Contrasting pollution responses of native and non-native fish communities in anthropogenically disturbed estuaries unveiled by eDNA metabarcoding

Journal of Hazardous Materials, Journal Year: 2024, Volume and Issue: 480, P. 136323 - 136323

Published: Nov. 9, 2024

Language: Английский

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eDNA metabarcoding reveals differences in fish diversity and community structure in Danjiang River

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: Nov. 27, 2024

Fish diversity, an important indicator of aquatic ecosystem health, is declining due to water pollution, overfishing, climate change, and invasive species. Effective surveying monitoring are required protect fish diversity. Here, a high-sensitivity environmental DNA (eDNA) metabarcoding technique was used investigate diversity in the Danjiang River, Shaanxi Province, China. In total, 59 species were identified eight orders, 19 families, 40 genera. Cypriniformes Perciformes main groups survey area, while Cyprinidae accounted for 50.85% total Rhinogobius similis (19%), Hemibarbus umbrifer (11%), Gnathopogon herzensteini (10%), Triplophysa stewarti (8%), Zacco platypus (7%) dominant Eight rare two exotic identified. Combined with analysis historical data, richness using eDNA significantly higher than that captured ground cages. Temperature, pH, oxidation-reduction potential factors affect spatial distribution communities. These results suggest could be new tool broad application prospects; however, local databases must improved. This study provides theoretical data methodological reference protecting managing Qinling Mountains.

Language: Английский

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Elucidating the Mitogenomic Blueprint of Pomadasys perotaei from the Eastern Atlantic: Characterization and Matrilineal Phylogenetic Insights into Haemulid Grunts (Teleostei: Lutjaniformes)

Biochemical Genetics, Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 25, 2024

Language: Английский

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Exploring Seasonal Variations in Fish Communities: A Study of the Yellow River Estuary and Its Adjacent Waters Using eDNA and Trawl Surveys

Fishes, Journal Year: 2024, Volume and Issue: 9(6), P. 192 - 192

Published: May 23, 2024

The Yellow River Estuary and its adjacent waters serve as crucial spawning, foraging, nursery areas for marine organisms, possessing abundant biological resources. Monitoring fish communities provides a baseline implementing the sustainable utilization of In this study, data were collected from 15 spring surface bottom sites 17 summer using eDNA trawl surveys. results showed that 37, 40, 35 species detected in (surface bottom) (surface), respectively, with 38 caught during trawling. dominant mainly belonged to Engraulidae Clupeiformes Gobiidae Perciformes summer, characterized by smaller-sized, short-lived, pelagic species. exhibited higher diversity than communities. NMDS analysis revealed degree seasonal differences there may be lack vertical stratification pH DO identified key environmental factors affecting community. Additionally, combination surveys was regarded superior survey method. Our study valuable information understanding waters, contributing fishery resource management conservation region.

Language: Английский

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Arctic char occurrence and abundance using environmental DNA

Freshwater Biology, Journal Year: 2023, Volume and Issue: 68(5), P. 781 - 789

Published: March 2, 2023

Abstract Our ability to rapidly monitor species is essential for effective resource management and establishing conservation practices. Current monitoring practices many fish are not across multiple habitats due limited resources, permit restrictions, etc. In response, environmental DNA (eDNA)‐based surveying programmes increasingly being developed applied meet the growing demands of local regulators managers. The Arctic char ( Salvelinus alpinus ), a economical societal importance, prime candidate eDNA surveillance as existing endemic populations threatened by human activity climate change. Here we tested effectiveness using survey transplanted north Wales, which represents southern extent geographic range. We used species‐specific quantitative polymerase chain reaction (qPCR) method assess occurrence estimated biomass (e.g., abundance) each sampled lakes. found present in four five lakes with detection increasing lake depth. Spatial distribution was be related spatial location or distance from inlet outlet lake. range previously documented concentrations measures. Following validation one lake, suggested that mid‐range measure estimate (from currently available literature) most likely, resulting 3,002–42,614 g/ha our estimates all sites. Environmental sampling an assessing offers informative base estimating population densities. spatially structured, might indicate transport dynamics more unpredictable than anticipated standard strategies should employ their design ensure adequate obtained collection efforts. With infeasibility traditional methods it continue test refine capabilities. These findings highlight usability strategy needed based known unknown locations species. also provide initial cross‐study framework abundances data uses builds on knowledge trends contrast study site‐specific assessments.

Language: Английский

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Exploring uncharted territory: new frontiers in environmental DNA for tropical fisheries management

Environmental Monitoring and Assessment, Journal Year: 2024, Volume and Issue: 196(7)

Published: June 14, 2024

Language: Английский

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Application of eDNA Metabarcoding in the Assessment of Fish Biodiversity in Philippine Mangroves: Challenges and Opportunities

Regional Studies in Marine Science, Journal Year: 2024, Volume and Issue: 77, P. 103642 - 103642

Published: June 24, 2024

Biodiversity assessments are important in designing mangrove conservation and restoration programs. In the Philippines, conventional biodiversity assessment methods (e.g., trap nets, fish visual census) can be time-consuming, labor-intensive, expensive. recent years, environmental DNA (eDNA) metabarcoding has been an emerging tool for rapid monitoring as it is fast, non-intrusive, provide broader detection of fauna. But, still subject to various field sampling laboratory analysis constraints. Here, we applied eDNA method document assess mangroves from two biogeographic regions Philippines: Oriental Mindoro West Philippine Sea Sorsogon Northern Sea. Using 12 S genetic markers water samples, detected 89 species 44 families. Only twelve were commonly both sites. Several found Philippine's list economically aquatic organisms while one (Epinephelus fuscoguttatus) was classified Vulnerable IUCN's Red List Threatened Species. Seventy-six percent more probably because sites within a seascape mangroves, seagrasses, coral reefs. contrast, lesser could limited points coastal fringes. Our results serve baseline data first obtained using this country. However, observed some limitations that should addressed improve method: (1) lack or absence comprehensive reference database specific organisms; (2) low reads which attributed insufficient on-site filtration due turbid seawaters common mangroves; (3) possible cross-contaminations affect comparative analyses. Despite these limitations, able demonstrate usefulness technique doing address knowledge gaps studies contribute its

Language: Английский

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Well-intentioned initiatives hinder understanding biodiversity conservation: an essay on a recent deep-learning image classifier for Amazonian fishes

Reviews in Fish Biology and Fisheries, Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 19, 2024

Language: Английский

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Advancing and Integrating ‘Biomonitoring 2.0' with New Molecular Tools for Marine Biodiversity and Ecosystem Assessments

CRC Press eBooks, Journal Year: 2023, Volume and Issue: unknown, P. 293 - 326

Published: Aug. 11, 2023

Global declines in biodiversity have become increasingly severe. Traditional monitoring approaches for assessing marine species distributions and abundances are time consuming, costly, manpower intensive. Fortunately, rapid progress of sequencing technologies from first-generation to high-throughput resulted improvements experimental techniques. These advances accelerated rates discovery identification, enabling community-level biomonitoring – the 'Biomonitoring 2.0' framework. Simultaneous multispecies identifications mixed-sample pools now mainstream with DNA metabarcoding, upscaling individual specimen ecosystem scale. In this review, we examine metabarcoding over last decade characterisation macrobiota microbial communities. By melding molecular techniques more traditional taxonomic tools, integrative Biomonitoring 2.0 approach is tailored improve overall effectiveness biomonitoring. As such, here assess its accuracy, expertise requirement, general applicability, time, cost-effectiveness, throughput We highlight various methodological challenges that must be considered during implementation, including completeness reference databases, representativeness read counts quantitative estimates, supplementation environmental RNA discerning live signals legacy DNA. Finally, conclude an outlook enhanced framework mass adoption by ecologists managers, as well prospects emerging detection surveillance.

Language: Английский

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Elucidating the mitogenomic blueprint of Pomadasys perotaei from the Eastern Atlantic: Characterization and matrilineal phylogenetic insights into haemulid grunts (Teleostei: Lutjaniformes)

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Oct. 7, 2024

The parrot grunt fish, Pomadasys perotaei, has a limited distribution in the eastern Atlantic Ocean and is an important species marine capture fisheries across several West African countries. Despite its ecological economic significance, mitogenomic information for this lacking. This study utilized next-generation sequencing to generate de novo mitogenome of P. perotaei from Sea. resulting 16,691 base pairs includes 13 protein-coding genes (PCGs), 22 transfer RNAs, two ribosomal AT-rich control region (CR). Most PCGs exhibit nonsynonymous (Ka) synonymous (Ks) substitution rates less than ‘1’, indicating strong negative selection haemulid fishes. Pomadasys contains four conserved domains, as seen other teleost’s, with polymorphic nucleotides that can be used population structures through amplification short mitochondrial gene fragments. Additionally, Bayesian phylogenetic analysis based on revealed non-monophyletic clustering pattern within matrilineal tree. Overall, structural characterization enhance our understanding genetic composition evolutionary history Indo-West Pacific Oceans.

Language: Английский

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