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A single-cell multi-omics atlas of rice

Cell functions across eukaryotes are driven by specific gene expression programs, which are dependent on chromatin structure1-3. Here we report a single-cell multi-omics atlas of rice, one of the world’s major crops. By simultaneously profiling chromatin accessibility and RNA expression in 116,564 c...

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Hauptverfasser: Wang, Xiangyu (Verfasst von) , Huang, Huanwei (Verfasst von) , Jiang, Sanjie (Verfasst von) , Kang, Jingmin (Verfasst von) , Li, Dongwei (Verfasst von) , Wang, Kailai (Verfasst von) , Xie, Shang (Verfasst von) , Tong, Cheng (Verfasst von) , Liu, Chaofan (Verfasst von) , Hu, Guihua (Verfasst von) , Li, Haoqian (Verfasst von) , Li, Cong (Verfasst von) , Yang, Liwen (Verfasst von) , Ding, Yike (Verfasst von) , Li, Shang-Tong (Verfasst von) , Wang, Faming (Verfasst von) , Lohmann, Jan U. (Verfasst von) , Liang, Zhe (Verfasst von) , Gu, Xiaofeng (Verfasst von)
Dokumenttyp: Article (Journal)
Sprache:Englisch
Veröffentlicht: 09 July 2025
In: Nature
Year: 2025, Jahrgang: 644, Heft: 8077, Pages: 722-730, [1-23]
ISSN:1476-4687
DOI:10.1038/s41586-025-09251-0
Online-Zugang:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1038/s41586-025-09251-0
Verlag, lizenzpflichtig, Volltext: https://www.nature.com/articles/s41586-025-09251-0
Volltext
Verfasserangaben:Xiangyu Wang, Huanwei Huang, Sanjie Jiang, Jingmin Kang, Dongwei Li, Kailai Wang, Shang Xie, Cheng Tong, Chaofan Liu, Guihua Hu, Haoqian Li, Cong Li, Liwen Yang, Yike Ding, Shang-Tong Li, Faming Wang, Jan U. Lohmann, Zhe Liang & Xiaofeng Gu
Beschreibung
Zusammenfassung:Cell functions across eukaryotes are driven by specific gene expression programs, which are dependent on chromatin structure1-3. Here we report a single-cell multi-omics atlas of rice, one of the world’s major crops. By simultaneously profiling chromatin accessibility and RNA expression in 116,564 cells from eight organs, we identified cell-type-specific gene regulatory networks and described novel cell states, such as a ‘transitional state’ in floral meristems. On the basis of our network analyses, we uncovered the function of the cell-type-specific regulatory hubs RSR1, F3H and LTPL120 during rice development. Our analysis revealed correlations between cell type and agronomic traits, as well as conserved and divergent cell-type functions during evolution. In summary, this study not only offers a unique single-cell multi-omics resource for a major crop but also advances our understanding of cell-type functions and the underlying molecular programs in rice.
Beschreibung:Gesehen am 25.11.2025
Beschreibung:Online Resource
ISSN:1476-4687
DOI:10.1038/s41586-025-09251-0

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