10.5061/DRYAD.J2448
Rieseberg, Loren H.
University of British Columbia
Andrew, Rose L.
University of British Columbia
Kane, Nolan C.
University of British Columbia
Baute, Greg J.
University of British Columbia
Grassa, Christopher J.
University of British Columbia
Data from: Recent non-hybrid origin of sunflower ecotypes in a novel habitat
Dryad
dataset
2012
Helianthus petiolaris
Isolation with Migration
2012-09-17T18:39:53Z
2012-09-17T18:39:53Z
en
https://doi.org/10.1111/mec.12038
3175527 bytes
1
CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
The genomics of local adaptation is an increasingly active field,
providing insights into the forces driving ecological speciation and the
repeatability of evolution. Demography and gene flow play an important
role in determining the paths by which parallel evolution occurs and the
genomic signatures of adaptation. In the annual sunflowers, hybridization
between species has repeatedly led to the colonization of extreme
habitats, such as sand dunes. In a new case of adaptation to sand dunes
that occurs in populations of H. petiolaris growing at Great Sand Dunes
National Park and Preserve (Colorado), we wished to determine the age and
long-term migration patterns of the system, as well as its ancestry. We
addressed these questions with restriction-associated DNA (RAD) sequence
data, aligned to a reference transcriptome. In an isolation with migration
model using RAD sequences, coalescent analysis showed that the dune
ecotype originated since the last ice age, which is very recent compared
with the hybrid dune species, H. anomalus. Large effective population
sizes and substantial numbers of gene migrants per generation between dune
and nondune ecotypes explained the highly heterogeneous divergence
observed among loci. Analysis of RAD-derived SNPs identified heterogeneous
divergence between the dune and nondune ecotypes, as well as identifying
its nearest relative. Our results did not support the hypothesis that the
dune ecotype has hybrid ancestry, suggesting that adaptation of sunflowers
to dunes has occurred by multiple mechanisms. The ancestry and long-term
history of gene flow between incipient sunflower species provides valuable
context for our understanding of ecological speciation and parallel
adaptation.
GSD_RAD_SNPsGSD_RAD_SNPs contains SNP data, formatted as codominant
nucleotide genotypes (e.g. "AT", "CC" etc.) and with
missing data marked as "-"). The first two columns give the
reference contig where each SNP aligned and its position. The final column
gives Nei's Fst between the dune and non-dune ecotypes, estimated by
the 'basic.stats' function in the HIERFSTAT package of the R
statistical software. The data are sorted on this column. The data columns
are as follows: 50 dune individuals, 15 intermediate, 35 non-dune, 10 H.
petiolaris and 10 H. annuus.gsd_rad_structure_dataZip file containing
files used for STRUCTURE analyses presented in Figures 4, S1, S2, S3 and
S4.gsd75_sample100_3Data file for IMa2 analysis.
USA
Colorado
Great Sand Dunes National Park and Preserve
Mosca