ArticleWorld journal of microbiology & biotechnology2023
The effect of metabarcoding 18S rRNA region choice on diversity of microeukaryotes including phytoplankton.
Article in World journal of microbiology & biotechnology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 25 citations in OpenAlex.
- High-throughput detection of microeukaryotic parasites in insects using Nanopore sequencing.Microbial genomics · 2026Article
- Bacterial Community Structure and FEAST Source Tracking of Endophytes inMicroorganisms · 2026Article
- Tropics to the Poles: A Snapshot of Coastal Eukaryotic Marine Microalgal Diversity Across Five Ecoregions.Molecular ecology · 2025Article
- A glimpse into the future: How the timing of sea ice formation influences associated microalgal communities.iScience · 2025Article
- Comparison of Relative and Absolute Abundance and Biomass of Freshwater Phytoplankton Taxa Using Metabarcoding and Microscopy.Ecology and evolution · 2025Article
- Changes in Gut Microbiota in Peruvian Cattle Genetic Nucleus by Breed and Correlations with Beef Quality.Veterinary sciences · 2024Article
- Optimization of 18 S rRNA metabarcoding for the simultaneous diagnosis of intestinal parasites.Scientific reports · 2024Article
- Age-Dependent Changes in Protist and Fungal Microbiota in a Peruvian Cattle Genetic Nucleus.Life (Basel, Switzerland) · 2024Article
- A full-length 18S ribosomal DNA metabarcoding approach for determining protist community diversity using Nanopore sequencing.Ecology and evolution · 2024Article
- A comparison of two gene regions for assessing community composition of eukaryotic marine microalgae from coastal ecosystems.Scientific reports · 2024Article
- Microbial methods matter: Identifying discrepancies between microbiome denoising pipelines using a leaf biofilm taphonomic dataset.Applications in plant sciencesArticle
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
Metabarcoding using high throughput sequencing of amplicons of the 18S rRNA gene is one of the widely used methods for assessing the diversity of microeukaryotes in various ecosystems. We investigated the effectiveness of the V4 and V8-V9 regions of the 18S rRNA gene by comparing the results of metabarcoding microeukaryotic communities using the DADA2 (ASV), USEARCH-UNOISE3 (ZOTU), and USEARCH-UPARSE (OTU with 97% similarity) algorithms. Both regions showed similar levels of genetic variability and taxa identification accuracy. Richness for DADA2 datasets of both regions was lower than for UNOISE3 and UPARSE datasets, which is due to more accurate error correction in amplicons. Microeukaryotic communities (autotrophs and heterotrophs) structure identified using both regions showed a significant relationship with phytoplankton (autotrophs) communities structure based on microscopy in a seasonal freshwater sample series. The strongest relationship was found between the phytoplankton species and V8-V9 ASVs produced by DADA2.
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