FN Archimer Export Format
PT J
TI PCR survey of 50 introns in animals: Cross-amplification of homologous EPIC loci in eight non-bilaterian, protostome and deuterostome phyla
BT 
AF GERARD, K.
   GUILLOTON, E.
   ARNAUD-HAOND, Sophie
   AURELLE, D.
   BASTROP, R.
   CHEVALDONNE, P.
   DERYCKE, S.
   HANEL, R.
   LAPEGUE, Sylvie
   LEJEUSNE, C.
   MOUSSET, Sylvain
   RAMSAK, A.
   REMERIE, T.
   VIARD, Frederique
   FERAL, Jean-Pierre
   CHENUIL, A.
AS 1:1;2:2;3:3;4:2;5:4;6:2;7:5;8:6;9:7;10:8;11:9;12:10;13:5;14:11;15:2;16:2;
FF 1:;2:;3:PDG-RBE-HM-RHSETE;4:;5:;6:;7:;8:;9:PDG-RBE-SG2M-LGPMM;10:;11:;12:;13:;14:;15:;16:;
C1 Lab Ecol Mol, Santiago, Chile.
   Aix Marseille Univ, Inst Mediterraneen Biodiversite & Ecol Marine & C, CNRS UMR 7263, Stn Marine Endoume, F-13007 Marseille, France.
   IFREMER, Ctr Brest, DEEP, LEP, F-29280 Plouzane, France.
   Univ Rostock, Inst Biol, D-18059 Rostock, Germany.
   Univ Ghent, Dept Biol, Marine Biol Sect, B-9000 Ghent, Belgium.
   Thunen Inst Fisheries Ecol, D-22767 Hamburg, Germany.
   IFREMER, SG2M LGPMM, Lab Genet & Pathol Mollusques Marins, F-17390 La Tremblade, France.
   Wetland Ecol Dept, Donana Biol Stn CSIC, Seville 41092, Spain.
   Univ Lyon 1, CNRS, UMR 5558, F-69622 Villeurbanne, France.
   Natl Inst Biol, Marine Biol Stn, Piran 6330, Slovenia.
   Univ Paris 06, CNRS, UMR Adaptat & Divers 7144, Marine Environm Stn Biol Roscoff, F-29688 Roscoff, France.
C2 LAB ECOL MOL, CHILE
   UNIV AIX MARSEILLE, FRANCE
   IFREMER, FRANCE
   UNIV ROSTOCK, GERMANY
   UNIV GHENT, BELGIUM
   THUNEN INST FISHERIES ECOL, GERMANY
   IFREMER, FRANCE
   CSIC, SPAIN
   UNIV LYON, FRANCE
   NATL INST BIOL, SLOVENIA
   UNIV PARIS 06, FRANCE
SI SETE
   LA TREMBLADE
SE PDG-RBE-HM-RHSETE
   PDG-RBE-SG2M-LGPMM
IN WOS Ifremer jusqu'en 2018
   copubli-france
   copubli-europe
   copubli-univ-france
   copubli-int-hors-europe
   copubli-sud
IF 1.971
TC 6
UR https://archimer.ifremer.fr/doc/00166/27775/25969.pdf
LA English
DT Article
DE ;Universal primers;Alternative barcoding;Non-model species;Genetic marker;Intron
AB Exon Primed Intron Crossing (EPIC) markers providemolecular tools that are susceptible to be variable within specieswhile remaining amplifiable by PCR using potentially universal primers. In this studywe tested the possibility of obtaining PCR products from 50 EPIC markers on 23 species belonging to seven different phyla (Porifera, Cnidaria, Arthropoda, Nematoda, Mollusca, Annelida, Echinodermata) using 70 new primer pairs. A previous study had identified and tested those loci in a dozen species, including another phylum, Urochordata (Chenuil et al., 2010). Results were contrasted among species. The best results were achieved with the oyster (Mollusca) where 28 loci provided amplicons susceptible to contain an intron according to their size. This was however not the case with the othermollusk Crepidula fornicata,which seems to have undergone a reduction in intron number or intron size. In the Porifera, 13 loci appeared susceptible to contain an intron, a surprisingly high number for this phylum considering its phylogenetic distancewith genomic data used to design the primers. For two cnidarian species, numerous loci (24) were obtained. Ecdysozoan phyla (arthropods and nematodes) proved less successful than others as expected considering reports of their rapid rate of genome evolution and the worst results were obtained for several arthropods. Some general patterns among phyla arose, and we discuss how the results of this EPIC survey may give new insights into genome evolution of the study species. Thiswork confirms that this set of EPIC loci provides an easy-to-use toolbox to identify genetic markers potentially useful for population genetics, phylogeography or phylogenetic studies for a large panel of metazoan species. We then argue that obtaining diploid sequence genotypes for these loci became simple and affordable owing to Next-Generation Sequencing development. Species surveyed in this study belong to several genera (Acanthaster, Alvinocaris, Aplysina, Aurelia, Crepidula, Eunicella, Hediste, Hemimysis, Litoditis, Lophelia, Mesopodopsis, Mya, Ophiocten, Ophioderma, Ostrea, Pelagia, Platynereis, Rhizostoma, Rimicaris), two of them, belonging to the family Vesicomydae and Eunicidae, could not be determined at the genus level.
PY 2013
PD DEC
SO Marine Genomics
SN 1874-7787
PU Elsevier Science Bv
VL 12
UT 000330206900001
BP 1
EP 8
DI 10.1016/j.margen.2013.10.001
ID 27775
ER

EF