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Caloneis amphisbaena, Rovoree-18-04-12
R-Syst::diatom a curated database for diatoms

Access the database: R-Syst::Diatom

Significant diversity exists within the main freshwater algal classes: Diatoms (10 000 to 100 000 taxa), Chrysophyceae (over 1000 taxa), Chlorophyceae (over 4000 taxa), Zygophyceae (over 3000 taxa), Dinophyceae (over 500 taxa), Euglenophyceae (over 1000 taxa), Cryptophyceae (over 120 taxa).

Their huge diversity and their ubiquity make them excellent ecological indicators for rivers, lakes and marine (eg water framework directive) waters. Metabarcoding enables the automation of identifications which have until now been done under the microscope. 

R-Syst::diatom database is a library of barcodes which is curated and which guarantees good taxonomical homogeneity and good quality of sequences. Data have different sources:

  • The culture collection of Thonon, INRA, TCC
  • The barcoding project of diatoms in UK
  • Public data (NCBI)

Several European labs participate in this curation:


Rimet F., Chaumeil P., Keck F., Kermarrec L., Vasselon V., Kahlert M., Franc A., Bouchez A., 2015. R-Syst::diatom: a barcode database for diatoms and freshwater biomonitoring - data sources and curation procedure. INRA Report, 14 pages

Frederic Rimet; Philippe Chaumeil; Francois Keck; Lenaïg Kermarrec; Valentin Vasselon; Maria Kahlert; Alain Franc; Agnes Bouchez. 2016. R-Syst::diatom: an open-access and curated barcode database for diatoms and freshwater monitoring. Database, 2016, 1-21.

Database versions:

Only the last version is online. If you need older versions contact frederic.rimet( a t )

  • 23-02-2018: R-Syst::diatom v7
  • 20-03-2017: R-Syst::diatom v6
  • 18-02-2016: R-Syst::diatom v5
  • 16-09-2015: R-Syst::diatom v4
  • 13-02-2015: R-Syst::diatom v3
  • 16-09-2014: R-Syst::diatom v2
  • 28-11-2012: R-Syst::diatom v1

The database is also available on GITHUB:

A ready-to-use database for metabarcoding: Rsyst::diatom_rbcl_align_312bp database

Valentin Vasselon propose you a trimmed and aligned database ready-to-use for metabarcoding using rbcL: