Rice functional genomics: decades' efforts and roads ahead.

Letian Chen, Jiayang Li, Yaoguang Liu, Daoxin Xie, Shuhua Yang, Yongzhong Xing, Xuehui Huang, Zuhua He, Guangcun He, Chengcai Chu, Rongzhi Chen, Jiaxin Chen, Zhihua Zhang, Yongyao Xie, Changsheng Wang, Bing Wang, Jie Qiu, Jingxin Guo, Yanglin Ding, Yiwen Deng

Journal: Science China. Life sciences 2022;65(1):33-92

PMID: 34881420

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Abstract

Rice (Oryza sativa L.) is one of the most important crops in the world. Since the completion of rice reference genome sequences, tremendous progress has been achieved in understanding the molecular mechanisms on various rice traits and dissecting the underlying regulatory networks. In this review, we summarize the research progress of rice biology over past decades, including omics, genome-wide association study, phytohormone action, nutrient use, biotic and abiotic responses, photoperiodic flowering, and reproductive development (fertility and sterility). For the roads ahead, cutting-edge technologies such as new genomics methods, high-throughput phenotyping platforms, precise genome-editing tools, environmental microbiome optimization, and synthetic methods will further extend our understanding of unsolved molecular biology questions in rice, and facilitate integrations of the knowledge for agricultural applications.

Address: State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, China.; National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology & Ecology, Chinese Academy of Sciences, Shanghai, 200032, China.; State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.; State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, 510642, China.; Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, 200234, China.; State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China.; National Center for Gene Research, Center of Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200233, China.; College of Plant Science, Jilin University, Changchun, 130062, China.; National Key Laboratory of Crop Genetic Improvement and National Centre of Plant Gene Research, Huazhong Agricultural University, Wuhan, 430070, China.; MOE Laboratory of Bioinformatics, School of Life Sciences, Tsinghua University, Beijing, 100084, China. [email protected].; State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, 510642, China. [email protected].; State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. [email protected].

DOI: 10.1007/s11427-021-2024-0

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https://dx.doi.org/10.1007/s11427-021-2024-0

MeSH Terms: Crops, Agricultural, Epigenomics, Food Parasitology, Genome, Plant, Genome-Wide Association Study, Oryza, Phenotype, Plant Growth Regulators, Signal Transduction