Diat.barcode, an open-access curated barcode library for diatoms
Rimet, F.; Gusev, E.; Kahlert, M.; Kelly, M.G.; Kulikovskiy, M.; Maltsev, Y.; Mann, D.G.; Pfannkuchen, M.; Trobajo, R.; Vasselon, V.; Zimmermann, J.; Bouchez, A. (2019). Diat.barcode, an open-access curated barcode library for diatoms. NPG Scientific Reports 9(1): 15116. https://dx.doi.org/10.1038/s41598-019-51500-6 In: Scientific Reports (Nature Publishing Group). Nature Publishing Group: London. ISSN 2045-2322; e-ISSN 2045-2322, more |   |
| Authors | | Top | - Rimet, F., more
- Gusev, E.
- Kahlert, M.
- Kelly, M.G.
| - Kulikovskiy, M., more
- Maltsev, Y.
- Mann, D.G., more
- Pfannkuchen, M.
| - Trobajo, R.
- Vasselon, V.
- Zimmermann, J.
- Bouchez, A.
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| Abstract | ArticleOpen AccessPublished: 22 October 2019Diat.barcode, an open-access curated barcode library for diatomsFrédéric Rimet, Evgenuy Gusev, Maria Kahlert, Martyn G. Kelly, Maxim Kulikovskiy, Yevhen Maltsev, David G. Mann, Martin Pfannkuchen, Rosa Trobajo, Valentin Vasselon, Jonas Zimmermann & Agnès Bouchez Scientific Reports volume 9, Article number: 15116 (2019) Cite this articleArticle metrics613 Accesses1 Citations34 AltmetricMetricsdetailsAbstractDiatoms (Bacillariophyta) are ubiquitous microalgae which produce a siliceous exoskeleton and which make a major contribution to the productivity of oceans and freshwaters. They display a huge diversity, which makes them excellent ecological indicators of aquatic ecosystems. Usually, diatoms are identified using characteristics of their exoskeleton morphology. DNA-barcoding is an alternative to this and the use of High-Throughput-Sequencing enables the rapid analysis of many environmental samples at a lower cost than analyses under microscope. However, to identify environmental sequences correctly, an expertly curated reference library is needed. Several curated libraries for protists exists; none, however are dedicated to diatoms. Diat.barcode is an open-access library dedicated to diatoms which has been maintained since 2012. Data come from two sources (1) the NCBI nucleotide database and (2) unpublished sequencing data of culture collections. Since 2017, several experts have collaborated to curate this library for rbcL, a chloroplast marker suitable for species-level identification of diatoms. For the latest version of the database (version 7), 605 of the 3482 taxonomical names originally assigned by the authors of the rbcL sequences were modified after curation. The database is accessible at https://www6.inra.fr/carrtel-collection_eng/Barcoding-database. |
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