The aim of this project is to make publicly available a database of curated metabarcodes processed with dada2 and for which taxonomy is assigned with PR2.
We have developed an interactive web site (https://shiny.metapr2.org) which allows to visualize, analyze and download the processed data. This includes treemaps of taxonomy, barplots as a function of environmental variables, abundance maps as well as alpha and beta diversity analyses.
Please cite: Vaulot, D., Sim, C.W.H., Ong, D., Teo, B., Biwer, C., Jamy, M., Lopes dos Santos, A., 2022. metaPR2: a database of eukaryotic 18S rRNA metabarcodes with an emphasis on protists. Molecular Ecology Resources. https://doi.org/10.1111/1755-0998.13674
The latest version of the database (1.1) has been released in Spring 2022 and contains 41 public data sets including:
- Biomarks
- Blanes Time Series - 2004-2013
- Malaspina - 2010-2011
- Ocean Sampling Day - 2014 and 2015
- Tara Oceans - V4 and V9 - 2009-2012 - The Tara V4 data have been reprocessed with dada2
- Tara Arctic - V4
- Many Arctic datasets
The database contains also other non-public data sets from our own work, in particular in the Arctic (Green Edge, MicroPolar). If you are interested please contact me.