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Harnessing the Power of Metabarcoding in the Ecological Interpretation of Plant-Pollinator DNA Data: Strategies and Consequences of Filtering Approaches

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Outgoing claims: the papers this work cites, builds on, or argues with.

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Metabarcoding of honey to assess differences in plant-pollinator interactions between urban and non-urban sites
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Fermented food products in the era of globalization: tradition meets biotechnology innovations
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Addressing the removal of rare species in multivariate bioassessments: The impact of methodological choices
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Testing models of bee foraging behavior through the analysis of pollen loads and floral density data
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Pollen morphology of Campanula (Campanulaceae) and allied genera in Iran with special focus on its systematic implication
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A DNA barcoding approach to identify plant species in multiflower honey
inferredcites →https://doi.org/10.1016/j.foodchem.2016.07.077openalex-snapshot
Rapid identification of the botanical and entomological sources of honey using DNA metabarcoding
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Exploring the botanical composition of polyfloral and monofloral honeys through DNA metabarcoding
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Emerging DNA-based technologies to characterize food ecosystems
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Review and future prospects for DNA barcoding methods in forensic palynology
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Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA
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Employing DNA metabarcoding to determine the geographical origin of honey
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Identifying the scene of a crime through pollen analysis
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Basic principles of ROC analysis
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Understanding receiver operating characteristic (ROC) curves
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Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
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DNA metabarcoding data unveils invisible pollination networks
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Floral resource partitioning by individuals within generalised hoverfly pollination networks revealed by DNA metabarcoding
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The influenza virus hemagglutinin head evolves faster than the stalk domain
inferredcites →https://doi.org/10.1038/s41598-020-61198-6openalex-snapshot
Experimental quantification of pollen with DNA metabarcoding using ITS1 and trnL
inferredcites →https://doi.org/10.1038/s41598-020-74172-zopenalex-snapshot
Prostate cancer risk prediction using a polygenic risk score
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Shifts in honeybee foraging reveal historical changes in floral resources
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DeepACSON automated segmentation of white matter in 3D electron microscopy
inferredcites →https://doi.org/10.1038/srep27282openalex-snapshot
Using metabarcoding to reveal and quantify plant-pollinator interactions
inferredcites →https://doi.org/10.1038/srep42838openalex-snapshot
Using DNA metabarcoding to investigate honey bee foraging reveals limited flower use despite high floral availability
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A new method for non-parametric multivariate analysis of variance
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Analysis of pollen loads in a wild bee community (Hymenoptera: Apidae) – a method for elucidating habitat use and foraging distances
inferredcites →https://doi.org/10.1093/aob/mcp122openalex-snapshot
Ecology and evolution of plant–pollinator interactions
inferredcites →https://doi.org/10.1093/ee/nvw159openalex-snapshot
A Comparison of Honey Bee-Collected Pollen From Working Agricultural Lands Using Light Microscopy and ITS Metabarcoding
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Introduced bees (Osmia cornifrons) collect pollen from both coevolved and novel host-plant species within their family-level phylogenetic preferences
inferredcites →https://doi.org/10.1098/rstb.2005.1725openalex-snapshot
Defining operational taxonomic units using DNA barcode data
inferredcites →https://doi.org/10.1111/1365-2435.13642openalex-snapshot
An empirical attack tolerance test alters the structure and species richness of plant–pollinator networks
inferredcites →https://doi.org/10.1111/1365-2656.12828openalex-snapshot
Generalisation and specialisation in hoverfly (Syrphidae) grassland pollen transport networks revealed by DNA metabarcoding
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How to limit false positives in environmental DNA and metabarcoding?
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A comparison of sedimentary DNA and pollen from lake sediments in recording vegetation composition at the Siberian treeline
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Pollen metabarcoding as a tool for tracking long‐distance insect migrations
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Assessing strengths and weaknesses of DNA metabarcoding‐based macroinvertebrate identification for routine stream monitoring
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Scrutinizing key steps for reliable metabarcoding of environmental samples
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A quantitative framework for investigating the reliability of empirical network construction
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Reconstructing hyperdiverse food webs: Gut content metabarcoding as a tool to disentangle trophic interactions on coral reefs
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Semi‐quantitative characterisation of mixed pollen samples using MinION sequencing and Reverse Metagenomics (RevMet)
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Construction, validation, and application of nocturnal pollen transport networks in an agro‐ecosystem: a comparison using light microscopy and DNA metabarcoding
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Characterization of pollen and bacterial community composition in brood provisions of a small carpenter bee
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inferredcites →https://doi.org/10.1111/mec.14776openalex-snapshot
The choice of universal primers and the characteristics of the species mixture determine when DNA metabarcoding can be quantitative
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Quantitative and qualitative assessment of pollen DNA metabarcoding using constructed species mixtures
inferredcites →https://doi.org/10.1111/mec.14975openalex-snapshot
Quantitative multi‐locus metabarcoding and waggle dance interpretation reveal honey bee spring foraging patterns in Midwest agroecosystems
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DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions
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Honey bee waggle dance communication increases diversity of pollen diets in intensively managed agricultural landscapes
inferredcites →https://doi.org/10.1111/mec.15591openalex-snapshot
The limited spatial scale of dispersal in soil arthropods revealed with whole‐community haplotype‐level metabarcoding
inferredcites →https://doi.org/10.1111/mec.15675openalex-snapshot
Using ITS2 metabarcoding and microscopy to analyse shifts in pollen diets of honey bees and bumble bees along a mass‐flowering crop gradient
inferredcites →https://doi.org/10.1111/mec.15704openalex-snapshot
Application of plant metabarcoding to identify diverse honeybee pollen forage along an urban–agricultural gradient
inferredcites →https://doi.org/10.1111/oik.07526openalex-snapshot
Temporal flexibility in the structure of plant–pollinator interaction networks
inferredcites →https://doi.org/10.1126/science.1188321openalex-snapshot
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The effects of parameter choice on defining molecular operational taxonomic units and resulting ecological analyses of metabarcoding data
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inferredcites →https://doi.org/10.1155/2012/251364openalex-snapshot
Comparison of Next-Generation Sequencing Systems
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Overview of High Throughput Sequencing Technologies to Elucidate Molecular Pathways in Cardiovascular Diseases
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pROC: an open-source package for R and S+ to analyze and compare ROC curves
inferredcites →https://doi.org/10.1186/s12898-015-0051-yopenalex-snapshot
Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach
inferredcites →https://doi.org/10.1186/s13104-020-05361-2openalex-snapshot
Using pollen DNA metabarcoding to profile nectar sources of urban beekeeping in Kōtō-ku, Tokyo
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A DNA Barcoding Approach to Characterize Pollen Collected by Honeybees
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Using DNA Metabarcoding to Identify the Floral Composition of Honey: A New Tool for Investigating Honey Bee Foraging Preferences
inferredcites →https://doi.org/10.1371/journal.pone.0183716openalex-snapshot
Honey bee foraging ecology: Season but not landscape diversity shapes the amount and diversity of collected pollen
inferredcites →https://doi.org/10.1371/journal.pone.0195403openalex-snapshot
Plant DNA metabarcoding of lake sediments: How does it represent the contemporary vegetation
inferredcites →https://doi.org/10.1371/journal.pone.0219135openalex-snapshot
The menu varies with metabarcoding practices: A case study with the bat Plecotus auritus
inferredcites →https://doi.org/10.1371/journal.pone.0224037openalex-snapshot
Foraging strategies are maintained despite workforce reduction: A multidisciplinary survey on the pollen collected by a social pollinator
inferredcites →https://doi.org/10.1371/journal.pone.0227453openalex-snapshot
Correction: Foraging strategies are maintained despite workforce reduction: A multidisciplinary survey on the pollen collected by a social pollinator
inferredcites →https://doi.org/10.1371/journal.pone.0244973openalex-snapshot
Floral hosts of leaf-cutter bees (Megachilidae) in a biodiversity hotspot revealed by pollen DNA metabarcoding of historic specimens
inferredcites →https://doi.org/10.1371/journal.pone.0245611openalex-snapshot
Testing the effect of pollen exine rupture on metabarcoding with Illumina sequencing
inferredcites →https://doi.org/10.1556/168.2017.18.1.1openalex-snapshot
Network analysis of phenological units to detect important species in plant-pollinator assemblages: can it inform conservation strategies?
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rnetcarto: Fast Network Modularity and Roles Computation by Simulated Annealing (Rgraph C Library Wrapper for R)
inferredcites →https://doi.org/10.3389/fevo.2021.623141openalex-snapshot
SVD Entropy Reveals the High Complexity of Ecological Networks
inferredcites →https://doi.org/10.3389/fmicb.2018.02557openalex-snapshot
Changes in the Drinking Water Microbiome: Effects of Water Treatments Along the Flow of Two Drinking Water Treatment Plants in a Urbanized Area, Milan (Italy)
inferredcites →https://doi.org/10.3389/fmicb.2020.607325openalex-snapshot
Effects of Rare Microbiome Taxa Filtering on Statistical Analysis
inferredcites →https://doi.org/10.3389/fmicb.2021.646302openalex-snapshot
Mycobiomes of Young Beech Trees Are Distinguished by Organ Rather Than by Habitat, and Community Analyses Suggest Competitive Interactions Among Twig Fungi
inferredcites →https://doi.org/10.3389/fpls.2020.00287openalex-snapshot
Analyzing the Dietary Diary of Bumble Bee
inferredcites →https://doi.org/10.3390/insects12030205openalex-snapshot
Metabarcoding in Diet Assessment of Heterotrigona itama Based on trnL Marker towards Domestication Program
inferredcites →https://doi.org/10.3732/ajb.1000391openalex-snapshot
The future of plant–pollinator diversity: Understanding interaction networks across time, space, and global change
inferredcites →https://doi.org/10.3732/apps.1400066openalex-snapshot
Application of ITS2 metabarcoding to determine the provenance of pollen collected by honey bees in an agroecosystem
inferredcites →https://doi.org/10.3732/apps.1500043openalex-snapshot
Rank‐based characterization of pollen assemblages collected by honey bees using a multi‐locus metabarcoding approach
inferredcites →https://doi.org/10.3732/apps.1600110openalex-snapshot
An rbcL reference library to aid in the identification of plant species mixtures by DNA metabarcoding
inferredcites →https://doi.org/10.3732/apps.1600124openalex-snapshot
Applying pollen DNA metabarcoding to the study of plant–pollinator interactions
inferredcites →https://doi.org/10.7717/peerj.5999openalex-snapshot
Pollen metabarcoding reveals broad and species-specific resource use by urban bees

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
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Case study of non-lethal sampling for plant-pollinator networks via barcoding and metabarcoding on bumble bees in Germany
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A Novel Approach for Pollen Identification and Quantification Using Hybrid Capture‐Based DNA Metabarcoding
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Illuminating arthropod diversity in a tropical forest: Assessing biodiversity by automatic light trapping and DNA metabarcoding
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Navigating the Murky Waters: Variation in Low Abundance Sequence Filtration in Fish eDNA Metabarcoding
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Canopies drive the reassembly of pollinator communities and interaction networks along tropical forest succession
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Local conditions drive quantity-oriented reproductive strategies and pollen diet of a solitary cavity-nesting bee in a Mediterranean peri-urban environment
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Difference in pollen specialisation in spring bees Andrena vaga (Andrenidae) and Colletes cunicularius (Colletidae) during their nesting season
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ITS2 metabarcoding quantitative reliability in assessing the composition of pollen carried by insects
inferred← citeshttps://doi.org/10.1016/j.actao.2023.103890openalex-snapshot
Predator-prey traits and foraging habitat shape the diet of a common insectivorous bat
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Batch-dependent microbiota variation in mixed vegetable fermentations shapes the probiotic potential of autochthonous multifunctional cultures
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Bats as suppressors of agroforestry pests in beech forests
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Landscape fragmentation constrains bumblebee nutritional ecology and foraging dynamics
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Mock community experiments can inform on the reliability of eDNA metabarcoding data: a case study on marine phytoplankton
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Plant identification in the era of digitalization: opportunities and challenges
inferred← citeshttps://doi.org/10.1111/1365-2664.14168openalex-snapshot
City climate and landscape structure shape pollinators, nectar and transported pollen along a gradient of urbanization
inferred← citeshttps://doi.org/10.1111/icad.12622openalex-snapshot
Comparison of microscopy and metabarcoding to identify pollen used by the critically endangered rusty patched bumble bee, Bombus affinis
inferred← citeshttps://doi.org/10.1111/mec.16537openalex-snapshot
DNA metabarcoding unveils the effects of habitat fragmentation on pollinator diversity, plant‐pollinator interactions, and pollination efficiency in Maldive islands
inferred← citeshttps://doi.org/10.1186/s13007-023-01097-9openalex-snapshot
Validating a multi-locus metabarcoding approach for characterizing mixed-pollen samples
inferred← citeshttps://doi.org/10.22541/au.163975195.55849825/v1openalex-snapshot
DNA metabarcoding unveils the effects of habitat fragmentation on pollinator diversity, plant-pollinator interactions, and pollination efficiency in tropical islands
inferred← citeshttps://doi.org/10.22541/au.164346764.44098850/v1openalex-snapshot
Pollen DNA metabarcoding and related methods in global change ecology: prospects, challenges, and progress
inferred← citeshttps://doi.org/10.3390/conservation5010005openalex-snapshot
Pollen Resource Repartition Between Managed Honey Bees (Apis mellifera L. 1758) and Unmanaged Bees in Three Italian National Parks
inferred← citeshttps://doi.org/10.3390/d14040236openalex-snapshot
Using DNA Metabarcoding to Identify Floral Visitation by Pollinators
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Case study of non-lethal sampling for plant-pollinator networks via barcoding and metabarcoding on bumble bees in Germany
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661574openalex-snapshot
Additional file 10 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661577openalex-snapshot
Additional file 11 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661580openalex-snapshot
Additional file 12 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661583openalex-snapshot
Additional file 13 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661586openalex-snapshot
Additional file 14 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661589openalex-snapshot
Additional file 1 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661592openalex-snapshot
Additional file 2 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661595openalex-snapshot
Additional file 3 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661598openalex-snapshot
Additional file 4 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661601openalex-snapshot
Additional file 5 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661604openalex-snapshot
Additional file 6 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661607openalex-snapshot
Additional file 7 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661610openalex-snapshot
Additional file 8 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.19661613openalex-snapshot
Additional file 9 of Biomonitoring via DNA metabarcoding and light microscopy of bee pollen in rainforest transformation landscapes of Sumatra
inferred← citeshttps://doi.org/10.6084/m9.figshare.26636037openalex-snapshot
Additional file 1 of Validating a multi-locus metabarcoding approach for characterizing mixed-pollen samples
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