eDNA in subterranean ecosystems: Applications, technical aspects, and future prospects

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eDNA in subterranean ecosystems : Applications, technical aspects, and future prospects. / Saccò, Mattia; Guzik, Michelle T.; van der Heyde, Mieke; Nevill, Paul; Cooper, Steven J. B.; Austin, Andrew D.; Coates, Peterson J.; Allentoft, Morten E.; White, Nicole E.

In: Science of the Total Environment, Vol. 820, 153223, 2022.

Research output: Contribution to journalJournal articlepeer-review

Harvard

Saccò, M, Guzik, MT, van der Heyde, M, Nevill, P, Cooper, SJB, Austin, AD, Coates, PJ, Allentoft, ME & White, NE 2022, 'eDNA in subterranean ecosystems: Applications, technical aspects, and future prospects', Science of the Total Environment, vol. 820, 153223. https://doi.org/10.1016/j.scitotenv.2022.153223

APA

Saccò, M., Guzik, M. T., van der Heyde, M., Nevill, P., Cooper, S. J. B., Austin, A. D., Coates, P. J., Allentoft, M. E., & White, N. E. (2022). eDNA in subterranean ecosystems: Applications, technical aspects, and future prospects. Science of the Total Environment, 820, [153223]. https://doi.org/10.1016/j.scitotenv.2022.153223

Vancouver

Saccò M, Guzik MT, van der Heyde M, Nevill P, Cooper SJB, Austin AD et al. eDNA in subterranean ecosystems: Applications, technical aspects, and future prospects. Science of the Total Environment. 2022;820. 153223. https://doi.org/10.1016/j.scitotenv.2022.153223

Author

Saccò, Mattia ; Guzik, Michelle T. ; van der Heyde, Mieke ; Nevill, Paul ; Cooper, Steven J. B. ; Austin, Andrew D. ; Coates, Peterson J. ; Allentoft, Morten E. ; White, Nicole E. / eDNA in subterranean ecosystems : Applications, technical aspects, and future prospects. In: Science of the Total Environment. 2022 ; Vol. 820.

Bibtex

@article{905e6f40e1764c9f8d74f52308b7da88,
title = "eDNA in subterranean ecosystems: Applications, technical aspects, and future prospects",
abstract = "Monitoring of biota is pivotal for the assessment and conservation of ecosystems. Environments worldwide are being continuously and increasingly exposed to multiple adverse impacts, and the accuracy and reliability of the biomonitoring tools that can be employed shape not only the present, but more importantly, the future of entire habitats. The analysis of environmental DNA (eDNA) metabarcoding data provides a quick, affordable, and reliable molecular approach for biodiversity assessments. However, while extensively employed in aquatic and terrestrial surface environments, eDNA-based studies targeting subterranean ecosystems are still uncommon due to the lack of accessibility and the cryptic nature of these environments and their species. Recent advances in genetic and genomic analyses have established a promising framework for shedding new light on subterranean biodiversity and ecology. To address current knowledge and the future use of eDNA methods in groundwaters and caves, this review explores conceptual and technical aspects of the application and its potential in subterranean systems. We briefly introduce subterranean biota and describe the most used traditional sampling techniques. Next, eDNA characteristics, application, and limitations in the subsurface environment are outlined. Last, we provide suggestions on how to overcome caveats and delineate some of the research avenues that will likely shape this field in the near future. We advocate that eDNA analyses, when carefully conducted and ideally combined with conventional sampling techniques, will substantially increase understanding and enable crucial expansion of subterranean community characterisation. Given the importance of groundwater and cave ecosystems for nature and humans, eDNA can bring to the surface essential insights, such as study of ecosystem assemblages and rare species detection, which are critical for the preservation of life below, as well as above, the ground.",
keywords = "Biomonitoring, Cave, Environmental DNA, Groundwater, Metabarcoding, Stygofauna, Subterranean ecology, Troglofauna",
author = "Mattia Sacc{\`o} and Guzik, {Michelle T.} and {van der Heyde}, Mieke and Paul Nevill and Cooper, {Steven J. B.} and Austin, {Andrew D.} and Coates, {Peterson J.} and Allentoft, {Morten E.} and White, {Nicole E.}",
note = "Publisher Copyright: {\textcopyright} 2022 The Authors",
year = "2022",
doi = "10.1016/j.scitotenv.2022.153223",
language = "English",
volume = "820",
journal = "Science of the Total Environment",
issn = "0048-9697",
publisher = "Elsevier",

}

RIS

TY - JOUR

T1 - eDNA in subterranean ecosystems

T2 - Applications, technical aspects, and future prospects

AU - Saccò, Mattia

AU - Guzik, Michelle T.

AU - van der Heyde, Mieke

AU - Nevill, Paul

AU - Cooper, Steven J. B.

AU - Austin, Andrew D.

AU - Coates, Peterson J.

AU - Allentoft, Morten E.

AU - White, Nicole E.

N1 - Publisher Copyright: © 2022 The Authors

PY - 2022

Y1 - 2022

N2 - Monitoring of biota is pivotal for the assessment and conservation of ecosystems. Environments worldwide are being continuously and increasingly exposed to multiple adverse impacts, and the accuracy and reliability of the biomonitoring tools that can be employed shape not only the present, but more importantly, the future of entire habitats. The analysis of environmental DNA (eDNA) metabarcoding data provides a quick, affordable, and reliable molecular approach for biodiversity assessments. However, while extensively employed in aquatic and terrestrial surface environments, eDNA-based studies targeting subterranean ecosystems are still uncommon due to the lack of accessibility and the cryptic nature of these environments and their species. Recent advances in genetic and genomic analyses have established a promising framework for shedding new light on subterranean biodiversity and ecology. To address current knowledge and the future use of eDNA methods in groundwaters and caves, this review explores conceptual and technical aspects of the application and its potential in subterranean systems. We briefly introduce subterranean biota and describe the most used traditional sampling techniques. Next, eDNA characteristics, application, and limitations in the subsurface environment are outlined. Last, we provide suggestions on how to overcome caveats and delineate some of the research avenues that will likely shape this field in the near future. We advocate that eDNA analyses, when carefully conducted and ideally combined with conventional sampling techniques, will substantially increase understanding and enable crucial expansion of subterranean community characterisation. Given the importance of groundwater and cave ecosystems for nature and humans, eDNA can bring to the surface essential insights, such as study of ecosystem assemblages and rare species detection, which are critical for the preservation of life below, as well as above, the ground.

AB - Monitoring of biota is pivotal for the assessment and conservation of ecosystems. Environments worldwide are being continuously and increasingly exposed to multiple adverse impacts, and the accuracy and reliability of the biomonitoring tools that can be employed shape not only the present, but more importantly, the future of entire habitats. The analysis of environmental DNA (eDNA) metabarcoding data provides a quick, affordable, and reliable molecular approach for biodiversity assessments. However, while extensively employed in aquatic and terrestrial surface environments, eDNA-based studies targeting subterranean ecosystems are still uncommon due to the lack of accessibility and the cryptic nature of these environments and their species. Recent advances in genetic and genomic analyses have established a promising framework for shedding new light on subterranean biodiversity and ecology. To address current knowledge and the future use of eDNA methods in groundwaters and caves, this review explores conceptual and technical aspects of the application and its potential in subterranean systems. We briefly introduce subterranean biota and describe the most used traditional sampling techniques. Next, eDNA characteristics, application, and limitations in the subsurface environment are outlined. Last, we provide suggestions on how to overcome caveats and delineate some of the research avenues that will likely shape this field in the near future. We advocate that eDNA analyses, when carefully conducted and ideally combined with conventional sampling techniques, will substantially increase understanding and enable crucial expansion of subterranean community characterisation. Given the importance of groundwater and cave ecosystems for nature and humans, eDNA can bring to the surface essential insights, such as study of ecosystem assemblages and rare species detection, which are critical for the preservation of life below, as well as above, the ground.

KW - Biomonitoring

KW - Cave

KW - Environmental DNA

KW - Groundwater

KW - Metabarcoding

KW - Stygofauna

KW - Subterranean ecology

KW - Troglofauna

U2 - 10.1016/j.scitotenv.2022.153223

DO - 10.1016/j.scitotenv.2022.153223

M3 - Journal article

C2 - 35063529

AN - SCOPUS:85123350634

VL - 820

JO - Science of the Total Environment

JF - Science of the Total Environment

SN - 0048-9697

M1 - 153223

ER -

ID: 291817145