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Evolutionary Relationships through Genome Comparisons

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...

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Individual-based landscape genomics for conservation: An analysis pipeline.

E Anne Chambers^1,2, Anusha P Bishop^1,2, Ian J Wang^1,2

¹Department of Environmental Science, Policy, and Management, University of California Berkeley, Berkeley, California, USA.

Molecular Ecology Resources

|October 26, 2023

Summary

Landscape genomics uses environmental and genetic data to guide conservation efforts. A new R package, algatr, makes these powerful methods accessible for conservation biology applications.

Keywords:

conservation biology conservation genetics genetic diversity landscape genomics population structure spatial analysis

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Area of Science:

Conservation genetics
Landscape genomics
Biodiversity research

Background:

Genomic era provides high-resolution genetic data for conservation questions.
Shift from population-based to individual-based sampling offers robust genetic variation estimates.
Concerns about applying population-based methods to individual-based sampling hinder adoption.

Purpose of the Study:

To highlight the benefits of individual-based sampling in conservation.
To demonstrate how landscape genomics with individual-based sampling addresses conservation challenges.
To introduce a user-friendly R package for landscape genomic analysis.

Main Methods:

Landscape genomic approaches are detailed.
Individual-based sampling strategies are discussed.
A new R package, A Landscape Genomics Analysis Toolkit in R (algatr), is presented.

Main Results:

The algatr package offers a curated workflow of key landscape genomic methods.
It includes novel functionalities and extensive vignettes for accessibility.
The package aims to make landscape genomic approaches more applicable to conservation biology.

Conclusions:

Landscape genomics, combined with individual-based sampling, can answer fundamental conservation questions.
The algatr R package enhances the accessibility and application of these methods.
This toolkit supports informed conservation decisions by integrating landscape and genetic data.