FN Archimer Export Format
PT J
TI Use of RAD sequencing for delimiting species
BT 
AF PANTE, E.
   ABDELKRIM, J.
   VIRICEL, A.
   GEY, D.
   FRANCE, S. C.
   BOISSELIER, M. C.
   SAMADI, S.
AS 1:1;2:2,3;3:1;4:2;5:4;6:2,3;7:3;
FF 1:;2:;3:;4:;5:;6:;7:;
C1 Univ La Rochelle, UMR CNRS 7266, Lab LIENSs, F-17000 La Rochelle, France.
   Museum Natl Hist Nat, SSM, UMS MNHN CNRS 2700, Dept Systemat & Evolut, F-75231 Paris, France.
   Sorbonne Univ, Museum Natl Hist Nat, UPMC, EPHE,ISYEB UMR CNRS 7205, Paris, France.
   Univ Louisiana Lafayette, Dept Biol, Lafayette, LA USA.
C2 UNIV LA ROCHELLE, FRANCE
   MNHN, FRANCE
   UNIV PARIS 06, FRANCE
   UNIV LOUISIANA, USA
IF 3.801
TC 138
UR https://archimer.ifremer.fr/doc/00760/87197/92753.pdf
LA English
DT Article
CR BIOPAPUA
   TERRASSE
BO Alis
AB RAD-tag sequencing is a promising method for conducting genome-wide evolutionary studies. However, to date, only a handful of studies empirically tested its applicability above the species level. In this communication, we use RAD tags to contribute to the delimitation of species within a diverse genus of deep-sea octocorals, Chrysogorgia, for which few classical genetic markers have proved informative. Previous studies have hypothesized that single mitochondrial haplotypes can be used to delimit Chrysogorgia species. On the basis of two lanes of Illumina sequencing, we inferred phylogenetic relationships among 12 putative species that were delimited using mitochondrial data, comparing two RAD analysis pipelines (Stacks and PyRAD). The number of homologous RAD loci decreased dramatically with increasing divergence, as >70% of loci are lost when comparing specimens separated by two mutations on the 700-nt long mitochondrial phylogeny. Species delimitation hypotheses based on the mitochondrial mtMutS gene are largely supported, as six out of nine putative species represented by more than one colony were recovered as discrete, well-supported clades. Significant genetic structure (correlating with geography) was detected within one putative species, suggesting that individuals characterized by the same mtMutS haplotype may belong to distinct species. Conversely, three mtMutS haplotypes formed one well-supported clade within which no population structure was detected, also suggesting that intraspecific variation exists at mtMutS in Chrysogorgia. Despite an impressive decrease in the number of homologous loci across clades, RAD data helped us to fine-tune our interpretations of classical mitochondrial markers used in octocoral species delimitation, and discover previously undetected diversity.
PY 2015
PD MAY
SO Heredity
SN 0018-067X
PU Nature Publishing Group
VL 114
IS 5
UT 000353027100004
BP 450
EP 459
DI 10.1038/hdy.2014.105
ID 87197
ER

EF