Multi-omics resources for targeted agronomic improvement of pigmented rice

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dc.creatorSedeek, Khalid
dc.creatorZuccolo, Andrea
dc.creatorFornasiero, Alice
dc.creatorWeber, Annika M.
dc.creatorSanikommu, Krishnaveni
dc.creatorSampathkumar, Sangeetha
dc.creatorRivera, Luis F.
dc.creatorButt, Haroon
dc.creatorMussurova, Saule
dc.creatorAlhabsi, Abdulrahman
dc.creatorNurmansyah, Nurmansyah
dc.creatorRyan, Elizabeth P.
dc.creatorWing, Rod A.
dc.creatorMahfouz, Magdy M.
dc.date2023-05-11
dc.date2024-12-19T12:53:13Z
dc.date2024-12-19T12:53:13Z
dc.date.accessioned2026-06-27T04:14:10Z
dc.descriptionPigmented rice (Oryza sativa L.) is a rich source of nutrients, but pigmented lines typically have long life cycles and limited productivity. Here we generated genome assemblies of 5 pigmented rice varieties and evaluated the genetic variation among 51 pigmented rice varieties by resequencing an additional 46 varieties. Phylogenetic analyses divided the pigmented varieties into four varietal groups: Geng-japonica, Xian-indica, circum-Aus and circum-Basmati. Metabolomics and ionomics profiling revealed that black rice varieties are rich in aromatic secondary metabolites. We established a regeneration and transformation system and used CRISPR–Cas9 to knock out three flowering time repressors (Hd2, Hd4 and Hd5) in the black Indonesian rice Cempo Ireng, resulting in an early maturing variety with shorter stature. Our study thus provides a multi-omics resource for understanding and improving Asian pigmented rice.
dc.identifierhttps://hdl.handle.net/10568/163950
dc.identifier.urihttp://hdl.handle.net/123456789/26066
dc.languageen
dc.publisherSpringer
dc.rightsOpen Access
dc.sourceSedeek, Khalid; Zuccolo, Andrea; Fornasiero, Alice; Weber, Annika M.; Sanikommu, Krishnaveni; Sampathkumar, Sangeetha; Rivera, Luis F.; Butt, Haroon; Mussurova, Saule; Alhabsi, Abdulrahman; Nurmansyah, Nurmansyah; Ryan, Elizabeth P.; Wing, Rod A. and Mahfouz, Magdy M. 2023. Multi-omics resources for targeted agronomic improvement of pigmented rice. Nat Food, Volume 4 no. 5 p. 366-371
dc.subjectgenetic variation
dc.subjectlife cycle
dc.subjectmetabolomics
dc.subjectnutrients
dc.subjectoryza satica l.
dc.subjectpigmentation
dc.subjectproductivity
dc.subjectphylogenetic analysis
dc.titleMulti-omics resources for targeted agronomic improvement of pigmented rice
dc.typeJournal Article

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Instituto Internacional de Investigación del Arroz (IRRI)