Detection of fish sedimentary <scp>DNA</scp> in aquatic systems: A review of methodological challenges and future opportunities
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- Grayson P. Huston
- School of Biology and Ecology University of Maine Maine Orono USA
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- Mark Louie D. Lopez
- Department of Biochemistry & Microbiology University of Victoria British Columbia Victoria Canada
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- Yuanyu Cheng
- Department of Biology McGill University Quebec Montreal Canada
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- Leighton King
- Department of Fish Ecology and Evolution, Eawag: Swiss Federal Institute of Aquatic Science and Technology Centre for Ecology, Evolution and Biogeochemistry Kastanienbaum Switzerland
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- Lucinda C. Duxbury
- School of Physics, Chemistry and Earth Sciences The University of Adelaide Adelaide Australia
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- Maïlys Picard
- Cawthron Institute Nelson New Zealand
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- Georgia Thomson‐Laing
- Cawthron Institute Nelson New Zealand
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- Erika Myler
- Department of Integrative Biology, College of Biological Science University of Guelph Ontario Guelph Canada
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- Caren C. Helbing
- Department of Biochemistry & Microbiology University of Victoria British Columbia Victoria Canada
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- Michael T. Kinnison
- School of Biology and Ecology University of Maine Maine Orono USA
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- Jasmine E. Saros
- School of Biology and Ecology University of Maine Maine Orono USA
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- Irene Gregory‐Eaves
- Department of Biology McGill University Quebec Montreal Canada
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- Marie‐Eve Monchamp
- Department of Biology McGill University Quebec Montreal Canada
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- Susanna A. Wood
- Cawthron Institute Nelson New Zealand
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- Linda Armbrecht
- Institute for Marine and Antarctic Studies University of Tasmania Tasmania Battery Point Australia
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- Gentile Francesco Ficetola
- Department of Environmental Sciences and Policy University of Milan Milan Italy
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- Lenka Kurte
- Núcleo Milenio INVASAL University of Concepción Concepción Chile
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- Jordan Von Eggers
- Department of Geology and Geophysics University of Wyoming Wyoming Laramie USA
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- Janice Brahney
- Watershed Sciences and Ecology Center Utah State University Utah Logan USA
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- Genevieve Parent
- Laboratory of Genomics, Maurice Lamontagne Institute Fisheries and Oceans Canada Quebec Mont‐Joli Canada
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- Masayuki K. Sakata
- Research Faculty of Agriculture Hokkaido University Hokkaido Japan
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- Hideyuki Doi
- Graduate School of Informatics Kyoto University Kyoto Japan
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- Eric Capo
- Department of Ecology and Environmental Science Umeå University Umeå Sweden
書誌事項
- 公開日
- 2023-08-28
- 資源種別
- journal article
- 権利情報
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- http://creativecommons.org/licenses/by-nc-nd/4.0/
- DOI
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- 10.1002/edn3.467
- 公開者
- Wiley
この論文をさがす
説明
<jats:title>Abstract</jats:title><jats:p>Environmental DNA studies have proliferated over the last decade, with promising data describing the diversity of organisms inhabiting aquatic and terrestrial ecosystems. The recovery of DNA present in the sediment of aquatic systems (sedDNA) has provided short‐ and long‐term data on a wide range of biological groups (e.g., photosynthetic organisms, zooplankton species) and has advanced our understanding of how environmental changes have affected aquatic communities. However, substantial challenges remain for recovering the genetic material of macro‐organisms (e.g., fish) from sediments, preventing complete reconstructions of past aquatic ecosystems, and limiting our understanding of historic, higher trophic level interactions. In this review, we outline the biotic and abiotic factors affecting the production, persistence, and transport of fish DNA from the water column to the sediments, and address questions regarding the preservation of fish DNA in sediment. We identify sources of uncertainties around the recovery of fish sedDNA arising during the sedDNA workflow. This includes methodological issues related to experimental design, DNA extraction procedures, and the selected molecular method (quantitative PCR, digital PCR, metabarcoding, metagenomics). By evaluating previous efforts (published and unpublished works) to recover fish sedDNA signals, we provide suggestions for future research and propose troubleshooting workflows for the effective detection and quantification of fish sedDNA. With further research, the use of sedDNA has the potential to be a powerful tool for inferring fish presence over time and reconstructing their population and community dynamics.</jats:p>
収録刊行物
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- Environmental DNA
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Environmental DNA 5 (6), 1449-1472, 2023-08-28
Wiley
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キーワード
詳細情報 詳細情報について
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- CRID
- 1360865814748141056
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- DOI
- 10.1002/edn3.467
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- HANDLE
- 2434/1022416
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- ISSN
- 26374943
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- 資料種別
- journal article
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- データソース種別
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- Crossref
- KAKEN
- OpenAIRE