified a notable imbalance in the distribution of tetrapod reference genomes, revealing a skewed focus on high-latitude regions rather than areas with the highest global biodiversity.

The Importance of Addressing Imbalance

The study indicates that the existing imbalance in global genomic knowledge related to ecology and evolutionary biology may significantly influence future conservation initiatives. This concern is heightened by the fact that most biological diversity resides in lower-latitude tropical regions.

The Role of Whole-Genome Sequencing (WGS)

Understanding Genetic Diversity

Whole-genome sequencing (WGS) serves as a crucial tool for:

• Exploring Genetic Diversity
• Pinpointing Adaptive Traits
• Inferring Evolutionary Relationships
• Identifying Genes with Specific Functions or Adaptations

These discernible features of a whole genome are the result of countless research projects that piece together individual gene functions across various life forms.

WGS in Conservation Genetics

Whole-genome sequencing (WGS) plays a vital role in conservation genetics by offering crucial information about the genetic health of populations. By highlighting patterns of genetic variation and inbreeding, these findings inform management practices designed to support the conservation of endangered species.

Findings from Recent Research

Publication Insights

In the publication "A Latitudinal Gradient of Reference Genomes" in the Journal Molecular Ecology, researchers reveal a significant bias in reference genomes and the identification of global tetrapod biodiversity, with a predominant concentration on species native to the Global North and midlatitudes.

Literature Review Findings

According to a Web of Science literature review on conservation genetics:

• 87% of the studies were conducted by authors from the Global North.
• WGS applications in the Global South contributing to only 1-2% of these studies.

Comparative Analysis of Datasets

Overview of Datasets

Researchers compared two datasets the Global Biodiversity Information Facility (GBIF) and the NCBI Genome Browser from the US National Institutes of Health, to analyze species sequencing priorities.

• NCBI is an open-access genomic research database that boasts the largest and most comprehensive array of sequenced genomes in the world.
• The Global Biodiversity Information Facility (GBIF) is a free online catalog that offers data on millions of species, promoting open access to information about all forms of life on Earth.

Findings from GBIF and NCBI

By refining a GBIF search to include preserved specimens from natural history museums and filtering for those with geolocation coordinates, researchers identified a total of 30,832 tetrapod specimens.

When comparing the pool of tetrapods to reference genomes accessible via the NCBI:

• Only 2,099 species (6.8%) possess assembled reference genomes.
• The majority of these sequenced species are derived from the Global North and mid-latitude regions, leaving tropical areas and the Global South significantly underrepresented. Moreover, within this limited 6.8% of species data.
• Only a small proportion originates from regions exhibiting the highest biodiversity.

The Need for Systematic Cataloging

Grounding Conservation Initiatives

Systematically cataloging Global biodiversity by location using whole-genome sequencing (WGS) is essential for grounding conservation initiatives in reliable data. An increase in sequencing data allows ecologists, evolutionary biologists, and conservation scientists to more effectively preserve the planet's diverse ecosystems and safeguard endangered species for future generations.

The Latent Function of Sequencing Data

Moreover, the authors discuss a latent function of sequencing data. Renowned scientific journals are increasingly formulating editorial guidelines that necessitate the inclusion of sequencing data, even if it is not crucial to every specific research question.

The Risk of Inaccessibility

If high-throughput sequencing resources are inaccessible to scientists working in regions where the majority of the world's species are found, we may not only be lacking certain data—we could be entirely overlooking it.

Conclusion:

The findings emphasize the urgent need for equitable access to genomic sequencing resources, particularly in biodiverse ecosystems.

Source

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