ArticleEcology and evolution2017
Effect of marker choice and thermal cycling protocol on zooplankton DNA metabarcoding studies.
Article in Ecology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
51 citing papers in PubMed, 1 synthesis or guideline pooled it, 202 citations in OpenAlex.
- Meta-analysis shows both congruence and complementarity of DNA and eDNA metabarcoding to traditional methods for biological community assessment.Molecular ecology · 2022Pooled it
- Getting to the Core of the Matter-Assessing the Role of Replication in Metabarcoding-Based sedaDNA.Molecular ecology resources · 2026Article
- Comparative Multi-Marker Environmental DNA Metabarcoding of Marine Metazoan Communities: Water vs. Sediment.Molecular ecology resources · 2026Article
- Unveiling Vertebrate Biodiversity in Arid and Semi-Arid Terrestrial Ecosystems Through eDNA Metabarcoding at Savanna Waterholes.Evolutionary applications · 2026Article
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- The shared performance of different COI regions increases the niche breadth detectable from bat guano eDNA.Genetics and molecular biology · 2026Article
- MetaZooGene Intercalibration Experiment (MZG-ICE): Metabarcoding Marine Zooplankton Diversity of the Global Ocean.Molecular ecology resources · 2026Article
- DNA Metabarcoding as a Tool to Study Plankton Responses to Warming and Salinity Change in Mesocosms.Ecology and evolution · 2025Article
- Integrating DNA metabarcoding and morphological analysis improves marine zooplankton biodiversity assessment.Scientific reports · 2025Article
- Contemporary eDNA methods complement conventional microscopy in zooplankton diet studies: Case study with American lobster postlarvae.PloS one · 2025Article
- Primed and ready: nanopore metabarcoding can now recover highly accurate consensus barcodes that are generally indel-free.BMC genomics · 2024Article
- Assessing patterns of metazoans in the global ocean using environmental DNA.Royal Society open science · 2024Article
- Experimental evaluation of genetic variability based on DNA metabarcoding from the aquatic environment: Insights from the LerayEcology and evolution · 2024Article
- VESPA: an optimized protocol for accurate metabarcoding-based characterization of vertebrate eukaryotic endosymbiont and parasite assemblages.Nature communications · 2024Article
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- Assessing the Seasonal and Spatial Dynamics of Zooplankton through DNA Metabarcoding in a Temperate Estuary.Animals : an open access journal from MDPI · 2023Article
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- First evaluation of ballast water management systems on operational ships for minimizing introductions of nonindigenous zooplankton.Marine pollution bulletin · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA metabarcoding is a promising approach for rapidly surveying biodiversity and is likely to become an important tool for measuring ecosystem responses to environmental change. Metabarcoding markers need sufficient taxonomic coverage to detect groups of interest, sufficient sequence divergence to resolve species, and will ideally indicate relative abundance of taxa present. We characterized zooplankton assemblages with three different metabarcoding markers (nuclear 18S rDNA, mitochondrial COI, and mitochondrial 16S rDNA) to compare their performance in terms of taxonomic coverage, taxonomic resolution, and correspondence between morphology- and DNA-based identification. COI amplicons sequenced on separate runs showed that operational taxonomic units representing >0.1% of reads per sample were highly reproducible, although slightly more taxa were detected using a lower annealing temperature. Mitochondrial COI and nuclear 18S showed similar taxonomic coverage across zooplankton phyla. However, mitochondrial COI resolved up to threefold more taxa to species compared to 18S. All markers revealed similar patterns of beta-diversity, although different taxa were identified as the greatest contributors to these patterns for 18S. For calanoid copepod families, all markers displayed a positive relationship between biomass and sequence reads, although the relationship was typically strongest for 18S. The use of COI for metabarcoding has been questioned due to lack of conserved primer-binding sites. However, our results show the taxonomic coverage and resolution provided by degenerate COI primers, combined with a comparatively well-developed reference sequence database, make them valuable metabarcoding markers for biodiversity assessment.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.