ArticleEcology and evolution2019
The impact of OTU sequence similarity threshold on diatom-based bioassessment: A case study of the rivers of Mayotte (France, Indian Ocean).
Article in Ecology and evolution, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- A Comparative Analysis of DNA Metabarcoding and Morphological Identification in Diatoms Reveals Similar Patterns of Environmental Response.Ecology and evolution · 2026Article
- Specific host-algae relationship, yet flexible bacterial microbiome, in diatom-bearing foraminifera.Science advances · 2025Article
- The Diatom Diversity and Ecological Status of a Tufa-Depositing River through eDNA Metabarcoding vs. a Morphological Approach-A Case Study of the Una River (Bosnia and Herzegovina).Microorganisms · 2024Article
- Using DNA metabarcoding to characterize national scale diatom-environment relationships and to develop indicators in streams and rivers of the United States.The Science of the total environment · 2024Article
- The intestinal digesta microbiota of tropical marine fish is largely uncultured and distinct from surrounding water microbiota.NPJ biofilms and microbiomes · 2024Article
- Microeukaryotic plankton evolutionary constraints in a subtropical river explained by environment and bacteria along differing taxonomic resolutions.ISME communications · 2024Article
- Polar lake microbiomes have distinct evolutionary histories.Science advances · 2023Article
- Characterization of the Rhizosphere Bacterial Microbiome and Coffee Bean Fermentation in the Castillo-Tambo and Bourbon Varieties in the Popayán-Colombia Plateau.BMC plant biology · 2023Article
- Understanding the effects of phosphorus on diatom richness in rivers and streams using taxon-environment relationships.Freshwater biology · 2023Article
- Quantifying spatial and temporal relationships between diatoms and nutrients in streams strengthens evidence of nutrient effects from monitoring data.Freshwater science (Print) · 2022Article
- Monitoring the ecological status of rivers with diatom eDNA metabarcoding: A comparison of taxonomic markers and analytical approaches for the inference of a molecular diatom index.Molecular ecology · 2021Article
- Ecosystems monitoring powered by environmental genomics: A review of current strategies with an implementation roadmap.Molecular ecology · 2021Review
- Article
- DNA metabarcoding effectively quantifies diatom responses to nutrients in streams.Ecological applications : a publication of the Ecological Society of America · 2020Article
- Assessing insect biodiversity with automatic light traps in Brazil: Pearls and pitfalls of metabarcoding samples in preservative ethanol.Ecology and evolution · 2020Article
- Can We Use Functional Genetics to Predict the Fate of Nitrogen in Estuaries?Frontiers in microbiology · 2020Article
- The impact of OTU sequence similarity threshold on diatom-based bioassessment: A case study of the rivers of Mayotte (France, Indian Ocean).Ecology and evolution · 2019Article
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6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Extensive studies on the taxonomic resolution required for bioassessment purposes have determined that resolution above species level (genus, family) is sufficient for their use as indicators of relevant environmental pressures. The high-throughput sequencing (HTS) and meta-barcoding methods now used for bioassessment traditionally employ an arbitrary sequence similarity threshold (SST) around 95% or 97% to cluster sequences into operational taxonomic units, which is considered descriptive of species-level resolution. In this study, we analyzed the effect of the SST on the resulting diatom-based ecological quality index, which is based on OTU abundance distribution along a defined environmental gradient, ideally avoiding taxonomic assignments that could result in high rates of unclassified OTUs and biased final values. A total of 90 biofilm samples were collected in 2014 and 2015 from 51 stream sites on Mayotte Island in parallel with measures of relevant physical and chemical parameters. HTS sequencing was performed on the biofilms using the
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