Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies
Abstract Rising atmospheric CO2 generally increases yield of indica rice, one of the two main Asian cultivated rice subspecies, more strongly than japonica rice, the other main subspecies. The molecular mechanisms driving this difference remain unclear, limiting the potential of future rice yield in...
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Nature Portfolio
2025-01-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-024-55809-3 |
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| author | Yunlong Liu Siyu Zhang Haoyu Qian Chengbo Shen Shuijin Hu Weijian Zhang Yong Wang Shan Huang Songhan Wang Zhenghui Liu Ganghua Li Xiangdong Fu Yanfeng Ding Shan Li Kees Jan van Groenigen Yu Jiang |
| author_facet | Yunlong Liu Siyu Zhang Haoyu Qian Chengbo Shen Shuijin Hu Weijian Zhang Yong Wang Shan Huang Songhan Wang Zhenghui Liu Ganghua Li Xiangdong Fu Yanfeng Ding Shan Li Kees Jan van Groenigen Yu Jiang |
| author_sort | Yunlong Liu |
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| description | Abstract Rising atmospheric CO2 generally increases yield of indica rice, one of the two main Asian cultivated rice subspecies, more strongly than japonica rice, the other main subspecies. The molecular mechanisms driving this difference remain unclear, limiting the potential of future rice yield increases through breeding efforts. Here, we show that between-species variation in the DNR1 (DULL NITROGEN RESPONSE1) allele, a regulator of nitrate-use efficiency in rice plants, explains the divergent response to elevated atmospheric CO2 (eCO2) conditions. eCO2 increased rice yield by 22.8–32.3% in plants carrying or mimicking the indica DNR1 allele, but only by 3.6–11.1% in plants carrying the japonica DNR1 allele. Rice plants carrying or mimicking the indica DNR1 allele exhibit decreased eCO2-responsive transcription and protein abundance of DNR1, which activates genes involved in nitrate transport and assimilation, driving the increase in plant growth. Our findings identify the indica DNR1 gene as a key breeding resource for sustainably enhancing nitrate uptake and rice yields in japonica varieties, potentially contributing to global food security as atmospheric CO2 levels continue to increase. |
| format | Article |
| id | doaj-art-4c247f9af63b4dc1bf9218e445468a8c |
| institution | Kabale University |
| issn | 2041-1723 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
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| series | Nature Communications |
| spelling | doaj-art-4c247f9af63b4dc1bf9218e445468a8c2025-01-05T12:39:33ZengNature PortfolioNature Communications2041-17232025-01-0116111210.1038/s41467-024-55809-3Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspeciesYunlong Liu0Siyu Zhang1Haoyu Qian2Chengbo Shen3Shuijin Hu4Weijian Zhang5Yong Wang6Shan Huang7Songhan Wang8Zhenghui Liu9Ganghua Li10Xiangdong Fu11Yanfeng Ding12Shan Li13Kees Jan van Groenigen14Yu Jiang15State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityState Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityJiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityState Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityDepartment of Entomology & Plant Pathology, North Carolina State UniversityInstitute of Crop Sciences, Chinese Academy of Agricultural SciencesMinistry of Education and Jiangxi Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Jiangxi Agricultural UniversityMinistry of Education and Jiangxi Key Laboratory of Crop Physiology, Ecology and Genetic Breeding, Jiangxi Agricultural UniversityJiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityJiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityJiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural UniversityState Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of SciencesState Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityState Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityDepartment of Geography, Faculty of Environment, Science and Economy, University of ExeterState Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural UniversityAbstract Rising atmospheric CO2 generally increases yield of indica rice, one of the two main Asian cultivated rice subspecies, more strongly than japonica rice, the other main subspecies. The molecular mechanisms driving this difference remain unclear, limiting the potential of future rice yield increases through breeding efforts. Here, we show that between-species variation in the DNR1 (DULL NITROGEN RESPONSE1) allele, a regulator of nitrate-use efficiency in rice plants, explains the divergent response to elevated atmospheric CO2 (eCO2) conditions. eCO2 increased rice yield by 22.8–32.3% in plants carrying or mimicking the indica DNR1 allele, but only by 3.6–11.1% in plants carrying the japonica DNR1 allele. Rice plants carrying or mimicking the indica DNR1 allele exhibit decreased eCO2-responsive transcription and protein abundance of DNR1, which activates genes involved in nitrate transport and assimilation, driving the increase in plant growth. Our findings identify the indica DNR1 gene as a key breeding resource for sustainably enhancing nitrate uptake and rice yields in japonica varieties, potentially contributing to global food security as atmospheric CO2 levels continue to increase.https://doi.org/10.1038/s41467-024-55809-3 |
| spellingShingle | Yunlong Liu Siyu Zhang Haoyu Qian Chengbo Shen Shuijin Hu Weijian Zhang Yong Wang Shan Huang Songhan Wang Zhenghui Liu Ganghua Li Xiangdong Fu Yanfeng Ding Shan Li Kees Jan van Groenigen Yu Jiang Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies Nature Communications |
| title | Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies |
| title_full | Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies |
| title_fullStr | Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies |
| title_full_unstemmed | Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies |
| title_short | Variation in a single allele drives divergent yield responses to elevated CO2 between rice subspecies |
| title_sort | variation in a single allele drives divergent yield responses to elevated co2 between rice subspecies |
| url | https://doi.org/10.1038/s41467-024-55809-3 |
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