Genetic variation data to explore the phylogeny of Iberian weedy rice

Weedy rice, a damaging conspecific weed of cultivated rice, has arisen
multiple times independently around the world. Understanding all weedy
rice origins is necessary to create more effective weed management
strategies. The origins of weedy rice in Spain and Portugal, where there
are no native Oryza species are unknown. We used genotyping-by-sequencing
(GBS) to understand the origin of Iberian weedy rice and its relationship
to other weedy, wild, and cultivated rice groups worldwide. This is the
variant call format (vcf) file for all 481 accessions including weedy,
wild, and cultivated rice. We used this dataset to understand the
phylogenetic relationships and population structure among these different
populations, especially the Iberian weedy rice. We find that weedy rice in
the Iberian Peninsula has primarily evolved through de-domestication of
temperate japonica cultivars, with minor origins from exotic weedy rice.