Evaluating biodiversity for coral reef reformation and monitoring on complex 3D structures using environmental DNA (eDNA) metabarcoding

The Science of The Total Environment, Journal Year: 2022, Volume and Issue: 856, P. 159051 - 159051

Published: Sept. 28, 2022

Quantifying coral reef biodiversity is challenging for cryptofauna and organisms in early life stages. We demonstrate the utility of eDNA metabarcoding as a tool comprehensively evaluating invertebrate communities on complex 3D structures reformation, role these play provisioning habitat organisms. design printing were used to create 18 tiles, which form artificial structures. was collected from scraping tile surfaces organismal biomass seawater samples around reefs Gulf Eilat/Aqaba, Red Sea. Metabarcoding targeted mitochondrial COI gene with specific primers marine biodiversity. provide first baseline capturing extensive information species abundance, richness, diversity. Tile tops had higher phylogenetic diversity despite abundance bottoms, highlighting detection cryptic eDNA. recommend restoration initiatives, especially structures, improve success evaluation

Language: Английский

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Framing Cutting-Edge Integrative Deep-Sea Biodiversity Monitoring via Environmental DNA and Optoacoustic Augmented Infrastructures

Frontiers in Marine Science, Journal Year: 2022, Volume and Issue: 8

Published: Jan. 12, 2022

Deep-sea ecosystems are reservoirs of biodiversity that largely unexplored, but their exploration and biodiscovery becoming a reality thanks to biotechnological advances (e.g., omics technologies) integration in an expanding network marine infrastructures for the seas, such as cabled observatories. While still its infancy, application environmental DNA (eDNA) metabarcoding approaches is revolutionizing monitoring capability. Indeed, analysis eDNA conjunction with collection multidisciplinary optoacoustic data, can provide more comprehensive deep-sea biodiversity. Here, we describe potential acquiring core component ecological capabilities through observatories docked Internet Operated Vehicles (IOVs), crawlers. Furthermore, critical overview four areas development: (i) Integrating imaging; (ii) Development repositories cross-linking other databases; (iii) Artificial Intelligence analyses imaging data; (iv) Benefits augmented conservation sustainable management Finally, discuss technical limitations recommendations future deep-sea. It hoped this review will frame direction exciting journey remote yet vulnerable our planet, overall aim understand hence manage protect vital resources.

Language: Английский

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Capturing marine microbiomes and environmental DNA: A field sampling guide

Frontiers in Microbiology, Journal Year: 2023, Volume and Issue: 13

Published: Jan. 12, 2023

The expanding interest in marine microbiome and eDNA sequence data has led to a demand for sample collection preservation standard practices enable comparative assessments of results across studies facilitate meta-analyses. We support this effort by providing guidelines based on review published methods field sampling experiences. major components considered here are environmental resource considerations, processing strategies, storage options, extraction protocols. It is impossible provide universal recommendations considering the wide range applications; rather, we information design fit-for-purpose To manage scope, focus prokaryotic microeukaryotic eDNA. Even with focused view, practical utility any approach depends multiple factors, including habitat type, available resources, experimental goals. broadly recommend enacting rigorous decontamination protocols, pilot guide filtration volume needed characterize target(s) minimize PCR inhibitor collection, prioritizing freezing over (only) addition buffer. An annotated list that test these parameters included more detailed investigation specific steps. illustrate an demonstrates methodologies, protocol aboard oceanographic vessel. These can aid decision-making process scientists interested sequencing microbiomes and/or

Language: Английский

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Towards eDNA informed biodiversity studies – Comparing water derived molecular taxa with traditional survey methods

Progress In Oceanography, Journal Year: 2024, Volume and Issue: 222, P. 103230 - 103230

Published: Feb. 27, 2024

Managing natural resources in a sustainable manner requires understanding the complexity of ecosystems and species that are associated with different parts ecosystem. Much this knowledge is derived from traditional sampling methods (e.g., types trawls). The analysis environmental DNA (eDNA) can provide increased knowledge, complementary to methods. In present pilot study, we sampled eDNA two geographical areas, north west Svalbard (NWS) southwestern Barents Sea (SWBS). combination trawling, visual identification mammals collection facilitated robust fish marine mammal diversity composition. Through 12S MiFish metabarcoding samples, found incorporating data provided an additional level information on both study areas. By adding trawl data, richness 32 49 taxa. Significant differences composition communities were detected by between Considering degradation dilution factors it postulated results represent resident long -transported other areas less likely.

Language: Английский

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Prospects and challenges of environmental DNA (eDNA) metabarcoding in mangrove restoration in Southeast Asia

Frontiers in Marine Science, Journal Year: 2023, Volume and Issue: 10

Published: Feb. 27, 2023

Species detection using environmental DNA (eDNA) is a biomonitoring tool that can be widely applied to mangrove restoration and management. Compared traditional surveys are taxa-specific time-consuming, eDNA metabarcoding offers rapid, non-invasive cost-efficient method for monitoring biodiversity characterising the spatio-temporal distribution of multiple taxa simultaneously. General guidelines well-established aquatic systems, but habitat-specific still lacking. Mangrove habitats, as priority ecosystems in Southeast Asia, present unique prospects challenges these regards. Environmental used (1) track functional recovery ecological restoration, (2) prioritise conservation areas, (3) provide early warning threats, (4) monitor threatened taxa, (5) response climate change, (6) support community-based restoration. However, potential applications have yet been realized Asia due technical challenges, lack standardised methods, difficulties defining community, data limitations, funding, infrastructure capacity. Successful implementation activities would encourage development data-driven coastal management equitable programs. Eventually, this promote Asia’s shared regional interests food security, defence conservation.

Language: Английский

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