Comparing eDNA and eRNA Sampling Methodologies From Pond Environments

Aquatic Conservation Marine and Freshwater Ecosystems, Journal Year: 2025, Volume and Issue: 35(2)

Published: Feb. 1, 2025

ABSTRACT Molecular traces are increasingly being applied to assess the presence of species and communities. Studies on environmental DNA (eDNA) have, a large extent, become common practice in detection, but less studies have compared biodiversity estimations with more temporary RNA (eRNA). This study compares metabarcoding results from pond water obtained both molecule types by sequencing V4 region 18S rRNA marker. Water was collected two depths, 20 80 cm, filtered sequentially through filter porosities, 0.45 0.22 μm. Each cut half before fixation either 96% ETOH or RNAlater. The showed no differences between fixatives for molecule. Overall, estimates eDNA significantly overperformed eRNA, likely due higher concentrations terrestrial sources. Comparisons depths variation only, increasing levels found at upper layer. Both pore sizes captured distinctive compositions taxa, where about 30% diversity uniquely identified second, finer filter. Taken together, these findings imply that choice molecular marker, depth size affects pond.

Language: Английский

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An overlooked source of false positives in eDNA-based biodiversity assessment and management

Journal of Environmental Management, Journal Year: 2024, Volume and Issue: 358, P. 120949 - 120949

Published: April 23, 2024

Language: Английский

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Headwater refuges: Flow protects Austropotamobius crayfish from Faxonius limosus invasion

NeoBiota, Journal Year: 2023, Volume and Issue: 89, P. 71 - 94

Published: Nov. 8, 2023

This study explores the geospatial relationship between invasive crayfish species Faxonius limosus and native Austropotamobius bihariensis A. torrentium populations in Eastern Europe, identifying environmental factors which influence invasion. We used distribution modelling based on several climatic, geophysical water quality variables distributional data to predict sectors suitable for each within river network. Thus, we identified potentially connecting population clusters quantified degree of proximity competing species. These were then extensively surveyed with trapping hand searching, doubled by eDNA methods, order assess whether any or plague pathogen Aphanomyces astaci are present. The predictive models exhibited excellent performance successfully distinguished analysed expansion F. streams was found be limited flash-flood potential, resulting a range that is constrained lowland rivers. Field surveys neither nor presence connective sectors. Another interesting finding derived from screening efforts, among most extensive carried out across native, apparently healthy populations, existence latent infection an strain as A-haplogroup. Our results provide realistic insights long-term conservation species, appear naturally protected expansion. Conservation efforts can thus focus other relevant aspects, such ark-sites establishment preventing spread more dangerous virulent strains, even locations without direct contact hosts.

Language: Английский

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A new flow path: eDNA connecting hydrology and biology

Wiley Interdisciplinary Reviews Water, Journal Year: 2024, Volume and Issue: 11(6)

Published: July 29, 2024

Abstract Environmental DNA (eDNA) has revolutionized ecological research, particularly for biodiversity assessment in various environments, most notably aquatic media. analysis allows non‐invasive and rapid species detection across multiple taxonomic groups within a single sample, making it especially useful identifying rare or invasive species. Due to dynamic hydrological processes, eDNA samples from running waters may represent broad contributing areas, which is convenient biomonitoring perspective but also challenging, as knowledge required meaningful biological interpretation. Hydrologists could benefit address unsolved questions, concerning water movement through catchments. While naturally occurring abiotic tracers have advanced our understanding of age distribution catchments, example, current geochemical cannot fully elucidate the timing flow paths landscapes. Conversely, tracers, owing their immense diversity interactions with environment, offer more detailed information on sources stream. The informational capacity tracer, however, determined by ability interpret complex heterogeneity at study site, arguably requires both expertise. As data become increasingly available part campaigns, we argue that accompanying surveys observations enhance processes; identify opportunities, challenges, needs further interdisciplinary collaboration; highlight eDNA's potential bridge between hydrology biology, foster domains. This article categorized under: Science Water > Hydrological Processes Methods Life Nature Freshwater Ecosystems

Language: Английский

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Comparing the Fate of eDNA by Particle Sizes and Molecule Lengths in Recirculating Streams

Environmental DNA, Journal Year: 2025, Volume and Issue: 7(2)

Published: March 1, 2025

ABSTRACT The detection of environmental DNA (eDNA) has revolutionized aquatic species monitoring, yet interpreting eDNA data remains challenging due to gaps in our understanding ecology (i.e., origin, state, transport, and fate) variability how methods are applied across the literature. A crucial aspect complexity is that a heterogeneous mix components vary size other properties, thereby influencing interactions with environment diverse ways. In this study, we explore interplay between three particle sizes (the physical dimension eDNA‐containing particles) two molecule lengths (DNA base pairs) flowing water systems. Specifically, elucidated mechanisms governing removal different using set 24 recirculating mesocosms where varied light substrate conditions. Consistent previous observations, findings revealed substantial differences small large particles. biofilm‐colonized substrate, found higher rates for smaller particles, but larger particles were removed more quickly presence any substrate. Importantly, also biofilm removes longer molecules faster, shedding on probable mechanism underlying longstanding association biofilm. Despite colonization faster molecules, analyzed (86 387 exhibited somewhat consistent behavior. combination, observations highlight an important predictor fate, fate shows few varying lengths. Furthermore, work suggests conclusions regarding from studies utilizing short markers applicable metabarcoding applications, which typically use marker

Language: Английский

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Detecting Environmental DNA From Crested and Smooth Newts—Not as Straight Forward as Filtering a Drop of Water

Aquatic Conservation Marine and Freshwater Ecosystems, Journal Year: 2025, Volume and Issue: 35(3)

Published: March 1, 2025

ABSTRACT Environmental DNA methodologies are constantly being developed and optimized for specific purposes. This paper summarizes 3 years of water‐sampling filtering method development, with the aim to reliably detect quantify eDNA from great crested newts smooth established monitoring ponds, using species‐specific assays droplet digital PCR (ddPCR). Both newt species were caught in traps all ponds during three sampling years. For first year, water was collected separate positions within each pond filtered individually through a 0.45‐μm PES filter. Overall, replicates resulted 26% false negatives, including where only one‐third samples positive. Positive results sites also showed high variance concentration (the highest across filters nine ddPCRs: 1987 ± 1789). second subsamples different mixed before two filters. approach reduced overall variation batch variance: 7355 4147). However, few did still not (9%–10%). third test potential effects stratification seasonal on probability detection, both surface layer 30 cm below four five times main mating period. In addition, filter type changed 2.0‐μm glass fibre increase volume. Despite average 1 L more compared this produced higher number negatives. Optimizing methods season is needed applying managemental monitoring.

Language: Английский

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Monitoring Atlantic Salmon (Salmo salar) Smolt Migration in a Large River System Using Environmental DNA

Environmental DNA, Journal Year: 2025, Volume and Issue: 7(2)

Published: March 1, 2025

ABSTRACT Effective monitoring strategies are key for aquatic species conservation, but traditional methods often require significant resources, especially in large systems. The emergence of quantitative environmental DNA (eDNA) is a promising alternative. Yet, few studies have evaluated the possibility quantifying Atlantic salmon abundance with eDNA when individuals at low and occur river In this study, we tested efficacy to monitor quantify daily variation smolt counts during their downstream migration system smolts. During 2021 2022 migrations, trap nets were used conduct census smolts Romaine Puyjalon rivers (Québec, Canada) while samples collected over transect perpendicular riverbank. Using real‐time qPCR, showed that discharge‐corrected concentrations positively correlated both years. addition, found controlling temperature precipitation improved model transferability between years, showing importance considering correlates using quantification. Finally, on same day, not 1 or 2 days prior, highlighting capacity track fluctuations abundance. Our results underscore potential systems hydrology conditions documented.

Language: Английский

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Parameterizing the particle size distribution of environmental DNA provides insights into its improved availability from the water

Environmental Monitoring and Assessment, Journal Year: 2025, Volume and Issue: 197(5)

Published: April 8, 2025

Language: Английский

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Spatial dispersal of environmental DNA particles in lentic and marine ecosystems: An overview and synthesis

Ecological Indicators, Journal Year: 2025, Volume and Issue: 174, P. 113469 - 113469

Published: April 15, 2025

Language: Английский

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Sampling eDNA at outflows from artificial drainage systems: what is the potential to monitor landscape degradation?

Environmental Monitoring and Assessment, Journal Year: 2025, Volume and Issue: 197(5)

Published: April 26, 2025

Language: Английский

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