Environmental DNA reflects common haplotypic variation

Analysis of environmental DNA (eDNA) has gained widespread usage for taxonomically based biodiversity assessment. While interest in applying noninvasive eDNA monitoring for population genetic assessments has grown, its usage in this sphere remains limited. One barrier to uptake is that the effective...

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Bibliographic Details
Published in:Environmental DNA (Hoboken, N.J.) N.J.), 2023-09, Vol.5 (5), p.906-919
Main Authors: Adams, Clare I. M., Hepburn, Christopher, Jeunen, Gert‐Jan, Cross, Hugh, Taylor, Helen R., Gemmell, Neil J., Bunce, Michael, Knapp, Michael
Format: Article
Language:English
Subjects:
Biodiversity
conservation of natural resources
Deoxyribonucleic acid
DNA
Environmental DNA
fisheries
Fisheries management
Genetic diversity
Haliotis iris
Haplotypes
Laboratories
Marine environment
Monitoring
Population genetics
Seafood
Species
Tissues
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Summary:Analysis of environmental DNA (eDNA) has gained widespread usage for taxonomically based biodiversity assessment. While interest in applying noninvasive eDNA monitoring for population genetic assessments has grown, its usage in this sphere remains limited. One barrier to uptake is that the effectiveness of eDNA detection below the species level remains to be determined for multiple species and environments. Here, we test the utility of this emergent technology to obtain within‐species haplotypic variation of New Zealand (NZ) blackfoot pāua (Haliotis iris). We compare mitochondrial haplotype diversity recovered from marine eDNA samples against traditional tissue samples of blackfoot pāua collected at the same NZ coastal site. Targeting the ATP8‐ATP6 region, we recovered four mitochondrial haplotypes from eDNA versus six haplotypes from tissue samples. Three common haplotypes were recovered with both eDNA and tissue samples, while only one out of three rare haplotypes – represented in tissue samples by one individual each – was recovered with our eDNA methods. We demonstrate that eDNA monitoring is an effective tool for recovering common genetic diversity from pāua, although rare (
ISSN:2637-4943
2637-4943
DOI:10.1002/edn3.352