FN Archimer Export Format
PT J
TI The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy
BT 
AF GUILLOU, Laure
   BACHAR, Dipankar
   AUDIC, S
   BASS, David
   BERNEY, Cedric
   BITTNER, Lucie
   BOUTTE, Christophe
   BURGAUD, Gaetan
   DE VARGAS, Colomban
   DECELLE, Johan
   DEL CAMPO, Javier
   DOLAN, John R.
   DUNTHORN, Micah
   EDVARDSEN, Bente
   HOLZMANN, Maria
   KOOISTRA, Wiebe H. C. F.
   LARA, Enrique
   LE BESCOT, Noan
   LOGARES, Ramiro
   MAHE, F
   MASSANA, Ramon
   MONTRESOR, Marina
   MORARD, Raphael
   NOT, Fabrice
   PAWLOWSKI, Jan
   PROBERT, Ian
   SAUVADET, Anne-Laure
   SIANO, Raffaele
   STOECK, Thorsten
   VAULOT, Daniel
   ZIMMERMANN, Pascal
   CHRISTEN, Richard
AS 1:1,2;2:3,4;3:1,2;4:5;5:5;6:1,2;7:1,2;8:6;9:1,2;10:1,2;11:7;12:8,9;13:10;14:11;15:12;16:13;17:14;18:1,2;19:7;20:1,2;21:7;22:13;23:1,2;24:1,2;25:12;26:15;27:1,2;28:16;29:10;30:1,2;31:17;32:3,4;
FF 1:;2:;3:;4:;5:;6:;7:;8:;9:;10:;11:;12:;13:;14:;15:;16:;17:;18:;19:;20:;21:;22:;23:;24:;25:;26:;27:;28:PDG-ODE-DYNECO-PELAGOS;29:;30:;31:;32:;
C1 CNRS, UMR Adaptat & Divers Milieu Marin 7144, F-29682 Roscoff, France.
   Univ Paris 06, UMR 7144, Stn Biol Roscoff, F-29682 Roscoff, France.
   CNRS, UMR 7138, F-06108 Nice 02, France.
   Univ Nice Sophia Antipolis, UMR 7138, F-06108 Nice 02, France.
   Nat Hist Museum, Dept Life Sci, London SW7 5BD, England.
   ESMISAB, Lab Univ Biodivers & Ecol Microbienne EA3882, F-29280 Plouzane, France.
   CSIC, Inst Ciencies Mar, Dept Marine Biol & Oceanog, Barcelona, Catalonia, Spain.
   Univ Paris 06, Lab Oceanog Villefranche, F-06230 Villefranche Sur Mer, France.
   CNRS, UMR7093, Stn Zool, F-06230 Villefranche Sur Mer, France.
   Univ Kaiserslautern, Dept Ecol, D-67663 Kaiserslautern, Germany.
   Univ Oslo, Dept Biol, NO-0316 Oslo, Norway.
   Univ Geneva, Dept Genet & Evolut, CH-1211 Geneva 4, Switzerland.
   Stn Zool Anton Dohrn, I-80121 Naples, Italy.
   Univ Neuchatel, Lab Soil Biol, CH-2000 Neuchatel, Switzerland.
   CNRS, FR2424, Stn Biol Roscoff, F-29682 Roscoff, France.
   IFREMER, Ctr Brest, F-29280 Plouzane, France.
   Point Competence Informat, F-56850 Caudan, France.
C2 CNRS, FRANCE
   UNIV PARIS 06, FRANCE
   CNRS, FRANCE
   UNIV NICE, FRANCE
   NHM, UK
   ESMISAB, FRANCE
   CSIC, SPAIN
   UNIV PARIS 06, FRANCE
   CNRS, FRANCE
   UNIV KAISERSLAUTERN, GERMANY
   UNIV OSLO, NORWAY
   UNIV GENEVA, SWITZERLAND
   STN ZOOL ANTON DOHRN, ITALY
   UNIV NEUCHATEL, SWITZERLAND
   CNRS, FRANCE
   IFREMER, FRANCE
   POINT COMPETENCE INFORMAT, FRANCE
SI BREST
SE PDG-ODE-DYNECO-PELAGOS
   CNRS
IN WOS Ifremer jusqu'en 2018
   copubli-france
   copubli-europe
   copubli-univ-france
   copubli-int-hors-europe
IF 8.808
TC 646
UR https://archimer.ifremer.fr/doc/00114/22492/20174.pdf
LA English
DT Article
AB The interrogation of genetic markers in environmental meta-barcoding studies is currently seriously hindered by the lack of taxonomically curated reference data sets for the targeted genes. The Protist Ribosomal Reference database (PR2, http://ssurrna. org/) provides a unique access to eukaryotic small sub-unit (SSU) ribosomal RNA and DNA sequences, with curated taxonomy. The database mainly consists of nuclear-encoded protistan sequences. However, metazoans, land plants, macrosporic fungi and eukaryotic organelles (mitochondrion, plastid and others) are also included because they are useful for the analysis of hightroughput sequencing data sets. Introns and putative chimeric sequences have been also carefully checked. Taxonomic assignation of sequences consists of eight unique taxonomic fields. In total, 136 866 sequences are nuclear encoded, 45 708 (36 501 mitochondrial and 9657 chloroplastic) are from organelles, the remaining being putative chimeric sequences. The website allows the users to download sequences from the entire and partial databases (including representative sequences after clustering at a given level of similarity). Different web tools also allow searches by sequence similarity. The presence of both rRNA and rDNA sequences, taking into account introns (crucial for eukaryotic sequences), a normalized eight terms ranked-taxonomy and updates of new GenBank releases were made possible by a long-term collaboration between experts in taxonomy and computer scientists.
PY 2013
PD JAN
SO Nucleic Acids Research
SN 0305-1048
PU Oxford Univ Press
VL 41
IS D1
UT 000312893300085
DI 10.1093/nar/gks1160
ID 22492
ER

EF