Oryza genome evolution through a tetraploid lens

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dc.creatorFornasiero, Alice
dc.creatorFeng, Tao
dc.creatorAl-Bader, Noor
dc.creatorAlsantely, Aseel
dc.creatorMussurova, Saule
dc.creatorHoang, Nam V.
dc.creatorMisra, Gopal
dc.creatorZhou, Yong
dc.creatorFabbian, Leonardo
dc.creatorMohammed, Nahed
dc.creatorRivera Serna, Luis
dc.creatorThimma, Manjula
dc.creatorLlaca, Victor
dc.creatorParakkal, Praveena
dc.creatorKudrna, David
dc.creatorCopetti, Dario
dc.creatorRajasekar, Shanmugam
dc.creatorLee, Seunghee
dc.creatorTalag, Jayson
dc.creatorSobel-Sorenson, Chandler
dc.creatorCarpentier, Marie-Christine
dc.creatorPanaud, Olivier
dc.creatorMcNally, Kenneth L.
dc.creatorZhang, Jianwei
dc.creatorZuccolo, Andrea
dc.creatorSchranz, M. Eric
dc.creatorWing, Rod A.
dc.date2025-05
dc.date2025-07-23T05:59:16Z
dc.date2025-07-23T05:59:16Z
dc.date.accessioned2026-06-27T04:14:50Z
dc.descriptionOryza is a remarkable genus comprising 27 species and 11 genome types, with ~3.4-fold genome size variation, that possesses a virtually untapped reservoir of genes that can be used for crop improvement and neodomestication. Here we present 11 chromosome-level assemblies (nine tetraploid, two diploid) in the context of ~15 million years of evolution and show that the core Oryza (sub)genome is only ~200 Mb and largely syntenic, whereas the remaining nuclear fractions (~80–600 Mb) are intermingled, plastic and rapidly evolving. For the halophyte Oryza coarctata, we found that despite detection of gene fractionation in the subgenomes, homoeologous genes were expressed at higher levels in one subgenome over the other in a mosaic form, demonstrating subgenome equivalence. The integration of these 11 new reference genomes with previously published genome datasets provides a nearly complete view of the consequences of evolution for genome diversification across the genus.
dc.formatapplication/pdf
dc.identifierhttps://hdl.handle.net/10568/175744
dc.identifier.urihttp://hdl.handle.net/123456789/26441
dc.languageen
dc.publisherSpringer
dc.rightsOpen Access
dc.sourceFornasiero, Alice, Tao Feng, Noor Al-Bader, Aseel Alsantely, Saule Mussurova, Nam V. Hoang, Gopal Misra et al. "Oryza genome evolution through a tetraploid lens." Nature Genetics 57, no. 5 (2025): 1287-1297.
dc.subjectgenomes
dc.subjectchromosome mapping
dc.subjectOryza
dc.subjectgene expression
dc.subjectgene pools
dc.subjectcrop improvement
dc.subjectplant breeding
dc.subjectevolution
dc.subjectgenetic resources
dc.subjecthaplotypes
dc.subjectgenetic variation
dc.subjectdomestication
dc.titleOryza genome evolution through a tetraploid lens
dc.typeJournal Article

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Instituto Internacional de Investigación del Arroz (IRRI)