<i>CHPO</i> coordinates chilling recovery and nitrogen use in rice

Data availability

The RNA-seq data, DAP-seq data and CUT&Tag-seq data have been deposited in the Genome Sequence Archive in the National Genomics Data Center ( https://ngdc.cncb.ac.cn/ , bioproject ID PRJCA031750). CHPO sequence data of Fig. 5g and Extended Data Fig. 10a–c are available from the Rice Annotation Project Database (RAP-DB) ( https://rapdb.dna.naro.go.jp/ ), Pangenome Database of Wild and Cultivated Rice (RicePandb) ( http://ricepandb.ncgr.ac.cn/ ) and the dataset associated with the published study ‘Multiple domestications of Asian rice’ 29 ( https://doi.org/10.1038/s41477-023-01476-z ). CHPO GCG allele data of Extended Data Fig. 10d–f are available from Rice Variation Map v.2.0 ( https://ricevarmap.ncpgr.cn/ ). Geographical distribution information of varieties of Extended Data Fig. 10d–f is available from Rice Variation Map v.2.0 ( https://ricevarmap.ncpgr.cn/ ) and Sandbox ( https://sandbox.genesys-pgr.org ). Soil temperature data of Extended Data Fig. 10d–f are available from the NOAA-CIRES-DOE 20th Century Reanalysis v.3 dataset provided by the NOAA Physical Sciences Laboratory, using the daily long-term mean soil temperature file tsoil.day.ltm.nc ( https://psl.noaa.gov/data/gridded/data.20thC_ReanV3.html ). Altitude data of Extended Data Fig. 10d–f are available from R package elevatr ( https://cran.r-project.org/web/packages/elevatr/index.html ). Soil nitrogen content data of Extended Data Fig. 10d–f are obtained from the Global Soil Dataset for Earth System Modeling ( http://globalchange.bnu.edu.cn/research/soilw ). Full version of all gels and blots are provided in Supplementary Fig. 1 .  Source data are provided with this paper.

Code availability

This paper does not report original code, custom software or custom algorithms. Data analyses and figure generation were performed using standard functions from R and publicly available R packages, as described in the Methods .

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