Wildlife Population Genomics: Applications and Approaches

Barbosa, Soraia; Hendricks, Sarah A.; Funk, W. Chris; Rajora, Om P.; Hohenlohe, Paul A.

doi:10.1007/13836_2020_83

Cited by 10 publications

(5 citation statements)

References 271 publications

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“…Genetics has a long history of application in wildlife conservation (Frankham, 1995 ). Whole‐genome sequencing techniques and analysis of population genetics have provided new insights into the consequences of revealing population history, population structure and genetic diversity (Barbosa et al, 2020 ). In particular, information on genome‐wide variations is critical for researchers to advance their efforts to manage and conserve wildlife populations.…”

Section: Discussionmentioning

confidence: 99%

Chromosome‐scale genomes reveal genomic consequences of inbreeding in the South China tiger: A comparative study with the Amur tiger

Zhang

Lin

et al. 2022

Molecular Ecology Resources

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The South China tiger (Panthera tigris amoyensis, SCT) is the most critically endangered subspecies of tiger due to functional extinction in the wild. Inbreeding depression is observed among the captive population descended from six wild ancestors, resulting in high juvenile mortality and low reproduction. We assembled and characterized the first SCT genome and an improved Amur tiger (P. t. altaica, AT) genome named | 331

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Section: Discussionmentioning

confidence: 99%

Chromosome‐scale genomes reveal genomic consequences of inbreeding in the South China tiger: A comparative study with the Amur tiger

Zhang

Lin

et al. 2022

Molecular Ecology Resources

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“…Utilizing genomic tools such as genotyping-by-sequencing and whole genome sequencing can aid in identifying and understanding the relative importance of evolutionarily neutral and adaptative processes that shape species genetic composition (Hohenlohe et al 2019). These tools are being increasingly applied to refine our understanding of stock structure and for the conservation of species experiencing myriad threats (Flanagan et al 2018; Barbosa et al 2020; Formenti et al 2022). Genomic variation within a species is often uneven across its distribution.…”

Section: Introductionmentioning

confidence: 99%

Diving into broad-scale and high-resolution population genomics to decipher drivers of structure and climatic vulnerability in a marine invertebrate

Bourret,

Leung,

Puncher

et al. 2024

Preprint

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Species with widespread distributions play a crucial role in our understanding of climate change impacts on population structure. In marine species, population structure is often governed by both high connectivity potential and selection across strong environmental gradients. Despite the complexity of factors influencing marine populations, studying species with broad distribution can provide valuable insights into the relative importance of these factors and the consequences of climate-induced alterations across environmental gradients. We used the northern shrimpPandalus borealisand its wide latitudinal distribution to identify current drivers of population structure and predict the species vulnerability to climate change. Individuals sampled across 24° latitude were genotyped at high geographic- (54 stations) and genetic- (14,331 SNPs) resolutions to assess genetic variation and environmental correlations. Four populations were identified in addition to finer substructure associated to local adaptation. Geographic patterns of neutral population structure reflected predominant oceanographic currents, while a significant proportion of the genetic variation was associated with gradients in salinity and temperature. Adaptive landscapes generated using climate projections suggest a larger genomic offset in the southern extent of the P. borealis range, where shrimp had the largest adaptive standing genetic variation. Our genomic results combined with recent observations point to the non-recovery in southern regions and an impending vulnerable status in the regions at higher latitude forP. borealis. They also provide rare insights into the drivers of population structure and climatic vulnerability of a widespread meroplanktonic species, which is crucial to understand future challenges associated with invertebrates essential to ecosystem functioning.

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“…Utilizing genomic tools such as genotyping by sequencing can aid in identifying and understanding the relative importance of evolutionarily neutral and adaptative processes that shape species' genetic composition (Hohenlohe et al., 2019). These tools are being increasingly applied to refine our understanding of stock structure and for the conservation of species experiencing myriad threats (Barbosa et al., 2020; Flanagan et al., 2018; Formenti et al., 2022). Genomic variation within a species is often uneven across its distribution.…”

Section: Introductionmentioning

confidence: 99%

Diving into broad‐scale and high‐resolution population genomics to decipher drivers of structure and climatic vulnerability in a marine invertebrate

Bourret,

Leung,

Puncher

et al. 2024

Molecular Ecology

View full text Add to dashboard Cite

Species with widespread distributions play a crucial role in our understanding of climate change impacts on population structure. In marine species, population structure is often governed by both high connectivity potential and selection across strong environmental gradients. Despite the complexity of factors influencing marine populations, studying species with broad distribution can provide valuable insights into the relative importance of these factors and the consequences of climate‐induced alterations across environmental gradients. We used the northern shrimp Pandalus borealis and its wide latitudinal distribution to identify current drivers of population structure and predict the species' vulnerability to climate change. A total of 1514 individuals sampled across 24° latitude were genotyped at high geographic (54 stations) and genetic (14,331 SNPs) resolutions to assess genetic variation and environmental correlations. Four populations were identified in addition to finer substructure associated with local adaptation. Geographic patterns of neutral population structure reflected predominant oceanographic currents, while a significant proportion of the genetic variation was associated with gradients in salinity and temperature. Adaptive landscapes generated using climate projections suggest a larger genomic offset in the southern extent of the P. borealis range, where shrimp had the largest adaptive standing genetic variation. Our genomic results combined with recent observations point to further deterioration in southern regions and an impending vulnerable status in the regions at higher latitudes for P. borealis. They also provide rare insights into the drivers of population structure and climatic vulnerability of a widespread meroplanktonic species, which is crucial to understanding future challenges associated with invertebrates essential to ecosystem functioning.

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Wildlife Population Genomics: Applications and Approaches

Cited by 10 publications

References 271 publications

Chromosome‐scale genomes reveal genomic consequences of inbreeding in the South China tiger: A comparative study with the Amur tiger

Chromosome‐scale genomes reveal genomic consequences of inbreeding in the South China tiger: A comparative study with the Amur tiger

Diving into broad-scale and high-resolution population genomics to decipher drivers of structure and climatic vulnerability in a marine invertebrate

Diving into broad‐scale and high‐resolution population genomics to decipher drivers of structure and climatic vulnerability in a marine invertebrate

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