How Can Genomics Help or Hinder Wildlife Conservation? DOI Creative Commons
Thomas L. Schmidt, Joshua A. Thia, Ary A. Hoffmann

et al.

Annual Review of Animal Biosciences, Journal Year: 2023, Volume and Issue: 12(1), P. 45 - 68

Published: Oct. 3, 2023

Genomic data are becoming increasingly affordable and easy to collect, new tools for their analysis appearing rapidly. Conservation biologists interested in using this information assist management planning but typically limited financially by the lack of genomic resources available non-model taxa. It is therefore important be aware pitfalls as well benefits applying approaches. Here, we highlight recent methods aimed at standardizing population assessments genetic variation, inbreeding, forms load that help identify past ongoing patterns interchange between populations, including those subjected disturbance. We emphasize challenges some these need adequate bioinformatic support. also consider promises approaches understand adaptive changes natural populations predict future capacity.

Language: Английский

Genetic load: genomic estimates and applications in non-model animals DOI
Giorgio Bertorelle, Francesca Raffini, Mirte Bosse

et al.

Nature Reviews Genetics, Journal Year: 2022, Volume and Issue: 23(8), P. 492 - 503

Published: Feb. 8, 2022

Language: Английский

Citations

184
Landscape Genomics to Enable Conservation Actions: The California Conservation Genomics Project DOI Open Access
H. Bradley Shaffer, Erin Toffelmier,

Russ Corbett‐Detig

et al.

Journal of Heredity, Journal Year: 2022, Volume and Issue: 113(6), P. 577 - 588

Published: April 8, 2022

Abstract The California Conservation Genomics Project (CCGP) is a unique, critically important step forward in the use of comprehensive landscape genetic data to modernize natural resource management at regional scale. We describe CCGP, including all aspects project administration, collection, current progress, and future challenges. CCGP will generate, analyze, curate single high-quality reference genome 100–150 resequenced genomes for each 153 species projects (representing 235 individual species) that span ecological phylogenetic breadth California’s marine, freshwater, terrestrial ecosystems. resulting portfolio roughly 20 000 be analyzed with identical informatic genomic pipelines, providing overview hotspots within-species diversity, potential realized corridors connecting these hotspots, regions reduced diversity requiring rescue, distribution variation critical rapid climate adaptation. After 2 years concerted effort, full funding ($12M USD) has been secured, identified, funds distributed 68 laboratories 114 investigators drawn from 10 University campuses. remaining phases include completion collection analyses, delivery inferences state federal regulatory agencies help stabilize declines. aspirational goals are identify geographic long-term preservation biodiversity, prioritize those based on defensible criteria, provide foundational knowledge informs strategies both ecosystem levels.

Language: Английский

Citations

96
Purging and accumulation of genetic load in conservation DOI Creative Commons
Nicolás Dussex, Hernán E. Morales, Christine Grossen

et al.

Trends in Ecology & Evolution, Journal Year: 2023, Volume and Issue: 38(10), P. 961 - 969

Published: June 19, 2023

Our ability to assess the threat posed by genetic load small and declining populations has been greatly improved advances in genome sequencing computational approaches. Yet, considerable confusion remains around definitions of its dynamics, how they impact individual fitness population viability. We illustrate both selective purging drift affect distribution deleterious mutations during size decline recovery. show this impacts composition load, affects extinction risk recovery potential populations. propose a framework examine dynamics advocate for introduction estimates management endangered

Language: Английский

Citations

72
The contribution of historical processes to contemporary extinction risk in placental mammals DOI
Aryn P. Wilder, Megan A. Supple, Ayshwarya Subramanian

et al.

Science, Journal Year: 2023, Volume and Issue: 380(6643)

Published: April 27, 2023

Species persistence can be influenced by the amount, type, and distribution of diversity across genome, suggesting a potential relationship between historical demography resilience. In this study, we surveyed genetic variation single genomes 240 mammals that compose Zoonomia alignment to evaluate how effective population size (

Language: Английский

Citations

57
Neutral and adaptive genetic diversity in plants: An overview DOI Creative Commons
Mi Yoon Chung, Juha Merilä, Jialiang Li

et al.

Frontiers in Ecology and Evolution, Journal Year: 2023, Volume and Issue: 11

Published: Feb. 16, 2023

Genetic diversity is a prerequisite for evolutionary change in all kinds of organisms. It generally acknowledged that populations lacking genetic variation are unable to evolve response new environmental conditions (e.g., climate change) and thus may face an increased risk extinction. Although the importance incorporating into design conservation measures now well understood, less attention has been paid distinction between neutral (NGV) adaptive (AGV) variation. In this review, we first focus on utility NGV by examining ways quantify it, reviewing applications infer ecological processes, exploring its designing plant species. Against background, then summarize identify estimate AGV discuss potential use conservation. After comparing considering their pros cons context, conclude there urgent need better understanding role adaptation. To date, however, only few studies non-model species aimed at deciphering genomic basis complex trait Therefore, researchers practitioners should keep utilizing develop relevant strategies rare endangered until more estimates available.

Language: Английский

Citations

45
Too simple, too complex, or just right? Advantages, challenges, and guidance for indicators of genetic diversity DOI Creative Commons
Sean Hoban, Jessica M. da Silva, Alice C. Hughes

et al.

BioScience, Journal Year: 2024, Volume and Issue: 74(4), P. 269 - 280

Published: March 11, 2024

Abstract Measuring genetic diversity of wild species using DNA-based data remains resource intensive and time consuming for nearly all species. However, assessments are needed global conservation commitments, including the Convention on Biological Diversity, governments managers to evaluate progress, as well prioritizing populations preserve recover (e.g., via rescue). Recently, indicators were developed tracking reporting status trends hundreds The quantify two simple proxies within-population among-population adaptive potential: small effective population size (Ne < 500) loss genetically distinct populations. must balance scientific credibility, practicality, simplicity. In present article, we summarize advantages these pragmatic indicators, address critiques by scientists simplifying assumptions policymakers complexity, propose potential solutions next steps. We aim support practitioners putting into policy, action, legislation, reporting.

Language: Английский

Citations

18
Evolutionary population dynamics and conservation strategies for Salix baileyi - a species with extremely small populations DOI Creative Commons

Guang‐Nan Gong,

Yuan Wang, Ziyan Zhu

et al.

Global Ecology and Conservation, Journal Year: 2025, Volume and Issue: unknown, P. e03504 - e03504

Published: Feb. 1, 2025

Language: Английский

Citations

2
Purging of deleterious burden in the endangered Iberian lynx DOI Creative Commons
Daniel Kleinman‐Ruiz, María Lucena-Pérez, Beatriz Villanueva

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2022, Volume and Issue: 119(11)

Published: March 1, 2022

SignificanceThe dynamics of deleterious variation under contrasting demographic scenarios remain poorly understood in spite their relevance evolutionary and conservation terms. Here we apply a genomic approach to study differences the burden alleles between endangered Iberian lynx (Lynx pardinus) widespread Eurasian lynx). Our analysis unveils significantly lower former species that should be ascribed genetic purging, is, increased opportunities selection against recessive homozygotes due inbreeding caused by its smaller population size, as illustrated our analytical predictions. This research provides theoretical empirical evidence on purging certain conditions.

Language: Английский

Citations

69
Understanding Local Adaptation to Prepare Populations for Climate Change DOI
Mariah H. Meek, Erik A. Beever, Soraia Barbosa

et al.

BioScience, Journal Year: 2022, Volume and Issue: 73(1), P. 36 - 47

Published: Nov. 30, 2022

Abstract Adaptation within species to local environments is widespread in nature. Better understanding this adaptation critical conserving biodiversity. However, conservation practices can rely on species’ trait averages or broadly assume homogeneity across the range inform management. Recent methodological advances for studying provide opportunity fine-tune efforts managing and species. The implementation of these will allow us better identify populations at greatest risk decline because climate change, as well highlighting possible strategies improving likelihood population persistence amid change. In present article, we review recent study highlight ways tools be applied efforts. Cutting-edge are available help characterize adaptation. Indeed, increased incorporation management decisions may meet imminent demands a rapidly changing world.

Language: Английский

Citations

41
Divergent sensory and immune gene evolution in sea turtles with contrasting demographic and life histories DOI Creative Commons
Blair P. Bentley, Tomás Carrasco-Valenzuela, Elisa Ramos

et al.

Proceedings of the National Academy of Sciences, Journal Year: 2023, Volume and Issue: 120(7)

Published: Feb. 7, 2023

Sea turtles represent an ancient lineage of marine vertebrates that evolved from terrestrial ancestors over 100 Mya. The genomic basis the unique physiological and ecological traits enabling these species to thrive in diverse habitats remains largely unknown. Additionally, many populations have drastically declined due anthropogenic activities past two centuries, their recovery is a high global conservation priority. We generated analyzed high-quality reference genomes for leatherback ( Dermochelys coriacea ) green Chelonia mydas turtles, representing extant sea turtle families. These are highly syntenic homologous, but localized regions noncollinearity were associated with higher copy numbers immune, zinc-finger, olfactory receptor (OR) genes ORs related waterborne odorants greatly expanded turtles. Our findings suggest divergent evolution key gene families may underlie immunological sensory adaptations assisting navigation, occupancy neritic versus pelagic environments, diet specialization. Reduced collinearity was especially prevalent microchromosomes, greater content, heterozygosity, genetic distances between species, supporting critical role vertebrate evolutionary adaptation. Finally, diversity demographic histories starkly contrasted indicating had low yet stable effective population size, exhibit extremely compared other reptiles, harbor load reinforcing concern persistence under future climate scenarios. provide invaluable resources advancing our understanding best practices imperiled lineage.

Language: Английский

Citations

31