Natural allelic variation in a modulator of auxin homeostasis improves grain yield and nitrogen use efficiency in rice

Author:

Zhang Siyu1ORCID,Zhu Limei1ORCID,Shen Chengbo1ORCID,Ji Zhe2ORCID,Zhang Haipeng1ORCID,Zhang Tao3ORCID,Li Yu45ORCID,Yu Jianping4ORCID,Yang Ning6ORCID,He Yubing1ORCID,Tian Yanan1ORCID,Wu Kun4ORCID,Wu Juyou1ORCID,Harberd Nicholas P2ORCID,Zhao Yunde3ORCID,Fu Xiangdong45ORCID,Wang Shaokui7ORCID,Li Shan18ORCID

Affiliation:

1. State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China

2. Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK

3. Section of Cell and Developmental Biology, University of California, San Diego, La Jolla, California 92093, USA

4. State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing 100101, China

5. College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China

6. National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, Wuhan 430070, China

7. State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510640, China

8. Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, China

Abstract

Abstract The external application of nitrogen (N) fertilizers is an important practice for increasing crop production. However, the excessive use of fertilizers significantly increases production costs and causes environmental problems, making the improvement of crop N-use efficiency (NUE) crucial for sustainable agriculture in the future. Here we show that the rice (Oryza sativa) NUE quantitative trait locus DULL NITROGEN RESPONSE1 (qDNR1), which is involved in auxin homeostasis, reflects the differences in nitrate (NO3−) uptake, N assimilation, and yield enhancement between indica and japonica rice varieties. Rice plants carrying the DNR1indica allele exhibit reduced N-responsive transcription and protein abundance of DNR1. This, in turn, promotes auxin biosynthesis, thereby inducing AUXIN RESPONSE FACTOR-mediated activation of NO3− transporter and N-metabolism genes, resulting in improved NUE and grain yield. We also show that a loss-of-function mutation at the DNR1 locus is associated with increased N uptake and assimilation, resulting in improved rice yield under moderate levels of N fertilizer input. Therefore, modulating the DNR1-mediated auxin response represents a promising strategy for achieving environmentally sustainable improvements in rice yield.

Funder

Young Elite Scientists Sponsorship Program by CAST

Nanjing Agricultural University Start-up Funding

Fundamental Research Funds for the Central Universities

Jiangsu Collaborative Innovation Center for Modern Crop Production

BBSRC-Newton “Rice” Initiative

BBSRC Response Modes

Publisher

Oxford University Press (OUP)

Subject

Cell Biology,Plant Science

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