The bracteatus pineapple genome and domestication of clonally propagated crops
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Authors
Chen, Li-Yu
VanBuren, Robert
Paris, Margot
Zhou, Hongye
Zhang, Xingtan
Wai, Ching M.
Yan, Hansong
Chen, Shuai
Alonge, Michael
Ramakrishnan, Srividya
Issue Date
2019
Type
Article
Language
Keywords
HPC-Pronghorn , Genomics , Bioinformatics , Genome assembly , pineapple , domestication , genome , propagate
Alternative Title
Abstract
Domestication of clonally propagated crops such as pineapple from South America was hypothesized to be a ‘one-step operation'. We sequenced the genome of Ananas comosus var. bracteatus CB5 and assembled 513?Mb into 25 chromosomes with 29,412 genes. Comparison of the genomes of CB5, F153 and MD2 elucidated the genomic basis of fiber production, color formation, sugar accumulation and fruit maturation. We also resequenced 89 Ananas genomes. Cultivars ‘Smooth Cayenne' and ‘Queen' exhibited ancient and recent admixture, while ‘Singapore Spanish' supported a one-step operation of domestication. We identified 25 selective sweeps, including a strong sweep containing a pair of tandemly duplicated bromelain inhibitors. Four candidate genes for self-incompatibility were linked in F153, but were not functional in self-compatible CB5. Our findings support the coexistence of sexual recombination and a one-step operation in the domestication of clonally propagated crops. This work guides the exploration of sexual and asexual domestication trajectories in other clonally propagated crops.
Description
Citation
Chen, L., VanBuren, R., Paris, M. et al. The bracteatus pineapple genome and domestication of clonally propagated crops. Nat Genet 51, 1549�"1558 (2019) doi:10.1038/s41588-019-0506-8
Publisher
License
Creative Commons Attribution 4.0 International
Journal
Volume
Issue
PubMed ID
ISSN
1546-1718