Ebbs and Flows of Marine Biodiversity: Navigating Spatiotemporal Patterns of Environmental DNA in a Coastal Tidal Ecosystem DOI Creative Commons
Michelle Scriver, Ulla von Ammon, Xavier Pochon

et al.

Environmental DNA, Journal Year: 2024, Volume and Issue: 6(6)

Published: Nov. 1, 2024

ABSTRACT Environmental DNA (eDNA) offers an efficient approach to biodiversity monitoring and biosecurity surveillance in coastal ecosystems. Understanding eDNA dynamics tidal areas is critical for guiding sampling strategy design interpreting molecular detection results. In a field study conducted at Ōpua, Bay of Islands, Aotearoa, New Zealand, international marina with dynamic environment, we investigated patterns across local spatial temporal gradient. Hourly samples were collected from six stations around the marina, artificial shore structures channel, over 12‐h cycle. Detected eukaryotic communities assessed using metabarcoding analysis small‐subunit ribosomal RNA (18S rRNA) mitochondrial Cytochrome C Oxidase subunit I (COI) genes. This core community was screened marine nonindigenous species (NIS) online data screening app (ExPAT). Community composition varied significantly based on location time, most captured mid‐tide. The NIS exhibited inconsistent some (e.g., amphipod Monocorophium acherusicum ) space whereas other mussel Arcuatula senhousia consistently detected behaved similar community. Overall, species‐specific may be linked biology movement organism. results indicated slightly higher within 2 h low tide. For applications, users want prioritize near‐shore during tide, while mid‐tide provide more comprehensive insights into biomonitoring. Further studies multiple cycles marinas guide standardization biomonitoring biosurveillance strategies support their broader integration programs.

Language: Английский

A Long‐Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS‐MBON 2018–2020 DOI Creative Commons
Nauras Daraghmeh, Katrina Exter, Justine Pagnier

et al.

Molecular Ecology Resources, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 31, 2025

Molecular methods such as DNA/eDNA metabarcoding have emerged useful tools to document the biodiversity of complex communities over large spatio-temporal scales. We established an international Marine Biodiversity Observation Network (ARMS-MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with for genetic marine hard-bottom benthic communities. Here, we present data our first campaign comprising 56 ARMS units deployed in 2018-2019 and retrieved 2018-2020 across 15 observatories along coasts Europe adjacent regions. describe open-access set (image, metadata) explore show its potential ecological research. Our analysis shows that recovered more than 60 eukaryotic phyla capturing diversity up ~5500 amplicon sequence variants ~1800 operational taxonomic units, ~250 ~50 species per observatory cytochrome c oxidase subunit I (COI) 18S rRNA marker genes, respectively. Further, detected threatened, vulnerable non-indigenous often targeted biological monitoring. while deployment duration does not drive estimates, effort sequencing depth do. recommend should be at least 3-6 months during main growth season use resources efficiently possible post-sequencing curation is applied enable statistical comparison entities. suggest used programs long-term research encourage adoption ARMS-MBON protocols.

Language: Английский

Citations

0
Molecular tools for environmental monitoring: A review of metabarcoding studies applied to a strategic Italian Peninsula, the Apulian region DOI Open Access

Tagliabue Alice,

Giulia Furfaro, Paolo Di Stefano

et al.

Journal of Ecology and the Natural Environment, Journal Year: 2025, Volume and Issue: 17(1), P. 1 - 12

Published: Jan. 31, 2025

Language: Английский

Citations

0
Forest Plant Diversity Assessment Based on Remote Sensing: A Systematic Literature Review DOI Creative Commons

Zelalem Teshager,

Teshome Soromessa

Research Square (Research Square), Journal Year: 2025, Volume and Issue: unknown

Published: March 11, 2025

Abstract This document presents a systematic literature review on the assessment of forest plant diversity using remote sensing techniques. Forest plays crucial role in maintaining ecosystem stability and providing essential services. However, human activities pose significant threats to biodiversity, necessitating effective monitoring conservation efforts. biodiversity provides evidence-based data for programs decision-making. Traditional methods have limitations terms cost, time, spatial coverage. Remote data, other hand, offers flexible cost-effective approach monitor species diversity, explore diversity-productivity relationships, identify hotspots. paper highlights various approaches assess with focus The benefits drawbacks are discussed, along use Earth Observation satellite images, LiDAR unmanned aerial vehicles (UAVs) mapping vegetation biodiversity. case studies showcasing parameters across different ecosystems sensing. It analyzes temporal trend publications, publishers, authors this field, analysis study regions. Furthermore, discusses challenges identifies research areas improving its accuracy. Overall, comprehensive overview based emphasizes importance efforts, advancements technology, future directions enhance accuracy effectiveness monitoring.

Language: Английский

Citations

0
A Confidence Scoring Procedure for eDNA Metabarcoding Records and Its Application to a Global Marine Fish Dataset DOI Creative Commons
Andrea Polanco F., Romane Rozanski, Virginie Marques

et al.

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

Published: March 1, 2025

ABSTRACT Environmental DNA (eDNA) metabarcoding is changing the way biodiversity surveyed in many types of ecosystems. eDNA surveys are now commonly performed and integrated into monitoring programs public databases. Although it widely recognized that records require interpretation light taxonomy biogeography, there remains a range perceptions about how thoroughly should be evaluated which ones reported. Here, we present modular procedure, available as an R script, uses set five steps to assess confidence species‐level by assigning them score from 0 5. This procedure includes evaluations known geographic distribution each taxon, taxonomic resolution marker used, regional completeness reference database, diversification rate, map taxon. We tested on large‐scale marine fish dataset (572 samples) covering 15 ecoregions worldwide, poles tropics, using teleo mitochondrial 12S ribosomal gene. Our analysis revealed broad variation average among regions, with highest scores occurring along European Eastern Atlantic coasts. Generalized linear models applied record covariates highlighted significant influences latitude species richness low (< 2.5). The polar regions notably displayed high proportions scores, probably due limited databases marker. conclude only (> 2.5) medium (2.5) relatively low‐confidence correspond further investigation may after inspection ensure high‐quality records.

Language: Английский

Citations

0
Edna2iqi: An Edna/Random Forest-Based Prediction Tool that Accurately Predicts Ecological Status for Regulatory-Compliance DOI
Adam J. Wyness, Thorsten Stoeck, Barbara J. Morrissey

et al.

Published: Jan. 1, 2025

Language: Английский

Citations

0
Multi-Primer-Based Environmental DNA Survey for Vertebrate Biodiversity Monitoring in Protected Island Wetlands DOI Creative Commons

Gawoo Kim,

Yujin Kang, Youngkeun Song

et al.

Global Ecology and Conservation, Journal Year: 2025, Volume and Issue: unknown, P. e03474 - e03474

Published: Feb. 1, 2025

Language: Английский

Citations

0
Habitat management and restoration as missing pieces in flats ecosystems conservation and the fishes and fisheries that they support DOI Creative Commons
Lucas P. Griffin, Andy J. Danylchuk, Grace A. Casselberry

et al.

Fisheries, Journal Year: 2025, Volume and Issue: unknown

Published: Feb. 24, 2025

ABSTRACT Flats ecosystems are dynamic, shallow, nearshore marine environments that interconnected and provide immense ecological socio-economic benefits. These habitats support a diversity of fish populations various fisheries, yet they increasingly threatened by anthropogenic stressors, including overfishing, habitat degradation, coastal development, the cascading effects climate change. Effective management restoration essential but often missing for flats ecosystems. Despite navigating landscape imperfect knowledge these systems, decisive action implementation protection is currently needed through policy practice. We present comprehensive set 10 strategic guiding principles necessary integrating conservation flat include calls ecosystem-based ­management, adaptive strategies leverage diverse partnerships, scientific research, legislative initiatives, local traditional knowledge. Drawing on successes in other environmental realms, we emphasize importance evidence-informed approaches to address complexities uncertainties aim advance restoration, promoting integrity strengthening resilience important environments.

Language: Английский

Citations

0
Adaptive Sampling and Identification of Calanoid Copepods Using Acoustic Sensor Data and eDNA Metabarcoding: A Data-Driven Approach DOI Creative Commons
Lara Veylit, Stefania Piarulli, Julia Farkas

et al.

Journal of Marine Science and Engineering, Journal Year: 2025, Volume and Issue: 13(4), P. 685 - 685

Published: March 28, 2025

To achieve the aims of Convention on Biological Diversity’s 2030 Global Biodiversity Framework, management marine areas requires use cost- and time- effective monitoring biodiversity. Marine observation platforms are increasingly used for such activities. These allow data to be collected from a variety sensors simultaneously in real-time situ, providing opportunity both adapting where when sampling is performed using multiple streams more comprehensive information While some recent activities following an adaptive approach (in which adapted ecological phenomena as diel vertical migration), most still do not data-driven inform sampling). In this study, we eDNA metabarcoding monitor community copepods found high-latitude environment near Trondheim, Norway. We applied detect calanoid at seasonally contrasting time points acoustic sensor data. Acoustic were plankton net samples 24 h period, Calanoid migrate through water column throughout day avoid predation. results demonstrate how complimentary methods can combined robust biodiversity by confirming presence (or absence) relevant taxa.

Language: Английский

Citations

0
Insights in Pharmaceutical Pollution: The Prospective Role of eDNA Metabarcoding DOI Creative Commons
Charikleia Papaioannou,

George Geladakis,

Vasiliki Kommata

et al.

Toxics, Journal Year: 2023, Volume and Issue: 11(11), P. 903 - 903

Published: Nov. 5, 2023

Environmental pollution is a growing threat to natural ecosystems and one of the world’s most pressing concerns. The increasing worldwide use pharmaceuticals has elevated their status as significant emerging contaminants. Pharmaceuticals enter aquatic environments through multiple pathways related anthropogenic activity. Their high consumption, insufficient waste treatment, incapacity organisms completely metabolize them contribute accumulation in environments, posing all life forms. Various analytical methods have been used quantify pharmaceuticals. Biotechnology advancements based on next-generation sequencing (NGS) techniques, like eDNA metabarcoding, enabled development new for assessing monitoring ecotoxicological effects metabarcoding valuable biomonitoring tool pharmaceutical because it (a) provides an efficient method assess predict status, (b) identifies sources, (c) tracks changes levels over time, (d) assesses ecological impact pollution, (e) helps prioritize cleanup mitigation efforts, (f) offers insights into diversity composition microbial other bioindicator communities. This review highlights issue while emphasizing importance using modern NGS-based actions its environmental more consistently effectively.

Language: Английский

Citations

9
DNA metabarcoding as a tool for characterising the spatio-temporal distribution of planktonic larvae in the phylum Echinodermata DOI Creative Commons
Ilha Byrne, Cynthia Riginos, Sven Uthicke

et al.

Coral Reefs, Journal Year: 2024, Volume and Issue: 43(3), P. 717 - 731

Published: April 28, 2024

Abstract Metabarcoding is revolutionising the analysis of biodiversity in marine ecosystems, especially as it provides a means detecting and identifying cryptic life stages field samples. The planktonic larval stage many species underpins abundance distribution adult populations but challenging to characterise given small size larvae diffuse distributions pelagic waters. Yet, dynamics are key understanding phenomena observed populations, such boom-and-bust exhibited by some echinoderms. Rapid changes echinoderm population density can have significant effects on local benthic ecosystems. For example, outbreaks crown-of-thorns sea star (CoTS) Great Barrier Reef (GBR) led considerable declines coral cover. Here, we used DNA metabarcoding approach investigate spatio-temporal diversity GBR, including CoTS. Generalised linear mixed models revealed that richness, was significantly correlated with temporal variables (i.e. season year) which consistent expected fluctuations output based spawning periodicity. However, neither site-specific differences nor correlations between composition environmental, temporal, or spatial were found. This study validates utility approaches for characterising larvae, CoTS, could prove useful future monitoring efforts. Our findings suggest be better understand history analyses combining environmental (e.g., temperature, nutrients) oceanographic currents) data deliver valuable information factors influencing their distributions.

Language: Английский

Citations

1