Pre-domestication bottlenecks of the cultivated seaweed Gracilaria chilensis

Gracilaria chilensis is the main cultivated seaweed in Chile. The low genetic diversity observed in the Chilean population has been associated with the over-exploitation of natural beds and/or the founder effect that occurred during the post-glacial colonization from New Zealand. How these processes have affected its evolutionary trajectory before farming and incipient domestication is poorly understood. In this study, we used 2,232 SNPs to assess how the species' evolutionary history in New Zealand (its region of origin), the founder effect linked to transoceanic dispersion and colonization of South America, and the recent over-exploitation of natural populations have influenced the genetic architecture of G. chilensis in Chile. The contrasting patterns of genetic diversity and structure observed between the two main islands in New Zealand attest to the important effects of Quaternary glacial cycles on G. chilensis. ABC analyses indicated that Chatham Island and South America were colo..., , This data file includes genotypes for 2,232 single nucleotide polymorphisms (SNPs) in 687 individuals of Gracilaria chilense collected from 36 populations across the South Pacific Ocean, including New Zealand, Chatham Island, Perú, and Chile. The genetic data were obtained with ddRAD next-generation sequencing. Gracilaria chilense is a red alga presenting a typical haploid-diploid sexual life cycle and both and both haploids gametophytes and diploids sporophytes can be sampled jointly in population reproducing sexually. The species has the capacity to reproduce asexually by cuttings. Samples were collected from both rocky shores (i.e., attached individuals resulting from spore settlement, and therefore from sexual reproduction) and soft bottoms (i.e., free-floating thalli propagating vegetatively) when available. Gracilaria chilense is one of the few red algae that have been domesticated, and cultivated farms, populated almost exclusively by free-floating thalli propagating vegetatively...