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Li F, Yang JJ, Sun ZY, Wang L, Qi LY, A S, Liu YQ, Zhang HM, Dang LF, Wang SJ, Luo CX, Nian WF, O’Conner S, Ju LZ, Quan WP, Li XK, Wang C, Wang DP, You HL, Cheng ZK, Yan J, Tang FC, Yang DC, Xia CW, Gao G, Wang Y, Zhang BC, Zhou YH, Guo X, Xiang SH, Liu H, Peng TB, Su XD, Chen Y, Ouyang Q, Wang DH, Zhang DM, Xu ZH, Hou HW, Bai SN, Li L. Plant-on-chip: Core morphogenesis processes in the tiny plant Wolffia australiana. PNAS NEXUS 2023; 2:pgad141. [PMID: 37181047 PMCID: PMC10169700 DOI: 10.1093/pnasnexus/pgad141] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/15/2022] [Revised: 04/10/2023] [Accepted: 04/17/2023] [Indexed: 05/16/2023]
Abstract
A plant can be thought of as a colony comprising numerous growth buds, each developing to its own rhythm. Such lack of synchrony impedes efforts to describe core principles of plant morphogenesis, dissect the underlying mechanisms, and identify regulators. Here, we use the minimalist known angiosperm to overcome this challenge and provide a model system for plant morphogenesis. We present a detailed morphological description of the monocot Wolffia australiana, as well as high-quality genome information. Further, we developed the plant-on-chip culture system and demonstrate the application of advanced technologies such as single-nucleus RNA-sequencing, protein structure prediction, and gene editing. We provide proof-of-concept examples that illustrate how W. australiana can decipher the core regulatory mechanisms of plant morphogenesis.
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Affiliation(s)
- Feng Li
- The High School Affiliated to Renmin University of China, Beijing 100080, China
- Center of Quantitative Biology, Peking University, Beijing 100871, China
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Jing-Jing Yang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Zong-Yi Sun
- GrandOmics Biosciences Ltd., Wuhan 430076, China
| | - Lei Wang
- Department of Biological Sciences, Mississippi State University, Mississippi State, MS 39762, USA
| | - Le-Yao Qi
- The High School Affiliated to Renmin University of China, Beijing 100080, China
| | - Sina A
- The High School Affiliated to Renmin University of China, Beijing 100080, China
| | - Yi-Qun Liu
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Hong-Mei Zhang
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Lei-Fan Dang
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Shu-Jing Wang
- Center of Quantitative Biology, Peking University, Beijing 100871, China
| | - Chun-Xiong Luo
- Center of Quantitative Biology, Peking University, Beijing 100871, China
| | - Wei-Feng Nian
- The High School Affiliated to Renmin University of China, Beijing 100080, China
| | - Seth O’Conner
- Department of Biological Sciences, Mississippi State University, Mississippi State, MS 39762, USA
| | - Long-Zhen Ju
- GrandOmics Biosciences Ltd., Wuhan 430076, China
| | | | - Xiao-Kang Li
- GrandOmics Biosciences Ltd., Wuhan 430076, China
| | - Chao Wang
- GrandOmics Biosciences Ltd., Wuhan 430076, China
| | - De-Peng Wang
- GrandOmics Biosciences Ltd., Wuhan 430076, China
| | - Han-Li You
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China
| | - Zhu-Kuan Cheng
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China
| | - Jia Yan
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Fu-Chou Tang
- College of Life Sciences, Peking University, Beijing 100871, China
| | - De-Chang Yang
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
- Biomedical Pioneering Innovative Center (BIOPIC) and Beijing Advanced Innovation Center for Genomics (ICG), Beijing 100871, China
- Center for Bioinformatics (CBI), Peking University, Beijing 100871, China
| | - Chu-Wei Xia
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
- Biomedical Pioneering Innovative Center (BIOPIC) and Beijing Advanced Innovation Center for Genomics (ICG), Beijing 100871, China
- Center for Bioinformatics (CBI), Peking University, Beijing 100871, China
| | - Ge Gao
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
- Biomedical Pioneering Innovative Center (BIOPIC) and Beijing Advanced Innovation Center for Genomics (ICG), Beijing 100871, China
- Center for Bioinformatics (CBI), Peking University, Beijing 100871, China
| | - Yan Wang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China
| | - Bao-Cai Zhang
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China
| | - Yi-Hua Zhou
- Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China
| | - Xing Guo
- State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen 518083, China
| | - Sun-Huan Xiang
- State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen 518083, China
| | - Huan Liu
- State Key Laboratory of Agricultural Genomics, BGI-Shenzhen, Shenzhen 518083, China
| | - Tian-Bo Peng
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Xiao-Dong Su
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Yong Chen
- PASTEUR, Département de chimie, École normale supérieure, PSL University, Sorbonne Université, CNRS, 24 rue Lhomond, Paris 75005, France
| | - Qi Ouyang
- Center of Quantitative Biology, Peking University, Beijing 100871, China
- School of Physics, Peking University, Beijing 100871, China
| | - Dong-Hui Wang
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Da-Ming Zhang
- Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China
| | - Zhi-Hong Xu
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Hong-Wei Hou
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Shu-Nong Bai
- Center of Quantitative Biology, Peking University, Beijing 100871, China
- State Key Laboratory of Protein & Plant Gene Research, Peking University, Beijing 100871, China
- College of Life Sciences, Peking University, Beijing 100871, China
| | - Ling Li
- Department of Biological Sciences, Mississippi State University, Mississippi State, MS 39762, USA
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Xie X, Wang Y, Datla R, Ren M. Auxin and Target of Rapamycin Spatiotemporally Regulate Root Organogenesis. Int J Mol Sci 2021; 22:ijms222111357. [PMID: 34768785 PMCID: PMC8583787 DOI: 10.3390/ijms222111357] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Accepted: 10/20/2021] [Indexed: 12/17/2022] Open
Abstract
The programs associated with embryonic roots (ERs), primary roots (PRs), lateral roots (LRs), and adventitious roots (ARs) play crucial roles in the growth and development of roots in plants. The root functions are involved in diverse processes such as water and nutrient absorption and their utilization, the storage of photosynthetic products, and stress tolerance. Hormones and signaling pathways play regulatory roles during root development. Among these, auxin is the most important hormone regulating root development. The target of rapamycin (TOR) signaling pathway has also been shown to play a key role in root developmental programs. In this article, the milestones and influential progress of studying crosstalk between auxin and TOR during the development of ERs, PRs, LRs and ARs, as well as their functional implications in root morphogenesis, development, and architecture, are systematically summarized and discussed.
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Affiliation(s)
- Xiulan Xie
- Labarotary of Space Biology, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (X.X.); (Y.W.)
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Science of Zhengzhou University, Zhengzhou 450000, China
- Hainan Yazhou Bay Seed Laboratory, Sanya 572025, China
| | - Ying Wang
- Labarotary of Space Biology, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (X.X.); (Y.W.)
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Science of Zhengzhou University, Zhengzhou 450000, China
- Hainan Yazhou Bay Seed Laboratory, Sanya 572025, China
| | - Raju Datla
- Global Institute for Food Security in Saskatoon, University of Saskatchewan, Saskatoon, SK S7N 0W9, Canada
- Correspondence: (R.D.); (M.R.)
| | - Maozhi Ren
- Labarotary of Space Biology, Institute of Urban Agriculture, Chinese Academy of Agricultural Sciences, Chengdu 610213, China; (X.X.); (Y.W.)
- Zhengzhou Research Base, State Key Laboratory of Cotton Biology, School of Agricultural Science of Zhengzhou University, Zhengzhou 450000, China
- Hainan Yazhou Bay Seed Laboratory, Sanya 572025, China
- Correspondence: (R.D.); (M.R.)
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