Genomic evidence for inbreeding depression and purging of deleterious genetic variation in Indian tigers

Proceedings of the National Academy of Sciences, Journal Year: 2021, Volume and Issue: 118(49)

Published: Nov. 30, 2021

Increasing habitat fragmentation leads to wild populations becoming small, isolated, and threatened by inbreeding depression. However, small may be able purge recessive deleterious alleles as they become expressed in homozygotes, thus reducing depression increasing population viability. We used whole-genome sequences from 57 tigers estimate individual mutation load a small-isolated two large-connected India. As expected, the had substantially higher average genomic (

Language: Английский

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Genetic architecture and lifetime dynamics of inbreeding depression in a wild mammal

Nature Communications, Journal Year: 2021, Volume and Issue: 12(1)

Published: May 20, 2021

Abstract Inbreeding depression is ubiquitous, but we still know little about its genetic architecture and precise effects in wild populations. Here, combine long-term life-history data with 417 K imputed SNP genotypes for 5952 Soay sheep to explore inbreeding on a key fitness component, annual survival. manifests long runs of homozygosity (ROH), which make up nearly half the genome most inbred individuals. The ROH landscape varies widely across genome, islands where 87% deserts only 4% individuals have ROH. consequences are severe; 10% increase individual F associated 60% reduction odds survival lambs, though decreases age. Finally, genome-wide association scan shows that many loci small five larger contribute

Language: Английский

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Conservation and the Genomics of Populations

Oxford University Press eBooks, Journal Year: 2022, Volume and Issue: unknown

Published: Feb. 10, 2022

Abstract Loss of biodiversity is among the greatest problems facing world today. Conservation and Genomics Populations gives a comprehensive overview essential background, concepts, tools needed to understand how genetic information can be used conserve species threatened with extinction, manage ecological or commercial importance. New molecular techniques, statistical methods, computer programs, principles, methods are becoming increasingly useful in conservation biological diversity. Using balance data theory, coupled basic applied research examples, this book examines phenotypic variation natural populations, principles mechanisms evolutionary change, interpretation from these conservation. The includes examples plants, animals, microbes wild captive populations. This third edition has been thoroughly revised include advances genomics contains new chapters on population genomics, monitoring, genetics practice, as well sections climate emerging diseases, metagenomics, more. More than one-third references were published after previous edition. Each 24 Appendix end Guest Box written by an expert who provides example presented chapter their own work. for advanced undergraduate graduate students genetics, resource management, biology, professional biologists policy-makers working wildlife habitat management agencies. Much will also interest nonprofessionals curious about role

Language: Английский

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Inbreeding depression explains killer whale population dynamics

Nature Ecology & Evolution, Journal Year: 2023, Volume and Issue: 7(5), P. 675 - 686

Published: March 20, 2023

Language: Английский

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Purging and accumulation of genetic load in conservation

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

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The expanding value of long-term studies of individuals in the wild

Nature Ecology & Evolution, Journal Year: 2022, Volume and Issue: 6(12), P. 1799 - 1801

Published: Nov. 8, 2022

Language: Английский

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Conservation management strategy impacts inbreeding and mutation load in scimitar-horned oryx

Proceedings of the National Academy of Sciences, Journal Year: 2023, Volume and Issue: 120(18)

Published: April 25, 2023

In an age of habitat loss and overexploitation, small populations, both captive wild, are increasingly facing the effects isolation inbreeding. Genetic management has therefore become a vital tool for ensuring population viability. However, little is known about how type intensity intervention shape genomic landscape inbreeding mutation load. We address this using whole-genome sequence data scimitar-horned oryx (Oryx dammah), iconic antelope that been subject to contrasting strategies since it was declared extinct in wild. show unmanaged populations enriched long runs homozygosity (ROH) have significantly higher coefficients than managed populations. Additionally, despite total number deleterious alleles being similar across strategies, burden homozygous genotypes consistently groups. These findings emphasize risks associated with mutations through multiple generations As wildlife continue diversify, our study reinforces importance maintaining genome-wide variation vulnerable direct implications one largest reintroduction attempts world.

Language: Английский

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Genomic Underpinnings of Population Persistence in Isle Royale Moose

Molecular Biology and Evolution, Journal Year: 2023, Volume and Issue: 40(2)

Published: Feb. 1, 2023

Island ecosystems provide natural laboratories to assess the impacts of isolation on population persistence. However, most studies persistence have focused a single species, without comparisons other organisms they interact with in ecosystem. The case study moose and gray wolves Isle Royale allows for direct contrast genetic variation isolated populations that experienced dramatically differing trajectories over past decade. Whereas wolf recently declined nearly extinction due severe inbreeding depression, has thrived continues persist, despite having low diversity being ∼120 years. Here, we examine patterns genomic underlying continued population. We document high levels population, roughly as at time its decline. manifests form intermediate-length runs homozygosity suggestive historical purging, contrasting long observed smaller Using simulations, confirm substantial purging likely occurred also notable increases load, which could eventually threaten viability term. Overall, our results demonstrate complex relationship between inbreeding, diversity, highlights use datasets computational simulation tools understanding factors enabling populations.

Language: Английский

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Selection, recombination and population history effects on runs of homozygosity (ROH) in wild red deer (Cervus elaphus)

Heredity, Journal Year: 2023, Volume and Issue: 130(4), P. 242 - 250

Published: Feb. 17, 2023

The distribution of runs homozygosity (ROH) may be shaped by a number interacting processes such as selection, recombination and population history, but little is known about the importance these mechanisms in shaping ROH wild populations. We combined an empirical dataset >3000 red deer genotyped at >35,000 genome-wide autosomal SNPs evolutionary simulations to investigate influence each factors on ROH. assessed focal comparison effect history. investigated role using both physical map genetic linkage search for found differences between populations types indicating that history local rate have Finally, we ran forward with varying histories, rates levels allowing us further interpret our data. These showed has greater than either or selection. show selection can cause genomic regions where common, only when effective size (N

Language: Английский

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Ancient Sheep Genomes Reveal Four Millennia of North European Short-Tailed Sheep in the Baltic Sea Region

Genome Biology and Evolution, Journal Year: 2024, Volume and Issue: 16(6)

Published: May 24, 2024

Abstract Sheep are among the earliest domesticated livestock species, with a wide variety of breeds present today. However, it remains unclear how far back this diversity goes, formal documentation only dating few centuries. North European short-tailed (NEST) often assumed to be oldest domestic sheep populations, even thought represent relicts expansions during Neolithic period reaching Scandinavia <6,000 years ago. This study sequenced genomes (up 11.6X) five from Baltic islands Gotland and Åland, Late (∼4,100 cal BP) historical times (∼1,600 CE). Our findings indicate that these ancient largely possessed genetic characteristics modern NEST breeds, suggesting substantial degree long-term continuity type in Sea region. Despite temporal spread, population analyses show high levels affinity between they also exhibit relatively when compared implying loss most last centuries associated breed formation recent bottlenecks. results shed light on development Northern Europe specifically as well their expansion domestication center general.

Language: Английский

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