Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
The original web site (http://ssu-rrna.org/pr2) is currently out and we are proposing updated version of PR2 as flat files to use for annotating metabarcodes.
The files provided are for use with Qiime or Mothur. Four files are provided.
* pr2....fasta contains all sequences in fasta format
* pr2....tax contains the taxonomy of each sequence
* PR2 version notes.docx contains the revision history
* PR2 versions.xls is a condensed list of the different versions
Current version : 4.3 based on GenBank 203
- Qiime can only use 7 taxonomical levels
Laure GUILLOU and Daniel VAULOT
DIPO team, Plankton Group, UMR 7144 CNRS-UPMC
Place G. Tessier
29680 Roscoff FRANCE
- Tristan Biard
- Margot Tragin
- Bente Edvardsen
Guillou, L., Bachar, D., Audic, S., Bass, D., Berney, C., Bittner, L., Boutte, C. et al. 2013. The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy. Nucleic Acids Res. 41:D597–604.
Edvardsen, B., Egge, E.S. & Vaulot, D. 2016. Diversity and distribution of haptophytes revealed by environmental sequencing and metabarcoding – a review. Perspect. Phycol. in press.
Tragin, M., Lopes dos Santos, A., Christen, R. & Vaulot, D. 2016. Diversity and ecology of green microalgae in marine systems: an overview based on 18S rRNA gene sequences. Perspect. Phycol. in press.