Genomic history and ecology of the geographic spread of rice

Rafal M. Gutaker, Simon C. Groen, Emily S. Bellis, Jae Y. Choi, Inês S. Pires, R. Kyle Bocinsky, Emma R. Slayton, Olivia Wilkins, Cristina C. Castillo, Sónia Negrão, M. Margarida Oliveira, Dorian Q. Fuller, Jade A.d’Alpoim Guedes, Jesse R. Lasky, Michael D. Purugganan

    Research output: Contribution to journalArticlepeer-review

    132 Scopus citations

    Abstract

    Rice (Oryza sativa) is one of the world’s most important food crops, and is comprised largely of japonica and indica subspecies. Here, we reconstruct the history of rice dispersal in Asia using whole-genome sequences of more than 1,400 landraces, coupled with geographic, environmental, archaeobotanical and paleoclimate data. Originating around 9,000 yr ago in the Yangtze Valley, rice diversified into temperate and tropical japonica rice during a global cooling event about 4,200 yr ago. Soon after, tropical japonica rice reached Southeast Asia, where it rapidly diversified, starting about 2,500 yr bp. The history of indica rice dispersal appears more complicated, moving into China around 2,000 yr bp. We also identify extrinsic factors that influence genome diversity, with temperature being a leading abiotic factor. Reconstructing the dispersal history of rice and its climatic correlates may help identify genetic adaptations associated with the spread of a key domesticated species.

    Original languageEnglish
    Pages (from-to)492-502
    Number of pages11
    JournalNature Plants
    Volume6
    Issue number5
    DOIs
    StatePublished - May 1 2020

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