eDNA metabarcoding of avocado flowers: ‘Hass’ it got potential to survey arthropods in food production systems?

Molecular Ecology Resources, Journal Year: 2023, Volume and Issue: 23(7), P. 1540 - 1555

Published: May 26, 2023

Abstract In the face of global biodiversity declines, surveys beneficial and antagonistic arthropod diversity as well ecological services that they provide are increasingly important in both natural agro‐ecosystems. Conventional survey methods used to monitor these communities often require extensive taxonomic expertise time‐intensive, potentially limiting their application industries such agriculture, where arthropods play a critical role productivity (e.g. pollinators, pests predators). Environmental DNA (eDNA) metabarcoding novel substrate, crop flowers, may offer an accurate high throughput alternative aid detection managed unmanaged taxa. Here, we compared detected with eDNA from agricultural species ( Persea americana —‘Hass’ avocado), two conventional techniques: digital video recording (DVR) devices pan traps. total, 80 flower samples, 96 h DVRs 48 trap samples were collected. Across three methods, 49 families identified, which 12 unique dataset. flowers revealed potential plant parasites. Alpha levels did not differ across although composition varied significantly, only 12% found be common all methods. has revolutionize way monitored agro‐ecosystems, detecting response pollinators climate change, diseases, habitat loss other disturbances.

Language: Английский

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A roadmap for biomonitoring in the 21st century: Merging methods into metrics via ecological networks

Advances in ecological research/Advances in Ecological Research, Journal Year: 2023, Volume and Issue: unknown, P. 1 - 34

Published: Jan. 1, 2023

Language: Английский

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Prospects of pollinator community surveillance using terrestrial environmental DNA metagenetics

Environmental DNA, Journal Year: 2023, Volume and Issue: 6(1)

Published: Dec. 21, 2023

Abstract Current pollinator survey methods exhibit bias, require highly‐trained practitioners, and are difficult to scale large sample sizes. High‐throughput sequencing of terrestrial eDNA could provide a complementary tool for studying communities, but have not been extensively evaluated. We conducted metagenetic analysis whole arthropod community from 20 flower seven honey bee‐collected pollen samples compared eDNA‐derived data with traditional netting‐based surveys the communities present during sampling. focused our on Anthophila (bees) detected eight bee genera belonging four families across COI, 16S, 28S markers. Results varied considerably by marker substrate. Detected were plausible study system about 43 percent total both net‐based surveys, though netting resulted in more detections wider diversity genera. Data sequenced controls suggest that identifications unlikely cross‐contamination. Our results demonstrate can be documented techniques choice substrate substantially influences detection. Future improvements required, appear well‐suited characterize diverse novel sampling perspectives within plant‐pollinator networks. efforts should focus improving selection markers available metagenetics, addressing taxonomic gaps reference sequence databases optimizing isolation protocols. anticipate such highly feasible will useful those who pollinators interactions.

Language: Английский

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Design and partial validation of novel eDNA qPCR assays for three common North American tick (Arachnida: Ixodida) species

Environmental DNA, Journal Year: 2024, Volume and Issue: 6(2)

Published: March 1, 2024

Abstract The range expansion of ticks to higher latitudes poses a severe threat human health exposing populations who had no prior contact with several harmful tick‐borne diseases. Early detection in new areas is critical help inform the public and medical professionals dangers associated tick encounters. Environmental DNA represents novel survey method that could provide reliable records occurrences timely warnings their expansions. In this study, we designed eDNA qPCR assays for three common North American species ( Dermacentor variabilis , Amblyomma americanum Ixodes scapularis ) tested them on 51 samples grasses leaf litter collected from 12 grassland forest sites central southern Illinois. We silico vitro validation all assays; however, were unable generate any positive detections field samples. Our lack likely stems low deposition rates coupled rapid degradation grasslands forests, problem exacerbated by terrestrial sampling methods limited volume substrate. recommendations improving sample collection increase probability future efforts. Continued research should focus viability detect small invertebrates, like ticks, it potential as early warning indicator spread vector‐borne

Language: Английский

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Spatio-Temporal Variation in Arthropod-Plant Interactions Identified Using Edna and Digital Video Recordings

Published: Jan. 1, 2024

Collating data about natural capital and the ecological services that underpin agricultural productivity, such as activity of beneficial (e.g. pollinators) antagonistic plant pests) arthropod taxa, is increasingly important. To date, these monitoring efforts have largely relied upon conventional survey methods sweep netting morphological identifications), which are difficult to implement at large scale agriculture. Environmental DNA (eDNA) metabarcoding a molecular method amplifies trace amounts deposited by organisms from diverse substrates ranging soil, tissue even air. In this study, we used eDNA crop flowers, complemented with digital video recording (DVR) devices, examine how biodiversity indicators vary over time space, whether larger or more abundant flower-visiting arthropods relatively higher detection rate using metabarcoding. total, detected 42 families metabarcoding, representing 66 unique taxa. The number detections increased 14% during peak flowering included species different functional groups including known pollinators, pests, parasites predators. At fine-spatial scales, inflorescence samples collected in upper lower canopy show Hymenoptera taxa were 13% likely be canopy. While large-spatial showed communities both orchards shared less than 50% similarity low became similar towards flowering. By comparing those DVRs, determined smaller visited flowers frequently had probability, emphasising need complement additional approaches. our findings highlight value incorporating eDNA-based into management agroecosystems, they also indicate care needed interpretation novel approach.

Language: Английский

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Using grass inflorescence as source material for biomonitoring through environmental DNA metabarcoding

Molecular Biology Reports, Journal Year: 2024, Volume and Issue: 51(1)

Published: Sept. 16, 2024

Over the last decade, increasing attention has been directed to using different substrates as sources of environmental DNA (eDNA) in ecological research. Reports on use located surface plant leaves and flowers have highlighted utility this source studies including, but not limited to, biodiversity, invasive species, pollination ecology. The current study assesses grass inflorescence a eDNA for detecting invertebrate taxa.

Language: Английский

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Spatio-temporal variation in arthropod-plant interactions: A direct comparison of eDNA metabarcoding of tree crop flowers and digital video recordings

Ecological Indicators, Journal Year: 2024, Volume and Issue: 169, P. 112827 - 112827

Published: Nov. 12, 2024

Language: Английский

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