ArticlePloS one2014
Taxonomic reference libraries for environmental barcoding: a best practice example from diatom research.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
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- Arthropod diversity in the alpine tundra using metabarcoding: Spatial and temporal differences in alpha- and beta-diversity.Ecology and evolution · 2024Article
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- The GenusPlants (Basel, Switzerland) · 2023Article
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- Ship Hull-Fouling Diatoms on Korean Research Vessels Revealed by Morphological and Molecular Methods, and Their Environmental Implications.Journal of microbiology (Seoul, Korea) · 2023Article
- medna-metadata: an open-source data management system for tracking environmental DNA samples and metadata.Bioinformatics (Oxford, England) · 2022Article
- MetaWorks: A flexible, scalable bioinformatic pipeline for high-throughput multi-marker biodiversity assessments.PloS one · 2022Article
- Ecosystems monitoring powered by environmental genomics: A review of current strategies with an implementation roadmap.Molecular ecology · 2021Review
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- Diat.barcode, an open-access curated barcode library for diatoms.Scientific reports · 2019Article
- Metabarcoding a diverse arthropod mock community.Molecular ecology resources · 2019Article
- Study of diatom assemblages in Sundarbans mangrove water based on light microscopy andHeliyon · 2018Article
- Annotated 18S and 28S rDNA reference sequences of taxa in the planktonic diatom family Chaetocerotaceae.PloS one · 2018Article
- Can non-destructive DNA extraction of bulk invertebrate samples be used for metabarcoding?PeerJ · 2018Article
- Epilithic diatom communities of selected streams from the Lerma-Chapala Basin, Central Mexico, with the description of two new species.PhytoKeys · 2017Article
- 18S rRNA V9 metabarcoding for diet characterization: a critical evaluation with two sympatric zooplanktivorous fish species.Ecology and evolution · 2016Article
- R-Syst::diatom: an open-access and curated barcode database for diatoms and freshwater monitoring.Database : the journal of biological databases and curation · 2016Article
Corrections and comments
- Erratum issuedEnk, Neela [corrected to Enke, Neela]
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA barcoding uses a short fragment of a DNA sequence to identify a taxon. After obtaining the target sequence it is compared to reference sequences stored in a database to assign an organism name to it. The quality of data in the reference database is the key to the success of the analysis. In the here presented study, multiple types of data have been combined and critically examined in order to create best practice guidelines for taxonomic reference libraries for environmental barcoding. 70 unialgal diatom strains from Berlin waters have been established and cultured to obtain morphological and molecular data. The strains were sequenced for 18S V4 rDNA (the pre-Barcode for protists) as well as rbcL data, and identified by microscopy. LM and for some strains also SEM pictures were taken and physical vouchers deposited at the BGBM. 37 freshwater taxa from 15 naviculoid diatom genera were identified. Four taxa from the genera Amphora, Mayamaea, Planothidium and Stauroneis are described here as new. Names, molecular, morphological and habitat data as well as additional images of living cells are also available electronically in the AlgaTerra Information System. All reference sequences (or reference barcodes) presented here are linked to voucher specimens in order to provide a complete chain of evidence back to the formal taxonomic literature.
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