1
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Croce R, Carmo-Silva E, Cho YB, Ermakova M, Harbinson J, Lawson T, McCormick AJ, Niyogi KK, Ort DR, Patel-Tupper D, Pesaresi P, Raines C, Weber APM, Zhu XG. Perspectives on improving photosynthesis to increase crop yield. Plant Cell 2024:koae132. [PMID: 38701340 DOI: 10.1093/plcell/koae132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2024] [Revised: 03/11/2024] [Accepted: 03/22/2024] [Indexed: 05/05/2024]
Abstract
Improving photosynthesis, the fundamental process by which plants convert light energy into chemical energy, is a key area of research with great potential for enhancing sustainable agricultural productivity and addressing global food security challenges. This perspective delves into the latest advancements and approaches aimed at optimizing photosynthetic efficiency. Our discussion encompasses the entire process, beginning with light harvesting and its regulation and progressing through the bottleneck of electron transfer. We then delve into the carbon reactions of photosynthesis, focusing on strategies targeting the enzymes of the Calvin-Benson-Bassham (CBB) cycle. Additionally, we explore methods to increase CO2 concentration near the Rubisco, the enzyme responsible for the first step of CBB cycle, drawing inspiration from various photosynthetic organisms, and conclude this section by examining ways to enhance CO2 delivery into leaves. Moving beyond individual processes, we discuss two approaches to identifying key targets for photosynthesis improvement: systems modeling and the study of natural variation. Finally, we revisit some of the strategies mentioned above to provide a holistic view of the improvements, analyzing their impact on nitrogen use efficiency and on canopy photosynthesis.
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Affiliation(s)
- Roberta Croce
- Vrije Universiteit Amsterdam, Amsterdam, Netherlands 1081 HV, Netherlands
| | - Elizabete Carmo-Silva
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 3SX, United Kingdom
| | - Young B Cho
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL 61801, USA
| | - Maria Ermakova
- School of Biological Sciences, Monash University, Melbourne, VIC 3800, Australia
| | - Jeremy Harbinson
- Laboratory of Biophysics, Wageningen University, Stippeneng 4, 6708 WE Wageningen, The Netherlands
| | - Tracy Lawson
- University of Essex, School of Life Sciences, Colchester, Essex CO4 3SQ, United Kingdom
| | - Alistair J McCormick
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, EH9 3BF, United Kingdom
- Centre for Engineering Biology, School of Biological Sciences, University of Edinburgh, EH9 3BF, United Kingdom
| | - Krishna K Niyogi
- Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
- Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA
- Innovative Genomics Institute, University of California, Berkeley, CA 94720, USA
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
| | - Donald R Ort
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL 61801, USA
| | - Dhruv Patel-Tupper
- Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720, USA
- Howard Hughes Medical Institute, University of California, Berkeley, CA 94720, USA
| | - Paolo Pesaresi
- Department of Biosciences, University of Milan, 20133, Milan, Italy
| | - Christine Raines
- University of Essex, School of Life Sciences, Colchester, Essex CO4 3SQ, United Kingdom
| | - Andreas P M Weber
- Institute of Plant Biochemistry, Cluster of Excellence on Plant Science (CEPLAS), Heinrich Heine University, University Street 1, Düsseldorf, 40225, Germany
| | - Xin-Guang Zhu
- Key Laboratory of Carbon Capture, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032, China
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2
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Tang Q, Huang Y, Ni X, Lyu MJA, Chen G, Sage R, Zhu XG. Increased α-ketoglutarate links the C3-C4 intermediate state to C4 photosynthesis in the genus Flaveria. Plant Physiol 2024; 195:291-305. [PMID: 38377473 DOI: 10.1093/plphys/kiae077] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Revised: 12/15/2023] [Accepted: 12/17/2023] [Indexed: 02/22/2024]
Abstract
As a complex trait, C4 photosynthesis has multiple independent origins in evolution. Phylogenetic evidence and theoretical analysis suggest that C2 photosynthesis, which is driven by glycine decarboxylation in the bundle sheath cell, may function as a bridge from C3 to C4 photosynthesis. However, the exact molecular mechanism underlying the transition between C2 photosynthesis to C4 photosynthesis remains elusive. Here, we provide evidence suggesting a role of higher α-ketoglutarate (AKG) concentration during this transition. Metabolomic data of 12 Flaveria species, including multiple photosynthetic types, show that AKG concentration initially increased in the C3-C4 intermediate with a further increase in C4 species. Petiole feeding of AKG increases the concentrations of C4-related metabolites in C3-C4 and C4 species but not the activity of C4-related enzymes. Sequence analysis shows that glutamate synthase (Fd-GOGAT), which catalyzes the generation of glutamate using AKG, was under strong positive selection during the evolution of C4 photosynthesis. Simulations with a constraint-based model for C3-C4 intermediate further show that decreasing the activity of Fd-GOGAT facilitated the transition from a C2-dominant to a C4-dominant CO2 concentrating mechanism. All these results provide insight into the mechanistic switch from C3-C4 intermediate to C4 photosynthesis.
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Affiliation(s)
- Qiming Tang
- University of Chinese Academy of Sciences (UCAS), Beijing 100049, China
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Yuhui Huang
- University of Chinese Academy of Sciences (UCAS), Beijing 100049, China
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Xiaoxiang Ni
- University of Chinese Academy of Sciences (UCAS), Beijing 100049, China
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Ming-Ju Amy Lyu
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Genyun Chen
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Rowan Sage
- Department of Ecology and Evolution, The University of Toronto, Toronto, Ontario M5S3B2, Canada
| | - Xin-Guang Zhu
- University of Chinese Academy of Sciences (UCAS), Beijing 100049, China
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
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3
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Zhang T, Zhang R, Zeng XY, Lee S, Ye LH, Tian SL, Zhang YJ, Busch W, Zhou WB, Zhu XG, Wang P. GLK transcription factors accompany ELONGATED HYPOCOTYL5 to orchestrate light-induced seedling development in Arabidopsis. Plant Physiol 2024; 194:2400-2421. [PMID: 38180123 DOI: 10.1093/plphys/kiae002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 11/28/2023] [Accepted: 12/11/2023] [Indexed: 01/06/2024]
Abstract
Light-induced de-etiolation is an important aspect of seedling photomorphogenesis. GOLDEN2 LIKE (GLK) transcriptional regulators are involved in chloroplast development, but to what extent they participate in photomorphogenesis is not clear. Here, we show that ELONGATED HYPOCOTYL5 (HY5) binds to GLK promoters to activate their expression, and also interacts with GLK proteins in Arabidopsis (Arabidopsis thaliana). The chlorophyll content in the de-etiolating Arabidopsis seedlings of the hy5 glk2 double mutants was lower than that in the hy5 single mutant. GLKs inhibited hypocotyl elongation, and the phenotype could superimpose on the hy5 phenotype. Correspondingly, GLK2 regulated the expression of photosynthesis and cell elongation genes partially independent of HY5. Before exposure to light, DE-ETIOLATED 1 (DET1) affected accumulation of GLK proteins. The enhanced etioplast development and photosystem gene expression observed in the det1 mutant were attenuated in the det1 glk2 double mutant. Our study reveals that GLKs act downstream of HY5, or additive to HY5, and are likely quantitatively adjusted by DET1, to orchestrate multiple developmental traits during the light-induced skotomorphogenesis-to-photomorphogenesis transition in Arabidopsis.
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Affiliation(s)
- Ting Zhang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 101408, China
| | - Rui Zhang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- Key Laboratory of Plant Carbon Capture, CAS, Shanghai 200032, China
| | - Xi-Yu Zeng
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 101408, China
| | - Sanghwa Lee
- Plant Molecular and Cellular Biology Laboratory, Salk Institute for Biological Studies, 10010 N Torrey Pines Rd, La Jolla, CA 92037, USA
| | - Lu-Huan Ye
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- Key Laboratory of Plant Carbon Capture, CAS, Shanghai 200032, China
| | - Shi-Long Tian
- University of Chinese Academy of Sciences, Beijing 101408, China
| | - Yi-Jing Zhang
- State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biochemistry, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200438, China
| | - Wolfgang Busch
- Plant Molecular and Cellular Biology Laboratory, Salk Institute for Biological Studies, 10010 N Torrey Pines Rd, La Jolla, CA 92037, USA
| | - Wen-Bin Zhou
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Xin-Guang Zhu
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- Key Laboratory of Plant Carbon Capture, CAS, Shanghai 200032, China
| | - Peng Wang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
- Key Laboratory of Plant Carbon Capture, CAS, Shanghai 200032, China
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4
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Zhu XG, Treves H, Zhao H. Mechanisms controlling metabolite concentrations of the Calvin Benson Cycle. Semin Cell Dev Biol 2024; 155:3-9. [PMID: 36858897 DOI: 10.1016/j.semcdb.2023.02.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 01/28/2023] [Accepted: 02/23/2023] [Indexed: 03/03/2023]
Abstract
Maintaining proper metabolite levels in a complex metabolic network is crucial for maintaining a high flux through the network. In this paper, we discuss major regulatory mechanisms over the Calvin Benson Cycle (CBC) with regard to their roles in conferring homeostasis of metabolite levels in CBC. These include: 1) Redox regulation of enzymes in the CBC on one hand ensures that metabolite levels stay above certain lower bounds under low light while on the other hand increases the flux through the CBC under high light. 2) Metabolite regulations, especially allosteric regulations of major regulatory enzymes, ensure the rapid up-regulation of fluxes to ensure sufficient amount of triose phosphate is available for end product synthesis and concurrently avoid phosphate limitation. 3) A balanced activities of enzymes in the CBC help maintain balanced flux through CBC; some innate product feedback mechanisms, in particular the ADP feedback regulation of GAPDH and F6P feedback regulation of FBPase, exist in CBC to achieve such a balanced enzyme activities and hence flux distribution in the CBC for greater photosynthetic efficiency. Transcriptional regulation and natural variations of enzymes controlling CBC metabolite homeostasis should be further explored to maximize the potential of engineering CBC for greater efficiency.
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Affiliation(s)
- Xin-Guang Zhu
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Science, Shanghai 200032, China.
| | - Haim Treves
- School of Plant Sciences and Food Security, Tel-Aviv University, 6997801, Israel
| | - Honglong Zhao
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Science, Shanghai 200032, China
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5
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Zhang Q, Tian S, Chen G, Tang Q, Zhang Y, Fleming AJ, Zhu XG, Wang P. Regulatory NADH dehydrogenase-like complex optimizes C 4 photosynthetic carbon flow and cellular redox in maize. New Phytol 2024; 241:82-101. [PMID: 37872738 DOI: 10.1111/nph.19332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2023] [Accepted: 09/20/2023] [Indexed: 10/25/2023]
Abstract
C4 plants typically operate a CO2 concentration mechanism from mesophyll (M) cells into bundle sheath (BS) cells. NADH dehydrogenase-like (NDH) complex is enriched in the BS cells of many NADP-malic enzyme (ME) type C4 plants and is more abundant in C4 than in C3 plants, but to what extent it is involved in the CO2 concentration mechanism remains to be experimentally investigated. We created maize and rice mutants deficient in NDH function and then used a combination of transcriptomic, proteomic, and metabolomic approaches for comparative analysis. Considerable decreases in growth, photosynthetic activities, and levels of key photosynthetic proteins were observed in maize but not rice mutants. However, transcript abundance for many cyclic electron transport (CET) and Calvin-Benson cycle components, as well as BS-specific C4 enzymes, was increased in maize mutants. Metabolite analysis of the maize ndh mutants revealed an increased NADPH : NADP ratio, as well as malate, ribulose 1,5-bisphosphate (RuBP), fructose 1,6-bisphosphate (FBP), and photorespiration intermediates. We suggest that by optimizing NADPH and malate levels and adjusting NADP-ME activity, NDH functions to balance metabolic and redox states in the BS cells of maize (in addition to ATP supply), coordinating photosynthetic transcript abundance and protein content, thus directly regulating the carbon flow in the two-celled C4 system of maize.
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Affiliation(s)
- Qiqi Zhang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shilong Tian
- University of Chinese Academy of Sciences, Beijing, China
| | - Genyun Chen
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Qiming Tang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Yijing Zhang
- State Key Laboratory of Genetic Engineering, Collaborative Innovation Center of Genetics and Development, Department of Biochemistry, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200438, China
| | - Andrew J Fleming
- School of Biosciences, University of Sheffield, Western Bank, Sheffield, S10 2TN, UK
| | - Xin-Guang Zhu
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Peng Wang
- CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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6
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Song Q, Zhu XG. Measuring Canopy Gas Exchange Using CAnopy Photosynthesis and Transpiration Systems (CAPTS). Methods Mol Biol 2024; 2790:213-226. [PMID: 38649573 DOI: 10.1007/978-1-0716-3790-6_11] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/25/2024]
Abstract
Canopy photosynthesis (Ac), rather than leaf photosynthesis, is critical to gaining higher biomass production in the field because the daily or seasonal integrals of Ac correlate with the daily or seasonal integrals of biomass production. The canopy photosynthesis and transpiration measurement system (CAPTS) was developed to enable measurement of canopy photosynthetic CO2 uptake, transpiration, and respiration rates. CAPTS continuously records the CO2 concentration, water vapor concentration, air temperature, air pressure, air relative humidity, and photosynthetic photon flux density (PPFD) inside the chamber, which can be used to derive CO2 and H2O fluxes of a canopy covered by the chamber. This system can also be used to measure the fluxes of greenhouse gases when integrating with CH4 and N2O analyzers. Here, we describe the protocol for using CAPTS to perform experiments on rice (Oryza sativa L.) in paddy field, wheat (Triticum aestivum L.) in upland field, and tobacco (Nicotiana tabacum L.) in pots.
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Affiliation(s)
- Qingfeng Song
- Key Laboratory of Plant Carbon Capture, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- Key Laboratory of Plant Carbon Capture, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China.
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7
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Dong W, Chang T, Dai H, Yang W, Su Y, Chao D, Zhu XG, Wang P, Yu N, Wang E. Creating a C 4-like vein pattern in rice by manipulating SHORT ROOT and auxin levels. Sci Bull (Beijing) 2023; 68:3133-3136. [PMID: 37977916 DOI: 10.1016/j.scib.2023.10.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Revised: 07/18/2023] [Accepted: 10/07/2023] [Indexed: 11/19/2023]
Affiliation(s)
- Wentao Dong
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China; Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai 200234, China
| | - Tiangen Chang
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China
| | - Huiling Dai
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China
| | - Weibing Yang
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China
| | - Yu Su
- National Key Laboratory of Plant Molecular Genetics, Shanghai Center for Plant Stress Biology, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Daiyin Chao
- National Key Laboratory of Plant Molecular Genetics, Shanghai Center for Plant Stress Biology, CAS Centre for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Xin-Guang Zhu
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China
| | - Peng Wang
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China
| | - Nan Yu
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai 200234, China.
| | - Ertao Wang
- New Cornerstone Science Laboratory, National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, SIBS, Chinese Academy of Sciences, Shanghai 200032, China; School of Life Science and Technology, Shanghai Tech University, Shanghai 201210, China.
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8
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Li LZ, Chang TG, Kang H, Zhu XG, Wang JW. Simulating evolution trajectory of ruderal weeds by computational modeling. Plant Physiol 2023; 193:923-926. [PMID: 37403189 DOI: 10.1093/plphys/kiad392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Revised: 06/05/2023] [Accepted: 06/17/2023] [Indexed: 07/06/2023]
Abstract
A dominant mutation in a blue light receptor gene enables ruderal weeds to overcome human disturbance through early deposition of seeds into the soil seed bank.
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Affiliation(s)
- Ling-Zi Li
- National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS Center for Excellence in Molecular Plant Sciences (CEMPS), Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Tian-Gen Chang
- National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS Center for Excellence in Molecular Plant Sciences (CEMPS), Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Heng Kang
- Department of Computer Science and Technology, Nanjing University, Nanjing 210093, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS Center for Excellence in Molecular Plant Sciences (CEMPS), Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
| | - Jia-Wei Wang
- National Key Laboratory of Plant Molecular Genetics (NKLPMG), CAS Center for Excellence in Molecular Plant Sciences (CEMPS), Institute of Plant Physiology and Ecology (SIPPE), Chinese Academy of Sciences (CAS), Shanghai 200032, China
- School of Life Science and Technology, ShanghaiTech University, Shanghai 201210, China
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9
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Wang Y, Smith JAC, Zhu XG, Long SP. Rethinking the potential productivity of crassulacean acid metabolism by integrating metabolic dynamics with shoot architecture, using the example of Agave tequilana. New Phytologist 2023; 239:2180-2196. [PMID: 37537720 DOI: 10.1111/nph.19128] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Accepted: 06/04/2023] [Indexed: 08/05/2023]
Abstract
Terrestrial CAM plants typically occur in hot semiarid regions, yet can show high crop productivity under favorable conditions. To achieve a more mechanistic understanding of CAM plant productivity, a biochemical model of diel metabolism was developed and integrated with 3-D shoot morphology to predict the energetics of light interception and photosynthetic carbon assimilation. Using Agave tequilana as an example, this biochemical model faithfully simulated the four diel phases of CO2 and metabolite dynamics during the CAM rhythm. After capturing the 3-D form over an 8-yr production cycle, a ray-tracing method allowed the prediction of the light microclimate across all photosynthetic surfaces. Integration with the biochemical model thereby enabled the simulation of plant and stand carbon uptake over daily and annual courses. The theoretical maximum energy conversion efficiency of Agave spp. is calculated at 0.045-0.049, up to 7% higher than for C3 photosynthesis. Actual light interception, and biochemical and anatomical limitations, reduced this to 0.0069, or 15.6 Mg ha-1 yr-1 dry mass annualized over an 8-yr cropping cycle, consistent with observation. This is comparable to the productivity of many C3 crops, demonstrating the potential of CAM plants in climates where little else may be grown while indicating strategies that could raise their productivity.
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Affiliation(s)
- Yu Wang
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Dr., Urbana, IL, 61801, USA
| | - J Andrew C Smith
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Xin-Guang Zhu
- Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular, Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Dr., Urbana, IL, 61801, USA
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, 505 South Goodwin Avenue, Urbana, IL, 61801, USA
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10
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Song Q, Liu F, Bu H, Zhu XG. Quantifying Contributions of Different Factors to Canopy Photosynthesis in 2 Maize Varieties: Development of a Novel 3D Canopy Modeling Pipeline. Plant Phenomics 2023; 5:0075. [PMID: 37502446 PMCID: PMC10371248 DOI: 10.34133/plantphenomics.0075] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/15/2023] [Accepted: 07/01/2023] [Indexed: 07/29/2023]
Abstract
Crop yield potential is intrinsically related to canopy photosynthesis; therefore, improving canopy photosynthetic efficiency is a major focus of current efforts to enhance crop yield. Canopy photosynthesis rate (Ac) is influenced by several factors, including plant architecture, leaf chlorophyll content, and leaf photosynthetic properties, which interact with each other. Identifying factors that restrict canopy photosynthesis and target adjustments to improve canopy photosynthesis in a specific crop cultivar pose an important challenge for the breeding community. To address this challenge, we developed a novel pipeline that utilizes factorial analysis, canopy photosynthesis modeling, and phenomics data collected using a 64-camera multi-view stereo system, enabling the dissection of the contributions of different factors to differences in canopy photosynthesis between maize cultivars. We applied this method to 2 maize varieties, W64A and A619, and found that leaf photosynthetic efficiency is the primary determinant (17.5% to 29.2%) of the difference in Ac between 2 maize varieties at all stages, and plant architecture at early stages also contribute to the difference in Ac (5.3% to 6.7%). Additionally, the contributions of each leaf photosynthetic parameter and plant architectural trait were dissected. We also found that the leaf photosynthetic parameters were linearly correlated with Ac and plant architecture traits were non-linearly related to Ac. This study developed a novel pipeline that provides a method for dissecting the relationship among individual phenotypes controlling the complex trait of canopy photosynthesis.
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Affiliation(s)
- Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
| | - Fusang Liu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
| | - Hongyi Bu
- Shanghai Institute of Technical Physics, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
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11
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Hoang NV, Sogbohossou EOD, Xiong W, Simpson CJC, Singh P, Walden N, van den Bergh E, Becker FFM, Li Z, Zhu XG, Brautigam A, Weber APM, van Haarst JC, Schijlen EGWM, Hendre PS, Van Deynze A, Achigan-Dako EG, Hibberd JM, Schranz ME. The Gynandropsis gynandra genome provides insights into whole-genome duplications and the evolution of C4 photosynthesis in Cleomaceae. Plant Cell 2023; 35:1334-1359. [PMID: 36691724 PMCID: PMC10118270 DOI: 10.1093/plcell/koad018] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Accepted: 01/18/2023] [Indexed: 06/17/2023]
Abstract
Gynandropsis gynandra (Cleomaceae) is a cosmopolitan leafy vegetable and medicinal plant, which has also been used as a model to study C4 photosynthesis due to its evolutionary proximity to C3 Arabidopsis (Arabidopsis thaliana). Here, we present the genome sequence of G. gynandra, anchored onto 17 main pseudomolecules with a total length of 740 Mb, an N50 of 42 Mb and 30,933 well-supported gene models. The G. gynandra genome and previously released genomes of C3 relatives in the Cleomaceae and Brassicaceae make an excellent model for studying the role of genome evolution in the transition from C3 to C4 photosynthesis. Our analyses revealed that G. gynandra and its C3 relative Tarenaya hassleriana shared a whole-genome duplication event (Gg-α), then an addition of a third genome (Th-α, +1×) took place in T. hassleriana but not in G. gynandra. Analysis of syntenic copy number of C4 photosynthesis-related gene families indicates that G. gynandra generally retained more duplicated copies of these genes than C3T. hassleriana, and also that the G. gynandra C4 genes might have been under positive selection pressure. Both whole-genome and single-gene duplication were found to contribute to the expansion of the aforementioned gene families in G. gynandra. Collectively, this study enhances our understanding of the polyploidy history, gene duplication and retention, as well as their impact on the evolution of C4 photosynthesis in Cleomaceae.
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Affiliation(s)
| | | | - Wei Xiong
- Biosystematics Group, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
| | - Conor J C Simpson
- Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK
| | - Pallavi Singh
- Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK
| | - Nora Walden
- Biosystematics Group, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
- Centre for Organismal Studies, Heidelberg University, 69120 Heidelberg, Germany
| | - Erik van den Bergh
- Biosystematics Group, Wageningen University, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
| | - Frank F M Becker
- Laboratory of Genetics, Wageningen University and Research, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
| | - Zheng Li
- Department of Integrative Biology, The University of Texas at Austin, Austin, TX 78712, USA
| | - Xin-Guang Zhu
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Andrea Brautigam
- Faculty of Biology, Bielefeld University, 33501 Bielefeld, Germany
| | - Andreas P M Weber
- Cluster of Excellence on Plant Science (CEPLAS), Institute of Plant Biochemistry, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
| | - Jan C van Haarst
- Business Unit Bioscience, Wageningen University and Research, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
| | - Elio G W M Schijlen
- Business Unit Bioscience, Wageningen University and Research, Droevendaalsesteeg 1, 6708PB Wageningen, The Netherlands
| | - Prasad S Hendre
- African Orphan Crops Consortium (AOCC), World Agroforestry (ICRAF), Nairobi 00100, Kenya
| | - Allen Van Deynze
- African Orphan Crops Consortium (AOCC), World Agroforestry (ICRAF), Nairobi 00100, Kenya
- Seed Biotechnology Center, University of California, Davis, California 95616, USA
| | - Enoch G Achigan-Dako
- Laboratory of Genetics, Biotechnology and Seed Science (GbioS), Faculty of Agronomic Sciences, University of Abomey-Calavi, BP 2549 Abomey-Calavi, Republic of Benin
| | - Julian M Hibberd
- Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK
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12
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Sloan JM, Mujab AAM, Mashitah J, Zulkarami B, Wilson MJ, Toh LS, Nur Zahirah AJ, Afiq K, Asyraf AT, Zhu XG, Yaapar N, Fleming AJ. Elevated CO 2 Priming as a Sustainable Approach to Increasing Rice Tiller Number and Yield Potential. Rice (N Y) 2023; 16:16. [PMID: 36947269 PMCID: PMC10033790 DOI: 10.1186/s12284-023-00629-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 03/05/2023] [Indexed: 06/18/2023]
Abstract
Tillering and yield are linked in rice, with significant efforts being invested to understand the genetic basis of this phenomenon. However, in addition to genetic factors, tillering is also influenced by the environment. Exploiting experiments in which seedlings were first grown in elevated CO2 (eCO2) before transfer and further growth under ambient CO2 (aCO2) levels, we found that even moderate exposure times to eCO2 were sufficient to induce tillering in seedlings, which was maintained in plants grown to maturity plants in controlled environment chambers. We then explored whether brief exposure to eCO2 (eCO2 priming) could be implemented to regulate tiller number and yield in the field. We designed a cost-effective growth system, using yeast to increase the CO2 level for the first 24 days of growth, and grew these seedlings to maturity in semi-field conditions in Malaysia. The increased growth caused by eCO2 priming translated into larger mature plants with increased tillering, panicle number, and improved grain filling and 1000 grain weight. In order to make the process more appealing to conventional rice farmers, we then developed a system in which fungal mycelium was used to generate the eCO2 via respiration of sugars derived by growing the fungus on lignocellulosic waste. Not only does this provide a sustainable source of CO2, it also has the added financial benefit to farmers of generating economically valuable oyster mushrooms as an end-product of mycelium growth. Our experiments show that the system is capable of generating sufficient CO2 to induce increased tillering in rice seedlings, leading eventually to 18% more tillers and panicles in mature paddy-grown crop. We discuss the potential of eCO2 priming as a rapidly implementable, broadly applicable and sustainable system to increase tillering, and thus yield potential in rice.
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Affiliation(s)
- Jennifer M Sloan
- School of Biosciences, Plants, Photosynthesis and Soil, The University of Sheffield, Western Bank, Sheffield, S10 2TN, UK
| | - Azzami Adam Muhamad Mujab
- Commercialization and Business Centre, Malaysian Agricultural Research and Development Institute, MARDI Parit, 32800, Parit, Perak, Malaysia
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Jusoh Mashitah
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Berahim Zulkarami
- Institute of Tropical Agriculture and Food Security, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Matthew J Wilson
- School of Biosciences, Plants, Photosynthesis and Soil, The University of Sheffield, Western Bank, Sheffield, S10 2TN, UK
| | - Liang Su Toh
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - A Jalil Nur Zahirah
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Kamaruzali Afiq
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Ahmad Tajuddin Asyraf
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Xin-Guang Zhu
- Center of Excellence for Molecular Plant Science, Institute of Plant Physiology and Ecology, CAS, Shanghai, 200032, China
| | - Nazmin Yaapar
- Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia.
| | - Andrew J Fleming
- School of Biosciences, Plants, Photosynthesis and Soil, The University of Sheffield, Western Bank, Sheffield, S10 2TN, UK.
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13
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Gao JG, Zhu XG. The legacies of the "Father of Hybrid Rice" and the seven representative achievements of Chinese rice research: A pioneering perspective towards sustainable development. Front Plant Sci 2023; 14:1087768. [PMID: 37025150 PMCID: PMC10070957 DOI: 10.3389/fpls.2023.1087768] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Accepted: 03/13/2023] [Indexed: 06/19/2023]
Abstract
The "Father of Hybrid Rice", Yuan Longping, created high-yield hybrid rice that can feed tens of millions of people annually. The research achievements of Yuan and his team on low cadmium-accumulating rice and sea rice, in addition to hybrid rice, as well as those of a large number of Chinese scientists engaged in rice research in other six areas, including the rice genome, purple endosperm rice, de novo domestication of tetraploid rice, perennial rice, rice blast disease, and key genes for high nitrogen use efficiency, play an important role in promoting the realization of the United Nations Sustainable Development Goals 2 and 12. The purpose of this review is not to elaborate on the details of each research, but to innovatively summarize the significance and inspiration of these achievements to ensure global food security and achieve sustainable agriculture. In the future, cultivating new rice varieties through modern biotechnology, such as genome editing, will not only reduce hunger, but potentially reduce human-land conflicts, improve the environment, and mitigate climate change.
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Affiliation(s)
- Jian-Guo Gao
- Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, College of Life Science and Technology, Xinjiang University, Urumqi, China
- Department of Ecology, Peking University, Beijing, China
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
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14
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Amy Lyu MJ, Tang Q, Wang Y, Essemine J, Chen F, Ni X, Chen G, Zhu XG. Evolution of gene regulatory network of C 4 photosynthesis in the genus Flaveria reveals the evolutionary status of C 3-C 4 intermediate species. Plant Commun 2023; 4:100426. [PMID: 35986514 PMCID: PMC9860191 DOI: 10.1016/j.xplc.2022.100426] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 06/16/2022] [Accepted: 08/11/2022] [Indexed: 06/15/2023]
Abstract
C4 photosynthesis evolved from ancestral C3 photosynthesis by recruiting pre-existing genes to fulfill new functions. The enzymes and transporters required for the C4 metabolic pathway have been intensively studied and well documented; however, the transcription factors (TFs) that regulate these C4 metabolic genes are not yet well understood. In particular, how the TF regulatory network of C4 metabolic genes was rewired during the evolutionary process is unclear. Here, we constructed gene regulatory networks (GRNs) for four closely evolutionarily related species from the genus Flaveria, which represent four different evolutionary stages of C4 photosynthesis: C3 (F. robusta), type I C3-C4 (F. sonorensis), type II C3-C4 (F. ramosissima), and C4 (F. trinervia). Our results show that more than half of the co-regulatory relationships between TFs and core C4 metabolic genes are species specific. The counterparts of the C4 genes in C3 species were already co-regulated with photosynthesis-related genes, whereas the required TFs for C4 photosynthesis were recruited later. The TFs involved in C4 photosynthesis were widely recruited in the type I C3-C4 species; nevertheless, type II C3-C4 species showed a divergent GRN from C4 species. In line with these findings, a 13CO2 pulse-labeling experiment showed that the CO2 initially fixed into C4 acid was not directly released to the Calvin-Benson-Bassham cycle in the type II C3-C4 species. Therefore, our study uncovered dynamic changes in C4 genes and TF co-regulation during the evolutionary process; furthermore, we showed that the metabolic pathway of the type II C3-C4 species F. ramosissima represents an alternative evolutionary solution to the ammonia imbalance in C3-C4 intermediate species.
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Affiliation(s)
- Ming-Ju Amy Lyu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Qiming Tang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China; University of Chinese Academy of Sciences
| | - Yanjie Wang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China; University of Chinese Academy of Sciences
| | - Jemaa Essemine
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Faming Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xiaoxiang Ni
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China; University of Chinese Academy of Sciences
| | - Genyun Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China.
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15
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Adachi S, Stata M, Martin DG, Cheng S, Liu H, Zhu XG, Sage RF. The Evolution of C4 Photosynthesis in Flaveria (Asteraceae): Insights from the Flaveria linearis Complex. Plant Physiol 2023; 191:233-251. [PMID: 36200882 PMCID: PMC9806627 DOI: 10.1093/plphys/kiac467] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Accepted: 09/01/2022] [Indexed: 06/16/2023]
Abstract
Flaveria is a leading model for C4 plant evolution due to the presence of a dozen C3-C4 intermediate species, many of which are associated with a phylogenetic complex centered around Flaveria linearis. To investigate C4 evolution in Flaveria, we updated the Flaveria phylogeny and evaluated gas exchange, starch δ13C, and activity of C4 cycle enzymes in 19 Flaveria species and 28 populations within the F. linearis complex. A principal component analysis identified six functional clusters: (1) C3, (2) sub-C2, (3) full C2, (4) enriched C2, (5) sub-C4, and (6) fully C4 species. The sub-C2 species lacked a functional C4 cycle, while a gradient was present in the C2 clusters from little to modest C4 cycle activity as indicated by δ13C and enzyme activities. Three Yucatan populations of F. linearis had photosynthetic CO2 compensation points equivalent to C4 plants but showed little evidence for an enhanced C4 cycle, indicating they have an optimized C2 pathway that recaptures all photorespired CO2 in the bundle sheath (BS) tissue. All C2 species had enhanced aspartate aminotransferase activity relative to C3 species and most had enhanced alanine aminotransferase activity. These aminotransferases form aspartate and alanine from glutamate and in doing so could help return photorespiratory nitrogen (N) from BS to mesophyll cells, preventing glutamate feedback onto photorespiratory N assimilation. Their use requires upregulation of parts of the C4 metabolic cycle to generate carbon skeletons to sustain N return to the mesophyll, and thus could facilitate the evolution of the full C4 photosynthetic pathway.
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Affiliation(s)
- Shunsuke Adachi
- Graduate School of Agriculture, Tokyo University of Agriculture and Technology, Fuchu, Tokyo 183-8509, Japan
| | - Matt Stata
- Department of Ecology and Evolution, The University of Toronto, Toronto, Ontario M5S3B2, Canada
| | - Duncan G Martin
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Shifeng Cheng
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Hongbing Liu
- Shenzhen Branch, Guangdong Laboratory for Lingnan Modern Agriculture, Genome Analysis Laboratory of the Ministry of Agriculture, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
| | - Xin-Guang Zhu
- Center of Excellence for Molecular Plant Sciences, Institute for Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032 China
| | - Rowan F Sage
- Department of Ecology and Evolution, The University of Toronto, Toronto, Ontario M5S3B2, Canada
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16
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Zhu XG, Wang J, Han B. Plants for carbon farming and China’s roadmap for carbon neutralization. Chin Sci Bull 2022. [DOI: 10.1360/tb-2022-0612] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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17
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Wang Y, Wang Y, Tang Y, Zhu XG. Stomata conductance as a goalkeeper for increased photosynthetic efficiency. Curr Opin Plant Biol 2022; 70:102310. [PMID: 36376162 DOI: 10.1016/j.pbi.2022.102310] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 10/03/2022] [Accepted: 10/11/2022] [Indexed: 06/16/2023]
Abstract
100-120 words. References should not be included. Abbreviations should be avoided as far as possible. Low stomatal conductance (gs) poses a major constraint for improving photosynthetic efficiency for greater yield. Options at the molecular, leaf, canopy, and even the whole plant scales can be developed to enhance gs for greater light and water use efficiencies. Among these, many genes regulating stomatal development and stomatal movement have been discovered and manipulated to increase light and water use efficiencies under well-watered, drought, or facility agriculture conditions with the manual-controlled growth environmental. Optimization of canopy conductance to increase whole plant photosynthesis with full consideration of the heterogeneities in gs, microclimates and leaf ontology inside the canopy represents a largely uncharted area to improve crop efficiency.
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Affiliation(s)
- Yin Wang
- College of Urban and Environmental Sciences, Peking University, China
| | - Yizhou Wang
- College of Agriculture and Biotechnology, Zhejiang University, China
| | - Yanhong Tang
- College of Urban and Environmental Sciences, Peking University, China
| | - Xin-Guang Zhu
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, China.
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18
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Zhu XG, Hasanuzzaman M, Jajoo A, Lawson T, Lin R, Liu CM, Liu LN, Liu Z, Lu C, Moustakas M, Roach T, Song Q, Yin X, Zhang W. Improving photosynthesis through multidisciplinary efforts: The next frontier of photosynthesis research. Front Plant Sci 2022; 13:967203. [PMID: 36247611 PMCID: PMC9563237 DOI: 10.3389/fpls.2022.967203] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2022] [Accepted: 08/18/2022] [Indexed: 06/07/2023]
Affiliation(s)
- Xin-Guang Zhu
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Mirza Hasanuzzaman
- Department of Agronomy, Faculty of Agriculture, Sher-e-Bangla Agricultural University, Dhaka, Bangladesh
| | - Anjana Jajoo
- School of Biotechnology, Devi Ahilya University, Indore, India
| | - Tracy Lawson
- School of Life Science, University of Essex, Colchester, United Kingdom
| | - Rongcheng Lin
- Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Chun-Ming Liu
- School of Advanced Agricultural Sciences, Peking University, Beijing, China
| | - Lu-Ning Liu
- Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool, United Kingdom
| | - Zhenfeng Liu
- National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China
| | - Congming Lu
- School of Life Sciences, Shandong Agricultural University, Taian, China
| | - Michael Moustakas
- Department of Botany, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Thomas Roach
- Department of Botany, University of Innsbruck, Innsbruck, Austria
| | - Qingfeng Song
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Xinyou Yin
- Department of Plant Sciences, Centre for Crop Systems Analysis, Wageningen University & Research, Wageningen, Netherlands
| | - Wangfeng Zhang
- Department of Agronomy, Shihezi University, Shihezi, China
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19
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Bender ML, Zhu XG, Falkowski P, Ma F, Griffin K. On the rate of phytoplankton respiration in the light. Plant Physiol 2022; 190:267-279. [PMID: 35652738 PMCID: PMC9434318 DOI: 10.1093/plphys/kiac254] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Accepted: 05/09/2022] [Indexed: 06/15/2023]
Abstract
The rate of algal and cyanobacterial respiration in the light is an important ecophysiological term that remains to be completely characterized and quantified. To address this issue, we exploited process-specific decarboxylation rates from flux balance analysis and isotopically nonstationary metabolic flux analysis. Our study, based on published data, suggested that decarboxylation is about 22% of net CO2 assimilation when the tricarboxylic acid cycle is completely open (characterized by the commitment of alpha ketoglutarate to amino acid synthesis and very low rates of succinate formation). This estimate was supported by calculating the decarboxylation rates required to synthesize the major components of biomass (proteins, lipids, and carbohydrates) at their typical abundance. Of the 22 CO2 molecules produced by decarboxylation (normalized to net assimilation = 100), approximately 13 were from pyruvate and 3 were from isocitrate. The remaining six units of decarboxylation were in the amino acid synthesis pathways outside the tricarboxylic acid cycle. A small additional flux came from photorespiration, decarboxylations of six phosphogluconate in the oxidative pentose phosphate pathway, and decarboxylations in the syntheses of lower-abundance compounds, including pigments and ribonucleic acids. This general approach accounted for the high decarboxylation rates in algae and cyanobacteria compared to terrestrial plants. It prompts a simple speculation for the origin of the Kok effect and helps constrain the photoautotrophic respiration rate, in the light, in the euphotic zone of the ocean and lakes.
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Affiliation(s)
| | - Xin-Guang Zhu
- State Key Laboratory of Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Paul Falkowski
- Environmental Biophysics and Molecular Ecology Program, Department of Marine and Coastal Sciences, Rutgers, The State University of New Jersey, New Brunswick, New Jersey 08901, USA
| | - Fangfang Ma
- State Key Laboratory of Crop Biology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong 271018, China
| | - Kevin Griffin
- Department of Earth and Environmental Sciences, Columbia University, Palisades, New York 10964, USA
- Department of Ecology, Evolution and Environmental Biology, Columbia University, New York, New York 10027, USA
- Lamont-Doherty Earth Observatory, Columbia University, Palisades, New York 10964, USA
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20
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Zhao YY, Lyu MA, Miao F, Chen G, Zhu XG. The evolution of stomatal traits along the trajectory toward C4 photosynthesis. Plant Physiol 2022; 190:441-458. [PMID: 35652758 PMCID: PMC9434244 DOI: 10.1093/plphys/kiac252] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 04/21/2022] [Indexed: 05/03/2023]
Abstract
C4 photosynthesis optimizes plant carbon and water relations, allowing high photosynthetic rates with low stomatal conductance. Stomata have long been considered a part of the C4 syndrome. However, it remains unclear how stomatal traits evolved along the path from C3 to C4. Here, we examined stomata in the Flaveria genus, a model used for C4 evolutionary study. Comparative, transgenic, and semi-in vitro experiments were performed to study the molecular basis that underlies the changes of stomatal traits in C4 evolution. The evolution from C3 to C4 species is accompanied by a gradual rather than an abrupt change in stomatal traits. The initial change appears near the Type I intermediate stage. Co-evolution of the photosynthetic pathway and stomatal traits is supported. On the road to C4, stomata tend to be fewer in number but larger in size and stomatal density dominates changes in anatomical maximum stomatal conductance (gsmax). Reduction of FSTOMAGEN expression underlies decreased gsmax in Flaveria and likely occurs in other C4 lineages. Decreased gsmax contributes to the increase in intrinsic water-use efficiency in C4 evolution. This work highlights the stomatal traits in the current C4 evolutionary model. Our study provides insights into the pattern, mechanism, and role of stomatal evolution along the road toward C4.
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Affiliation(s)
- Yong-Yao Zhao
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Mingju Amy Lyu
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - FenFen Miao
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Genyun Chen
- State Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
- University of Chinese Academy of Sciences, Beijing 100049, China
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21
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Chang TG, Shi Z, Zhao H, Song Q, He Z, Van Rie J, Den Boer B, Galle A, Zhu XG. 3dCAP-Wheat: An Open-Source Comprehensive Computational Framework Precisely Quantifies Wheat Foliar, Nonfoliar, and Canopy Photosynthesis. Plant Phenomics 2022; 2022:9758148. [PMID: 36059602 PMCID: PMC9394111 DOI: 10.34133/2022/9758148] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/05/2022] [Accepted: 06/18/2022] [Indexed: 11/24/2022]
Abstract
Canopy photosynthesis is the sum of photosynthesis of all above-ground photosynthetic tissues. Quantitative roles of nonfoliar tissues in canopy photosynthesis remain elusive due to methodology limitations. Here, we develop the first complete canopy photosynthesis model incorporating all above-ground photosynthetic tissues and validate this model on wheat with state-of-the-art gas exchange measurement facilities. The new model precisely predicts wheat canopy gas exchange rates at different growth stages, weather conditions, and canopy architectural perturbations. Using the model, we systematically study (1) the contribution of both foliar and nonfoliar tissues to wheat canopy photosynthesis and (2) the responses of wheat canopy photosynthesis to plant physiological and architectural changes. We found that (1) at tillering, heading, and milking stages, nonfoliar tissues can contribute ~4, ~32, and ~50% of daily gross canopy photosynthesis (Acgross; ~2, ~15, and ~-13% of daily net canopy photosynthesis, Acnet) and absorb ~6, ~42, and ~60% of total light, respectively; (2) under favorable condition, increasing spike photosynthetic activity, rather than enlarging spike size or awn size, can enhance canopy photosynthesis; (3) covariation in tissue respiratory rate and photosynthetic rate may be a major factor responsible for less than expected increase in daily Acnet; and (4) in general, erect leaves, lower spike position, shorter plant height, and proper plant densities can benefit daily Acnet. Overall, the model, together with the facilities for quantifying plant architecture and tissue gas exchange, provides an integrated platform to study canopy photosynthesis and support rational design of photosynthetically efficient wheat crops.
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Affiliation(s)
- Tian-Gen Chang
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Zai Shi
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Honglong Zhao
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Qingfeng Song
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Zhonghu He
- Insitute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
- International Maize and Wheat Improvement Center (CIMMYT) China Office, Chinese Academy of Agricultural Sciences, Beijing 100081, China
| | - Jeroen Van Rie
- BASF Belgium Coordination Center-Innovation Center Gent, Technologiepark-Zwijnaarde 101, 9052 Gent, Belgium
| | - Bart Den Boer
- BASF Belgium Coordination Center-Innovation Center Gent, Technologiepark-Zwijnaarde 101, 9052 Gent, Belgium
| | - Alexander Galle
- BASF Belgium Coordination Center-Innovation Center Gent, Technologiepark-Zwijnaarde 101, 9052 Gent, Belgium
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
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22
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Zhao H, Wang Y, Lyu MJA, Zhu XG. Two major metabolic factors for an efficient NADP-malic enzyme type C4 photosynthesis. Plant Physiol 2022; 189:84-98. [PMID: 35166833 PMCID: PMC9070817 DOI: 10.1093/plphys/kiac051] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2021] [Accepted: 01/15/2022] [Indexed: 06/02/2023]
Abstract
Compared to the large number of studies focused on the factors controlling C3 photosynthesis efficiency, there are relatively fewer studies of the factors controlling photosynthetic efficiency in C4 leaves. Here, we used a dynamic systems model of C4 photosynthesis based on maize (Zea mays) to identify features associated with high photosynthetic efficiency in NADP-malic enzyme (NADP-ME) type C4 photosynthesis. We found that two additional factors related to coordination between C4 shuttle metabolism and C3 metabolism are required for efficient C4 photosynthesis: (1) accumulating a high concentration of phosphoenolpyruvate through maintaining a large PGA concentration in the mesophyll cell chloroplast and (2) maintaining a suitable oxidized status in bundle sheath cell chloroplasts. These identified mechanisms are in line with the current cellular location of enzymes/proteins involved in the starch synthesis, the Calvin-Benson cycle and photosystem II of NADP-ME type C4 photosynthesis. These findings suggested potential strategies for improving C4 photosynthesis and engineering C4 rice.
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Affiliation(s)
- Honglong Zhao
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Yu Wang
- The Carl R. Woese Institute for Genomic Biology, University of Illinois Urbana-Champaign, Champaign, Illinois 61801, USA
| | - Ming-Ju Amy Lyu
- Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
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23
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Zhu XG, Shi QL, Deng XL, Xu W, Xue M. [Clinical effect and influencing factors of focused ultrasound ablation surgery combined with suction curettage for the treatment of mass-type cesarean scar pregnancy]. Zhonghua Fu Chan Ke Za Zhi 2022; 57:253-258. [PMID: 35484656 DOI: 10.3760/cma.j.cn112141-20210902-00483] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Objective: To investigate the clinical effect of focused ultrasound ablation surgery (FUAS) combined with suction curettage for mass-type cesarean scar pregnancy (CSP) and to analyze the influencing factors of vaginal bleeding and readmission. Methods: From January 2014 to December 2020, 88 patients with mass-type CSP were treated by FUAS combined with suction curettage in the Third Xiangya Hospital of Central South University. The clinical results and the influencing factors of bleeding and readmission for mass-type CSP were analyzed. Results: All the patients underwent one time FUAS treatment successfully. Immediately after FUAS treatment, color Doppler ultrasound showed obvious necrosis and no perfusion area in all lesions, and the blood flow in the mass-type CSP tissue significantly decreased. The median volume of blood loss in the procedure was 20 ml (range: 5-950 ml). Thirteen patients (15%, 13/88) had vaginal bleeding≥200 ml, and 15 patients (17%, 15/88) were hospitalized again. The average time for menstruation recovery was (28±8) days (range: 18-66 days). The average time needed for serum human chorionic gonadotropin-beta subunit to return to normal levels was (22±6) days (range: 7-59 days). The risk of large vaginal bleeding of patients were related to the blood supply of the mass (OR=5.280, 95%CI: 1.335-20.858, P=0.018) and the largest diameter of the mass (OR=1.060, 95%CI: 1.010-1.120, P=0.030). The risk of readmission were related to the largest diameter of the mass (OR=1.055, 95%CI: 1.005-1.108, P=0.030) and the depth of the uterus cavity (OR=1.583, 95%CI: 1.015-2.471, P=0.043). No serious complications such as intestinal and nerve injury occurred during and after FUAS treatment. Conclusions: FUAS combined with suction curettage is safe and effective in treating patients with mass-type CSP through this preliminary study. The volume of vaginal bleeding are associated with the blood supply of the mass and the largest diameter of the mass, the risk of readmission are related to the largest diameter of the mass and the depth of the uterus cavity.
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Affiliation(s)
- X G Zhu
- Department of Obstetrics and Gynecology, the Third Xiangya Hospital of Central South University, Changsha 410013, China
| | - Q L Shi
- State Key Laboratory of Ultrasound in Medicine and Engineering, College of Biomedical Engineering, Chongqing Medical University, Chongqing 400016, China
| | - X L Deng
- Department of Obstetrics and Gynecology, the Third Xiangya Hospital of Central South University, Changsha 410013, China
| | - W Xu
- State Key Laboratory of Ultrasound in Medicine and Engineering, College of Biomedical Engineering, Chongqing Medical University, Chongqing 400016, China
| | - M Xue
- Department of Obstetrics and Gynecology, the Third Xiangya Hospital of Central South University, Changsha 410013, China
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24
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Song Q, Van Rie J, Den Boer B, Galle A, Zhao H, Chang T, He Z, Zhu XG. Diurnal and Seasonal Variations of Photosynthetic Energy Conversion Efficiency of Field Grown Wheat. Front Plant Sci 2022; 13:817654. [PMID: 35283909 PMCID: PMC8914475 DOI: 10.3389/fpls.2022.817654] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Accepted: 01/17/2022] [Indexed: 05/22/2023]
Abstract
Improving canopy photosynthetic light use efficiency and energy conversion efficiency (ε c ) is a major option to increase crop yield potential. However, so far, the diurnal and seasonal variations of canopy light use efficiency (LUE) and ε c are largely unknown due to the lack of an efficient method to estimate ε c in a high temporal resolution. Here we quantified the dynamic changes of crop canopy LUE and ε c during a day and a growing season with the canopy gas exchange method. A response curve of whole-plant carbon dioxide (CO2) flux to incident photosynthetically active radiation (PAR) was further used to calculate ε c and LUE at a high temporal resolution. Results show that the LUE of two wheat cultivars with different canopy architectures at five stages varies between 0.01 to about 0.05 mol CO2 mol-1 photon, with the LUE being higher under medium PAR. Throughout the growing season, the ε c varies from 0.5 to 3.7% (11-80% of the maximal ε c for C3 plants) with incident PAR identified as a major factor controlling variation of ε c . The estimated average ε c from tillering to grain filling stages was about 2.17%, i.e., 47.2% of the theoretical maximal. The estimated season-averaged radiation use efficiency (RUE) was 1.5-1.7 g MJ-1, which was similar to the estimated RUE based on biomass harvesting. The large variations of LUE and ε c imply a great opportunity to improve canopy photosynthesis for greater wheat biomass and yield potential.
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Affiliation(s)
- Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Jeroen Van Rie
- BASF Belgium Coordination Center – Innovation Center Gent, Ghent, Belgium
| | - Bart Den Boer
- BASF Belgium Coordination Center – Innovation Center Gent, Ghent, Belgium
| | - Alexander Galle
- BASF Belgium Coordination Center – Innovation Center Gent, Ghent, Belgium
| | - Honglong Zhao
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Tiangen Chang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Zhonghu He
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- *Correspondence: Xin-Guang Zhu,
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25
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Khan N, Essemine J, Hamdani S, Qu M, Lyu MJA, Perveen S, Stirbet A, Govindjee G, Zhu XG. Natural variation in the fast phase of chlorophyll a fluorescence induction curve (OJIP) in a global rice minicore panel. Photosynth Res 2021; 150:137-158. [PMID: 33159615 DOI: 10.1007/s11120-020-00794-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/11/2020] [Accepted: 10/26/2020] [Indexed: 06/11/2023]
Abstract
Photosynthesis can be probed through Chlorophyll a fluorescence induction (FI), which provides detailed insight into the electron transfer process in Photosystem II, and beyond. Here, we have systematically studied the natural variation of the fast phase of the FI, i.e. the OJIP phase, in rice. The OJIP phase of the Chl a fluorescence induction curve is referred to as "fast transient" lasting for less than a second; it is obtained after a dark-adapted sample is exposed to saturating light. In the OJIP curve, "O" stands for "origin" (minimal fluorescence), "P" for "peak" (maximum fluorescence), and J and I for inflection points between the O and P levels. Further, Fo is the fluorescence intensity at the "O" level, whereas Fm is the intensity at the P level, and Fv (= Fm - Fo) is the variable fluorescence. We surveyed a set of quantitative parameters derived from the FI curves of 199 rice accessions, grown under both field condition (FC) and growth room condition (GC). Our results show a significant variation between Japonica (JAP) and Indica (IND) subgroups, under both the growth conditions, in almost all the parameters derived from the OJIP curves. The ratio of the variable to the maximum (Fv/Fm) and of the variable to the minimum (Fv/Fo) fluorescence, the performance index (PIabs), as well as the amplitude of the I-P phase (AI-P) show higher values in JAP compared to that in the IND subpopulation. In contrast, the amplitude of the O-J phase (AO-J) and the normalized area above the OJIP curve (Sm) show an opposite trend. The performed genetic analysis shows that plants grown under GC appear much more affected by environmental factors than those grown in the field. We further conducted a genome-wide association study (GWAS) using 11 parameters derived from plants grown in the field. In total, 596 non-unique significant loci based on these parameters were identified by GWAS. Several photosynthesis-related proteins were identified to be associated with different OJIP parameters. We found that traits with high correlation are usually associated with similar genomic regions. Specifically, the thermal phase of FI, which includes the amplitudes of the J-I and I-P subphases (AJ-I and AI-P) of the OJIP curve, is, in turn, associated with certain common genomic regions. Our study is the first one dealing with the natural variations in rice, with the aim to characterize potential candidate genes controlling the magnitude and half-time of each of the phases in the OJIP FI curve.
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Affiliation(s)
- Naveed Khan
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Institute of Nutrition and Health, University of Chinese Academy of Science, Chinese Academy of Sciences, Shanghai, 200031, China
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Jemaa Essemine
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Saber Hamdani
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Mingnan Qu
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Ming-Ju Amy Lyu
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Shahnaz Perveen
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | | | - Govindjee Govindjee
- Department of Plant Biology, Department of Biochemistry, and Center of Biophysics & Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Xin-Guang Zhu
- State Key Laboratory for Plant Molecular Genetics and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031, China.
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26
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Lei ZY, Wang H, Wright IJ, Zhu XG, Niinemets Ü, Li ZL, Sun DS, Dong N, Zhang WF, Zhou ZL, Liu F, Zhang YL. Enhanced photosynthetic nitrogen use efficiency and increased nitrogen allocation to photosynthetic machinery under cotton domestication. Photosynth Res 2021; 150:239-250. [PMID: 34669149 DOI: 10.1007/s11120-021-00872-w] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Accepted: 07/30/2021] [Indexed: 06/13/2023]
Abstract
Domestication involves dramatic phenotypic and physiological diversifications due to successive selection by breeders toward high yield and quality. Although photosynthetic nitrogen use efficiency (PNUE) is a major trait for understanding leaf nitrogen economy, it is unclear whether PNUE of cotton has been improved under domestication. Here, we investigated the effect of domestication on nitrogen allocation to photosynthetic machinery and PNUE in 25 wild and 37 domesticated cotton genotypes. The results showed that domesticated genotypes had higher nitrogen content per mass (Nm), net photosynthesis under saturated light (Asat), and PNUE but similar nitrogen content per area (Na) compared with wild genotypes. As expected, in both genotypes, PNUE was positively related to Asat but negatively correlated with Na. However, the relative contribution of Asat to PNUE was greater than the contribution from Na. Domesticated genotypes had higher nitrogen allocation to light-harvesting (NL, nitrogen in light-harvesting chlorophyll-protein complex), to bioenergetics (Nb, total nitrogen of cytochrome f, ferredoxin NADP reductase, and the coupling factor), and to Rubisco (Nr) than wild genotypes; however, the two genotype groups did not differ in PNUEp, the ratio of Asat to Np (itself the sum of NL, Nb, and Nr). Our results suggest that more nitrogen allocation to photosynthetic machinery has boosted Asat under cotton domestication. Improving the efficiency of nitrogen use in photosynthetic machinery might be future aim to enhance Asat of cotton.
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Affiliation(s)
- Zhang-Ying Lei
- Key Laboratory of Oasis Eco-Agriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, 832003, People's Republic of China
- Department of Biological Sciences, Macquarie University, North Ryde, NSW, 2109, Australia
| | - Heng Wang
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, People's Republic of China
| | - Ian J Wright
- Department of Biological Sciences, Macquarie University, North Ryde, NSW, 2109, Australia
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032, People's Republic of China
| | - Ülo Niinemets
- Chair of Crop Science and Plant Biology, Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Kreutzwaldi 1, 51006, Tartu, Estonia
| | - Zi-Liang Li
- Key Laboratory of Oasis Eco-Agriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, 832003, People's Republic of China
| | - Dong-Sheng Sun
- Key Laboratory of Oasis Eco-Agriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, 832003, People's Republic of China
| | - Ning Dong
- Department of Biological Sciences, Macquarie University, North Ryde, NSW, 2109, Australia
- Georgina Mace Centre for the Living Planet, Department of Life Sciences, Imperial College London, Silwood Park Campus, Ascot, SL5 7PY, UK
| | - Wang-Feng Zhang
- Key Laboratory of Oasis Eco-Agriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, 832003, People's Republic of China
| | - Zhong-Li Zhou
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, People's Republic of China
| | - Fang Liu
- State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang, 455000, People's Republic of China.
| | - Ya-Li Zhang
- Key Laboratory of Oasis Eco-Agriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, 832003, People's Republic of China.
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27
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Zhao HL, Chang TG, Xiao Y, Zhu XG. Potential metabolic mechanisms for inhibited chloroplast nitrogen assimilation under high CO2. Plant Physiol 2021; 187:1812-1833. [PMID: 34618071 PMCID: PMC8566258 DOI: 10.1093/plphys/kiab345] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/07/2021] [Accepted: 06/28/2021] [Indexed: 05/31/2023]
Abstract
Improving photosynthesis is considered a major and feasible option to dramatically increase crop yield potential. Increased atmospheric CO2 concentration often stimulates both photosynthesis and crop yield, but decreases protein content in the main C3 cereal crops. This decreased protein content in crops constrains the benefits of elevated CO2 on crop yield and affects their nutritional value for humans. To support studies of photosynthetic nitrogen assimilation and its complex interaction with photosynthetic carbon metabolism for crop improvement, we developed a dynamic systems model of plant primary metabolism, which includes the Calvin-Benson cycle, the photorespiration pathway, starch synthesis, glycolysis-gluconeogenesis, the tricarboxylic acid cycle, and chloroplastic nitrogen assimilation. This model successfully captures responses of net photosynthetic CO2 uptake rate (A), respiration rate, and nitrogen assimilation rate to different irradiance and CO2 levels. We then used this model to predict inhibition of nitrogen assimilation under elevated CO2. The potential mechanisms underlying inhibited nitrogen assimilation under elevated CO2 were further explored with this model. Simulations suggest that enhancing the supply of α-ketoglutarate is a potential strategy to maintain high rates of nitrogen assimilation under elevated CO2. This model can be used as a heuristic tool to support research on interactions between photosynthesis, respiration, and nitrogen assimilation. It also provides a basic framework to support the design and engineering of C3 plant primary metabolism for enhanced photosynthetic efficiency and nitrogen assimilation in the coming high-CO2 world.
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Affiliation(s)
- Hong-Long Zhao
- University of Chinese Academy of Sciences, Beijing 100049, China
- National Key Laboratory for Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200031, China
| | - Tian-Gen Chang
- National Key Laboratory for Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200031, China
| | - Yi Xiao
- National Key Laboratory for Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200031, China
- Department of Crop Sciences, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
- Department of Plant Biology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200031, China
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28
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Liu F, Song Q, Zhao J, Mao L, Bu H, Hu Y, Zhu XG. Canopy occupation volume as an indicator of canopy photosynthetic capacity. New Phytol 2021; 232:941-956. [PMID: 34245568 DOI: 10.1111/nph.17611] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Accepted: 07/03/2021] [Indexed: 06/13/2023]
Abstract
Leaf angle and leaf area index together influence canopy light interception and canopy photosynthesis. However, so far, there is no effective method to identify the optimal combination of these two parameters for canopy photosynthesis. In this study, first a robust high-throughput method for accurate segmentation of maize organs based on 3D point clouds data was developed, then the segmented plant organs were used to generate new 3D point clouds for the canopy of altered architectures. With this, we simulated the synergistic effect of leaf area and leaf angle on canopy photosynthesis. The results show that, compared to the traditional parameters describing the canopy photosynthesis including leaf area index, facet angle and canopy coverage, a new parameter - the canopy occupation volume (COV) - can better explain the variations of canopy photosynthetic capacity. Specifically, COV can explain > 79% variations of canopy photosynthesis generated by changing leaf angle and > 84% variations of canopy photosynthesis generated by changing leaf area. As COV can be calculated in a high-throughput manner based on the canopy point clouds, it can be used to evaluate canopy architecture in breeding and agronomic research.
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Affiliation(s)
- Fusang Liu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Jinke Zhao
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Linxiong Mao
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Hongyi Bu
- Shanghai Institute of Technical Physics, Chinese Academy of Sciences, Shanghai, 200083, China
| | - Yong Hu
- Shanghai Institute of Technical Physics, Chinese Academy of Sciences, Shanghai, 200083, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
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29
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Lyu MJA, Gowik U, Kelly S, Covshoff S, Hibberd JM, Sage RF, Ludwig M, Wong GKS, Westhoff P, Zhu XG. The coordination of major events in C 4 photosynthesis evolution in the genus Flaveria. Sci Rep 2021; 11:15618. [PMID: 34341365 PMCID: PMC8329263 DOI: 10.1038/s41598-021-93381-8] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2021] [Accepted: 05/31/2021] [Indexed: 12/13/2022] Open
Abstract
C4 photosynthesis is a remarkable complex trait, elucidations of the evolutionary trajectory of C4 photosynthesis from its ancestral C3 pathway can help us better understand the generic principles of the evolution of complex traits and guide the engineering of C3 crops for higher yields. Here, we used the genus Flaveria that contains C3, C3-C4, C4-like and C4 species as a system to study the evolution of C4 photosynthesis. We first mapped transcript abundance, protein sequence and morphological features onto the phylogenetic tree of the genus Flaveria, and calculated the evolutionary correlation of different features; we then predicted the relative changes of ancestral nodes of those features to illustrate the major events during the evolution of C4 photosynthesis. We found that gene expression and protein sequence showed consistent modification patterns in the phylogenetic tree. High correlation coefficients ranging from 0.46 to 0.9 among gene expression, protein sequence and morphology were observed. The greatest modification of those different features consistently occurred at the transition between C3-C4 species and C4-like species. Our results show highly coordinated changes in gene expression, protein sequence and morphological features, which support evolutionary major events during the evolution of C4 metabolism.
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Affiliation(s)
- Ming-Ju Amy Lyu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Udo Gowik
- Institute of Plant Molecular and Developmental Biology, Heinrich-Heine-University, Dusseldorf, Germany
| | - Steve Kelly
- Department of Plant Sciences, University of Oxford, Oxford, UK
| | - Sarah Covshoff
- Department of Plant Sciences, University of Cambridge, Cambridge, UK
| | - Julian M Hibberd
- Department of Plant Sciences, University of Cambridge, Cambridge, UK
| | - Rowan F Sage
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Canada
| | - Martha Ludwig
- School of Molecular Sciences, University of Western Australia, Crawley, WA, Australia
| | - Gane Ka-Shu Wong
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen, 518083, China.,Department of Medicine and Department of Biological Sciences, The University of Alberta, Edmonton, AB, T6G 2E1, Canada
| | - Peter Westhoff
- Institute of Plant Molecular and Developmental Biology, Heinrich-Heine-University, Dusseldorf, Germany
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China.
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Jansson C, Faiola C, Wingler A, Zhu XG, Kravchenko A, de Graaff MA, Ogden AJ, Handakumbura PP, Werner C, Beckles DM. Crops for Carbon Farming. Front Plant Sci 2021; 12:636709. [PMID: 34149744 PMCID: PMC8211891 DOI: 10.3389/fpls.2021.636709] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Accepted: 04/26/2021] [Indexed: 05/03/2023]
Abstract
Agricultural cropping systems and pasture comprise one third of the world's arable land and have the potential to draw down a considerable amount of atmospheric CO2 for storage as soil organic carbon (SOC) and improving the soil carbon budget. An improved soil carbon budget serves the dual purpose of promoting soil health, which supports crop productivity, and constituting a pool from which carbon can be converted to recalcitrant forms for long-term storage as a mitigation measure for global warming. In this perspective, we propose the design of crop ideotypes with the dual functionality of being highly productive for the purposes of food, feed, and fuel, while at the same time being able to facilitate higher contribution to soil carbon and improve the below ground ecology. We advocate a holistic approach of the integrated plant-microbe-soil system and suggest that significant improvements in soil carbon storage can be achieved by a three-pronged approach: (1) design plants with an increased root strength to further allocation of carbon belowground; (2) balance the increase in belowground carbon allocation with increased source strength for enhanced photosynthesis and biomass accumulation; and (3) design soil microbial consortia for increased rhizosphere sink strength and plant growth-promoting (PGP) properties.
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Affiliation(s)
- Christer Jansson
- Pacific Northwest National Laboratory, Richland, WA, United States
| | - Celia Faiola
- Department of Ecology and Evolutionary Biology, University of California, Irvine, Irvine, CA, United States
| | - Astrid Wingler
- School of Biological, Earth & Environmental Sciences and Environmental Research Institute, University College Cork, Cork, Ireland
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Alexandra Kravchenko
- Department of Plant, Soil, and Microbial Sciences, Michigan State University, East Lansing, MI, United States
| | - Marie-Anne de Graaff
- Department of Biological Sciences, Boise State University, Boise, ID, United States
| | - Aaron J. Ogden
- Pacific Northwest National Laboratory, Richland, WA, United States
| | | | | | - Diane M. Beckles
- Department of Plant Sciences, University of California, Davis, Davis, CA, United States
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31
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Xiao Y, Sloan J, Hepworth C, Osborne CP, Fleming AJ, Chen X, Zhu XG. Estimating uncertainty: A Bayesian approach to modelling photosynthesis in C3 leaves. Plant Cell Environ 2021; 44:1436-1450. [PMID: 33410527 DOI: 10.1111/pce.13995] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Revised: 12/19/2020] [Accepted: 12/23/2020] [Indexed: 06/12/2023]
Abstract
The Farquhar-von Caemmerer-Berry (FvCB) model is extensively used to model photosynthesis from gas exchange measurements. Since its publication, many methods have been developed to measure, or more accurately estimate, parameters of this model. Here, we have created a tool that uses Bayesian statistics to fit photosynthetic parameters using concurrent gas exchange and chlorophyll fluorescence measurements whilst evaluating the reliability of the parameter estimation. We have tested this tool on synthetic data and experimental data from rice leaves. Our results indicate that reliable parameter estimation can be achieved whilst only keeping one parameter, Km , that is, Michaelis constant for CO2 by Rubisco, prefixed. Additionally, we show that including detailed low CO2 measurements at low light levels increases reliability and suggests this as a new standard measurement protocol. By providing an estimated distribution of parameter values, the tool can be used to evaluate the quality of data from gas exchange and chlorophyll fluorescence measurement protocols. Compared to earlier model fitting methods, the use of a Bayesian statistics-based tool minimizes human interaction during fitting, reducing the subjectivity which is essential to most existing tools. A user friendly, interactive Bayesian tool script is provided.
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Affiliation(s)
- Yi Xiao
- Center of Excellence for Molecular Plant Science, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Jen Sloan
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Chris Hepworth
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Colin P Osborne
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Andrew J Fleming
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Xingyuan Chen
- Pacific Northwest National Laboratory, Richland, Washington, USA
| | - Xin-Guang Zhu
- Center of Excellence for Molecular Plant Science, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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32
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Govindjee G, Shen YK, Zhu XG, Mi H, Ogawa T. Honoring Bacon Ke at 100: a legend among the many luminaries and a highly collaborative scientist in photosynthesis research. Photosynth Res 2021; 147:243-252. [PMID: 33582974 DOI: 10.1007/s11120-021-00820-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2020] [Accepted: 01/12/2021] [Indexed: 06/12/2023]
Abstract
Bacon Ke, who did pioneering research on the primary photochemistry of photosynthesis, was born in China on July 26, 1920, and currently, he is living in a senior home in San Francisco, California, and is a centenarian. To us, this is a very happy and unique occasion to honor him. After providing a brief account of his life, and a glimpse of his research in photosynthesis, we present here "messages" for Bacon Ke@ 100 from: Robert Alfano (USA), Charles Arntzen (USA), Sandor Demeter (Hungary), Richard A. Dilley (USA), John Golbeck (USA), Isamu Ikegami (Japan), Ting-Yun Kuang (China), Richard Malkin (USA), Hualing Mi (China), Teruo Ogawa (Japan), Yasusi Yamamoto (Japan), and Xin-Guang Zhu (China).
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Affiliation(s)
- Govindjee Govindjee
- Department of Plant Biology, Department of Biochemistry and the Center of Biophysics & Quantitative Biology, University of Illinois at Urbana- Champaign, Urbana, IL, 61801, USA.
| | - Yun-Kang Shen
- National Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences, Shanghai, 200032, China
| | - Xin-Guang Zhu
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Hualing Mi
- National Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences, Shanghai, 200032, China
| | - Teruo Ogawa
- , Kamisaginomiya 3-17-11, Nakano-ku, Tokyo, 165-0031, Japan
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Abstract
The de novo domestication has the potential to rapidly capitalize on desirable traits of wild plants. In this issue of Cell, Yu et al. report a route of de novo domestication of an allotetraploid rice, heralding the creation of a novel staple food crop to support global food security.
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Affiliation(s)
- Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China.
| | - Jian-Kang Zhu
- Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
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Chen F, Zheng G, Qu M, Wang Y, Lyu MJA, Zhu XG. Knocking out NEGATIVE REGULATOR OF PHOTOSYNTHESIS 1 increases rice leaf photosynthesis and biomass production in the field. J Exp Bot 2021; 72:1836-1849. [PMID: 33258954 DOI: 10.1093/jxb/eraa566] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 11/30/2020] [Indexed: 06/12/2023]
Abstract
Improving photosynthesis is a major approach to increasing crop yield potential. Here we identify a transcription factor as a negative regulator of photosynthesis, which can be manipulated to increase rice photosynthesis and plant biomass in the field. This transcription factor, named negative regulator of photosynthesis 1 (NRP1; Os07g0471900), was identified through a co-expression analysis using rice leaf RNA sequencing data. NRP1 expression showed significantly negative correlation with the expression of many genes involved in photosynthesis. Knocking out NRP1 led to greater photosynthesis and increased biomass in the field, while overexpression of NRP1 decreased photosynthesis and biomass. Transcriptomic data analysis shows that NRP1 can negatively regulate the expression of photosynthetic genes. Protein transactivation experiments show that NRP1 is a transcription activator, implying that NRP1 may indirectly regulate photosynthetic gene expression through an unknown regulator. This study shows that combination of bioinformatics analysis with transgenic testing can be used to identify new regulators to improve photosynthetic efficiency in crops.
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Affiliation(s)
- Faming Chen
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Guangyong Zheng
- Bio-Med Big Data Center, CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institutes of Nutrition and Health, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Mingnan Qu
- National Key Laboratory for Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Yanjie Wang
- University of Chinese Academy of Sciences, Beijing, China
- National Key Laboratory for Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Ming-Ju Amy Lyu
- National Key Laboratory for Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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Essemine J, Qu M, Lyu MJA, Song Q, Khan N, Chen G, Wang P, Zhu XG. Photosynthetic and transcriptomic responses of two C 4 grass species with different NaCl tolerance. J Plant Physiol 2020; 253:153244. [PMID: 32818766 DOI: 10.1016/j.jplph.2020.153244] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 07/16/2020] [Accepted: 07/16/2020] [Indexed: 05/15/2023]
Abstract
This report reveals the effects of salt on the photosynthetic electron transport and transcriptome of the glycophyte Setaria viridis (S. viridis) and its salt-tolerant close relative halophyte Spartina alterniflora (S. alterniflora). S. viridis was unable to survive exposed to sodium chloride (NaCl) levels higher than 100 mM, in contrast, S. alterniflora could tolerate NaCl up to 550 mM, with negligible effect on gas exchange related parameters and conductance of electrons transport chain (gETC). Under salt, the prompt fluorescence (OJIP-curves) exhibits an increase in the O- and J-steps in S. viridis and much less for S. alterniflora. Flowing NaCl stress, a dramatic decline in the photosystem II (PSII) primary photochemistry was observed for S. viridis, as reflected by the drastic drop in Fv/Fm, Fv/Fo and ΦPSII; however, no substantial change was recorded for these parameters in S. alterniflora. Interestingly, we found an increase in the primary PSII photochemistry (ΦPSII) for S. alterniflora with increasing either NaCl concentration or NaCl treatment duration. The NPQ magnitude was strongly enhanced for S. viridis even at a low NaCl (50 mM); however, it remains unchangeable or slightly increased for S. alterniflora at NaCl levels above 400 mM. After NaCl treatment, we found an increase in both the proportion of oxidized P700 and the amount of active P700 in S. viridis and almost no change for S. alterniflora. Under salt, the net photosynthetic rate (A) and stomatal conductance (gs) measurements demonstrate that A decreases earlier in S. viridis, even after one week exposure to only 50 mM NaCl; in contrast, in S. alterniflora, the effect of NaCl on A and gs was minor even after exposure for two weeks to high NaCl levels. For S. viridis exposed to 50 mM NaCl for 12 d, carbon dioxide (CO2) at a concentration of 2000 μL L-1 could not fully restore A to the control (Ctrl) level. Conversely, in S. alterniflora, high CO2 can fully restore A for all NaCl treatments except at 550 mM. RNA-seq data shows a major impact of NaCl on metabolic pathways in S. viridis and we found a number of transcription factors potentially related to NaCl responses. For S. alterniflora, no major changes in the transcriptomic levels were recorded under NaCl stress. To confirm our data analysis of RNA-seq, we performed quantitative reverse transcription polymerase chain reaction (qRT-PCR) analysis for randomly selected four genes for each species (8 genes in total) and we found that our results (up- and/or down-regulated genes) are fully consistent and match well our RNA-seq data. Overall, this study showed drastically different photosynthetic and transcriptomic responses of a salt-tolerant C4 grass species and one salt-sensitive C4 grass species to NaCl stress, which suggests that S. alterniflora could be used as a promising model species to study salt tolerance in C4 or monocot species.
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Affiliation(s)
- Jemaa Essemine
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Mingnan Qu
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Ming-Ju Amy Lyu
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Naveed Khan
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Genyun Chen
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Peng Wang
- CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS-Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, 200032, Shanghai, China.
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Song Q, Srinivasan V, Long SP, Zhu XG. Decomposition analysis on soybean productivity increase under elevated CO2 using 3-D canopy model reveals synergestic effects of CO2 and light in photosynthesis. Ann Bot 2020; 126:601-614. [PMID: 31638642 PMCID: PMC7489077 DOI: 10.1093/aob/mcz163] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2019] [Revised: 03/29/2019] [Accepted: 10/17/2019] [Indexed: 05/19/2023]
Abstract
BACKGROUND AND AIMS Understanding how climate change influences crop productivity helps in identifying new options to increase crop productivity. Soybean is the most important dicotyledonous seed crop in terms of planting area. Although the impacts of elevated atmospheric [CO2] on soybean physiology, growth and biomass accumulation have been studied extensively, the contribution of different factors to changes in season-long whole crop photosynthetic CO2 uptake [gross primary productivity (GPP)] under elevated [CO2] have not been fully quantified. METHODS A 3-D canopy model combining canopy 3-D architecture, ray tracing and leaf photosynthesis was built to: (1) study the impacts of elevated [CO2] on soybean GPP across a whole growing season; (2) dissect the contribution of different factors to changes in GPP; and (3) determine the extent, if any, of synergism between [CO2] and light on changes in GPP. The model was parameterized from measurements of leaf physiology and canopy architectural parameters at the soybean Free Air CO2 Enrichment (SoyFACE) facility in Champaign, Illinois. KEY RESULTS Using this model, we showed that both a CO2 fertilization effect and changes in canopy architecture contributed to the large increase in GPP while acclimation in photosynthetic physiological parameters to elevated [CO2] and altered leaf temperature played only a minor role in the changes in GPP. Furthermore, at early developmental stages, elevated [CO2] increased leaf area index which led to increased canopy light absorption and canopy photosynthesis. At later developmental stages, on days with high ambient light levels, the proportion of leaves in a canopy limited by Rubisco carboxylation increased from 12.2 % to 35.6 %, which led to a greater enhancement of elevated [CO2] to GPP. CONCLUSIONS This study develops a new method to dissect the contribution of different factors to responses of crops under climate change. We showed that there is a synergestic effect of CO2 and light on crop growth under elevated CO2 conditions.
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Affiliation(s)
- Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Venkatraman Srinivasan
- Departments of Crop Sciences and of Plant Biology, Carl R. Woese Institute of Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Civil Engineering, Indian Institute of Technology Madras, Chennai, India
| | - Steve P Long
- Departments of Crop Sciences and of Plant Biology, Carl R. Woese Institute of Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Center, Lancaster University, Lancaster, UK
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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37
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Shi Z, Chang TG, Chen F, Zhao H, Song Q, Wang M, Wang Y, Zhou Z, Wang C, Zhou SC, Wang B, Chen G, Zhu XG. Morphological and physiological factors contributing to early vigor in the elite rice cultivar 9,311. Sci Rep 2020; 10:14813. [PMID: 32908221 PMCID: PMC7481250 DOI: 10.1038/s41598-020-71913-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Accepted: 04/29/2020] [Indexed: 11/08/2022] Open
Abstract
Huanghuazhan (HHZ) and 9,311 are two elite rice cultivars in China. They have achieved high yield through quite different mechanisms. One of the major features that gives high yield capacity to 9,311 is its strong early vigor, i.e., faster establishment of its seedling as well as its better growth in its early stages. To understand the mechanistic basis of early vigor in 9,311, as compared to HHZ the cultivar, we have examined, under controlled environmental conditions, different morphological and physiological traits that may contribute to its early vigor. Our results show that the fresh weight of the seeds, at germination, not only determined the seedling biomass at 10 days after germination (DAG), but was also responsible for ~ 80% of variations in plant biomass between the two cultivars even up to 30 DAG. Furthermore, the 9,311 cultivar had a larger root system, which led to its higher nitrogen uptake capacity. Other noteworthy observations about 9,311 being a better cultivar than HHZ are: (i) Ten out of 15 genes involved in nitrogen metabolism were much more highly expressed in its roots; (ii) it had a higher water uptake rate, promoting better root-to-shoot nitrogen transfer; and (iii) consistent with the above, it had higher leaf photosynthetic rate and stomatal conductance. All of the above identified features explain, to a large extent, why the 9,311, as compared to HHZ, exhibits much more vigorous early growth.
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Affiliation(s)
- Zai Shi
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
| | - Tian-Gen Chang
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China.
| | - Faming Chen
- University of Chinese Academy of Sciences, Beijing, 100049, China
- CAS Key Laboratory of Computational Biology, Chinese Academy of Sciences-Max Plank Gesellschaft Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Honglong Zhao
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Qingfeng Song
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
| | - Mengyao Wang
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yanjie Wang
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhiwei Zhou
- Huazhong Agricultural University, Wuhan, 430070, China
| | - Chongrong Wang
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Shao-Chuan Zhou
- Guangdong Provincial Key Laboratory of New Technology in Rice Breeding, Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Baoshan Wang
- Key Laboratory of Plant Stress Research, College of Life Sciences, Shandong Normal University, Ji'nan, 250014, Shandong, China
| | - Genyun Chen
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Chinese Academy of Science (CAS) Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Building No. 1, Room 402, Fenglin Road 300, Shanghai, 200032, China.
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Chang S, Chang T, Song Q, Wu J, Luo Y, Chen X, Zhu XG, Deng Q. Architectural and Physiological Features to Gain High Yield in an Elite Rice Line YLY1. Rice (N Y) 2020; 13:60. [PMID: 32844350 PMCID: PMC7447700 DOI: 10.1186/s12284-020-00419-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Accepted: 08/10/2020] [Indexed: 06/11/2023]
Abstract
Identification of traits strongly associated with high yield can help future gene engineering towards improvements of productivity. Here we systematically determine the major architectural and physiological features associated with high yield in two elite historical hybrid rice cultivars, i.e., YLY1 and LYP9. Data from a six-year experiment show that high yield of YLY1 are related to a number of architectural and physiological parameters. Compared to LYP9, YLY1 had 5.5% and 47.3% higher canopy photosynthesis under high and low photosynthetic photon flux densities, respectively, during the grain filling stage, an average 1.5% higher proportion of biomass allocation to above-ground tissues, a 4.5%-10.5% higher photosynthate reserve in leaf sheath before grain filling, and a more efficient photosynthate translocation during grain filling and finally an average 25.2% higher number of productive tillers. These features differ dramatically from features associated with high yield in YLY900 and Yongyou12#, two other high-yielding rice cultivars in China. These identified features and their combinations can support designing new strategies in the future high-yield rice breeding.
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Affiliation(s)
- Shuoqi Chang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China
- National Key Laboratory of Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Shanghai, 200032, China
| | - Tiangen Chang
- National Key Laboratory of Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Shanghai, 200032, China
| | - Qingfeng Song
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China
- National Key Laboratory of Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Shanghai, 200032, China
| | - Jun Wu
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China
| | - Yi Luo
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China
| | - Xiaolong Chen
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center of Excellence for Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, CAS, Shanghai, 200032, China.
| | - Qiyun Deng
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center (HHRRC), Changsha, 410125, China.
- BioRice (Hunan) Co Ltd., Changsha, 410100, China.
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39
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Kang HX, Zhu XG, Yamori W, Tang YH. Concurrent Increases in Leaf Temperature With Light Accelerate Photosynthetic Induction in Tropical Tree Seedlings. Front Plant Sci 2020; 11:1216. [PMID: 32849753 PMCID: PMC7427472 DOI: 10.3389/fpls.2020.01216] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 07/27/2020] [Indexed: 05/30/2023]
Abstract
Leaf temperature changes with incident light intensity, but it is unclear how the concurrent changes influence leaf photosynthesis. We examined the time courses of CO2 gas exchanges and chlorophyll fluorescence of seedling leaves in four tropical tree species in response to lightflecks under three different temperature conditions. The three conditions were two constant temperatures at 30°C (T 30) and 40°C (T 40), and a simulated gradually changing temperature from 30 to 40°C (T dyn). The time required to reach 50% of the full photosynthetic induction under T 40 was similar to, or even larger than, that under T 30. However, the induction of assimilation rate (A) and electron transport rate of photosystem II (ETR II) and Rubisco activation process were generally accelerated under T dyn compared to those at either T 30 or T 40. The acceleration in photosynthetic induction under T dyn was significantly greater in the shade-tolerant species than in the shade-intolerant species. A modified photosynthetic limitation analysis indicated that the acceleration was likely to be mainly due to ETR II at the early stage of photosynthetic induction. The study suggests that concurrent increases in leaf temperature with light may increase leaf carbon gain under highly fluctuating light in tropical tree seedlings, particularly in shade-tolerant species.
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Affiliation(s)
- Hui-Xing Kang
- Institute of Ecology, College of Urban and Environmental Sciences and Key Laboratory for Earth Surface Processes of Ministry of Education, Peking University, Beijing, China
| | - Xin-Guang Zhu
- Center of Excellence for Molecular Plant Sciences and State Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences, Shanghai, China
| | - Wataru Yamori
- Institute for Sustainable Agro-Ecosystem Services, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan
| | - Yan-Hong Tang
- Institute of Ecology, College of Urban and Environmental Sciences and Key Laboratory for Earth Surface Processes of Ministry of Education, Peking University, Beijing, China
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Perveen S, Qu M, Chen F, Essemine J, Khan N, Lyu MJA, Chang T, Song Q, Chen GY, Zhu XG. Overexpression of maize transcription factor mEmBP-1 increases photosynthesis, biomass, and yield in rice. J Exp Bot 2020; 71:4944-4957. [PMID: 32442255 DOI: 10.1093/jxb/eraa248] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Accepted: 05/20/2020] [Indexed: 06/11/2023]
Abstract
Identifying new options to improve photosynthetic capacity is a major approach to improve crop yield potential. Here we report that overexpression of the gene encoding the transcription factor mEmBP-1 led to simultaneously increased expression of many genes in photosynthesis, including genes encoding Chl a,b-binding proteins (Lhca and Lhcb), PSII (PsbR3 and PsbW) and PSI reaction center subunits (PsaK and PsaN), chloroplast ATP synthase subunit, electron transport reaction components (Fd1 and PC), and also major genes in the Calvin-Benson-Bassham cycle, including those encoding Rubisco, glyceraldehyde phosphate dehydrogenase, fructose bisphosphate aldolase, transketolase, and phosphoribulokinase. These increased expression of photosynthesis genes resulted in increased leaf chlorophyll pigment, photosynthetic rate, biomass growth, and grain yield both in the greenhouse and in the field. Using EMSA experiments, we showed that mEmBP-1a protein can directly bind to the promoter region of photosynthesis genes, suggesting that the direct binding of mEmBP-1a to the G-box domain of photosynthetic genes up-regulates expression of these genes. Altogether, our results show that mEmBP-1a is a major regulator of photosynthesis, which can be used to increase rice photosynthesis and yield in the field.
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Affiliation(s)
- Shahnaz Perveen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Mingnan Qu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Faming Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Jemaa Essemine
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Naveed Khan
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Ming-Ju Amy Lyu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Tiangen Chang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Qingfeng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Gen-Yun Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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Qu M, Essemine J, Li M, Chang S, Chang T, Chen GY, Zhu XG. Genome-Wide Association Study Unravels LRK1 as a Dark Respiration Regulator in Rice ( Oryza sativa L.). Int J Mol Sci 2020; 21:E4930. [PMID: 32668582 PMCID: PMC7404070 DOI: 10.3390/ijms21144930] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2020] [Revised: 07/04/2020] [Accepted: 07/07/2020] [Indexed: 11/16/2022] Open
Abstract
Respiration is a major plant physiological process that generates adenosine triphosphate (ATP) to support the various pathways involved in the plant growth and development. After decades of focused research on basic mechanisms of respiration, the processes and major proteins involved in respiration are well elucidated. However, much less is known about the natural variation of respiration. Here we conducted a survey on the natural variation of leaf dark respiration (Rd) in a global rice minicore diversity panel and applied a genome-wide association study (GWAS) in rice (Oryza sativa L.) to determine candidate loci associated with Rd. This rice minicore diversity panel consists of 206 accessions, which were grown under both growth room (GR) and field conditions. We found that Rd shows high single-nucleotide polymorphism (SNP) heritability under GR and it is significantly affected by genotype-environment interactions. Rd also exhibits strong positive correlation to the leaf thickness and chlorophyll content. GWAS results of Rd collected under GR and field show an overlapped genomic region in the chromosome 3 (Chr.3), which contains a lead SNP (3m29440628). There are 12 candidate genes within this region; among them, three genes show significantly higher expression levels in accessions with high Rd. Particularly, we observed that the LRK1 gene, annotated as leucine rich repeat receptor kinase, was up-regulated four times. We further found that a single significantly associated SNPs at the promoter region of LRK1, was strongly correlated with the mean annual temperature of the regions from where minicore accessions were collected. A rice lrk1 mutant shows only ~37% Rd of that of WT and retarded growth following exposure to 35 °C for 30 days, but only 24% reduction in growth was recorded under normal temperature (25 °C). This study demonstrates a substantial natural variation of Rd in rice and that the LRK1 gene can regulate leaf dark respiratory fluxes, especially under high temperature.
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Affiliation(s)
- Mingnan Qu
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai 200032, China
| | - Jemaa Essemine
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai 200032, China
| | - Ming Li
- Shanghai Center for Plant Stress Biology, Center for Excellence in Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai 200032, China
| | - Shuoqi Chang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha 410125, China
| | - Tiangen Chang
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai 200032, China
| | - Gen-Yun Chen
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
| | - Xin-Guang Zhu
- State Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai 200032, China
- Laboratory of Photosynthesis and Environmental Biology, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China
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Lyu MJA, Wang Y, Jiang J, Liu X, Chen G, Zhu XG. What Matters for C 4 Transporters: Evolutionary Changes of Phospho enolpyruvate Transporter for C 4 Photosynthesis. Front Plant Sci 2020; 11:935. [PMID: 32695130 PMCID: PMC7338763 DOI: 10.3389/fpls.2020.00935] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Accepted: 06/08/2020] [Indexed: 06/11/2023]
Abstract
C4 photosynthesis is a complex trait that evolved from its ancestral C3 photosynthesis by recruiting pre-existing genes. These co-opted genes were changed in many aspects compared to their counterparts in C3 species. Most of the evolutionary changes of the C4 shuttle enzymes are well characterized, however, evolutionary changes for the recruited metabolite transporters are less studied. Here we analyzed the evolutionary changes of the shuttle enzyme phosphoenolpyruvate (PEP) transporter (PPT) during its recruitment from C3 to C4 photosynthesis. Our analysis showed that among the two PPT paralogs PPT1 and PPT2, PPT1 was the copy recruited for C4 photosynthesis in multiple C4 lineages. During C4 evolution, PPT1 gained increased transcript abundance, shifted its expression from predominantly in root to in leaf and from bundle sheath cell to mesophyll cell, and gained more rapid and long-lasting responsiveness to light. Modifications occurred in both regulatory and coding regions in C4 PPT1 as compared to C3 PPT1, however, the PEP transporting function of PPT1 remained. We found that PPT1 of a Flaveria C4 species recruited a MEM1 B submodule in the promoter region, which might be related to the increased transcript abundance of PPT1 in C4 mesophyll cells. The case study of PPT further suggested that high transcript abundance in a proper location is of high priority for PPT to support C4 function.
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Affiliation(s)
- Ming-Ju Amy Lyu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence In Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Yaling Wang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence In Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Jianjun Jiang
- Wisconsin Institute for Discovery & Laboratory of Genetics, University of Wisconsin, Madison, WI, United States
| | - Xinyu Liu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence In Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Genyun Chen
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence In Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence In Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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Zhu XG, Ort DR, Parry MAJ, von Caemmerer S. A wish list for synthetic biology in photosynthesis research. J Exp Bot 2020; 71:2219-2225. [PMID: 32060550 PMCID: PMC7134917 DOI: 10.1093/jxb/eraa075] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2019] [Accepted: 02/12/2020] [Indexed: 05/02/2023]
Abstract
This perspective summarizes the presentations and discussions at the ' International Symposium on Synthetic Biology in Photosynthesis Research', which was held in Shanghai in 2018. Leveraging the current advanced understanding of photosynthetic systems, the symposium brain-stormed about the redesign and engineering of photosynthetic systems for translational goals and evaluated available new technologies/tools for synthetic biology as well as technological obstacles and new tools that would be needed to overcome them. Four major research areas for redesigning photosynthesis were identified: (i) mining natural variations of photosynthesis; (ii) coordinating photosynthesis with pathways utilizing photosynthate; (iii) reconstruction of highly efficient photosynthetic systems in non-host species; and (iv) development of new photosynthetic systems that do not exist in nature. To expedite photosynthesis synthetic biology research, an array of new technologies and community resources need to be developed, which include expanded modelling capacities, molecular engineering toolboxes, model species, and phenotyping tools.
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Affiliation(s)
- Xin-Guang Zhu
- Institute of Plant Physiology and Ecology and Center for Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, China
| | - Donald R Ort
- Departments of Plant Biology and Crop Sciences, University of Illinois at Urbana Champaign, Urbana, IL, USA
| | - Martin A J Parry
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Susanne von Caemmerer
- Research School of Biological Sciences, Australian National University, Acton, Australia
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Chang TG, Song QF, Zhao HL, Chang S, Xin C, Qu M, Zhu XG. An in situ approach to characterizing photosynthetic gas exchange of rice panicle. Plant Methods 2020; 16:92. [PMID: 32647532 PMCID: PMC7336644 DOI: 10.1186/s13007-020-00633-1] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2020] [Accepted: 06/24/2020] [Indexed: 05/05/2023]
Abstract
BACKGROUND Photosynthesis of reproductive organs in C3 cereals is generally regarded as important to crop yield. Whereas, photosynthetic characteristics of reproductive organs are much less understood as compared to leaf photosynthesis, mainly due to methodological limitations. To date, many indirect methods have been developed to study photosynthesis of reproductive organs and its contribution to grain yield, such as organ shading, application of herbicides and photosynthetic measurement of excised organs or tissues, which might be intrusive and cause biases. Thus, a robust and in situ approach needs to be developed. RESULTS Here we report the development of a custom-built panicle photosynthesis chamber (P-chamber), which can be connected to standard infrared gas analyzers to study photosynthetic/respiratory rate of a rice panicle. With the P-chamber, we measured panicle photosynthetic characteristics of seven high-yielding elite japonica, japonica-indica hybrid and indica rice cultivars. Results show that, (1) rice panicle is photosynthetically active during grain filling, and there are substantial inter-cultivar variations in panicle photosynthetic and respiratory rates, no matter on a whole panicle basis, on an area basis or on a single spikelet basis; (2) among the seven testing cultivars, whole-panicle gross photosynthetic rates are 17-54 nmol s-1 5 days after heading under photon flux density (PFD) of 2000 μmol (photons) m-2 s-1, which represent some 20-38% of that of the corresponding flag leaves; (3) rice panicle photosynthesis has higher apparent CO2 compensation point, light compensation point and apparent CO2 saturation point, as compared to that of a typical leaf; (4) there is a strong and significant positive correlation between gross photosynthetic rate 5 days after heading on a single spikelet basis and grain setting rate at harvest (Pearson correlation coefficient r = 0.93, p value < 0.0001). CONCLUSIONS Rice panicle gross photosynthesis is significant, has great natural variation, and plays an underappreciated role in grain yield formation. The P-Chamber can be used as a tool to study in situ photosynthetic characteristics of irregular non-foliar plant organs, such as ears, culms, leaf sheaths, fruits and branches, which is a relatively less explored area in current cereal breeding community.
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Affiliation(s)
- Tian-Gen Chang
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031 China
| | - Qing-Feng Song
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031 China
| | - Hong-Long Zhao
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
| | - Shuoqi Chang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Changpeng Xin
- CAS Key Laboratory for Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences, Shanghai, 200031 China
| | - Mingnan Qu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031 China
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200031 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
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Essemine J, Lyu MJA, Qu M, Perveen S, Khan N, Song Q, Chen G, Zhu XG. Contrasting Responses of Plastid Terminal Oxidase Activity Under Salt Stress in Two C 4 Species With Different Salt Tolerance. Front Plant Sci 2020; 11:1009. [PMID: 32733515 PMCID: PMC7359412 DOI: 10.3389/fpls.2020.01009] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Accepted: 06/19/2020] [Indexed: 05/07/2023]
Abstract
The present study reveals contrasting responses of photosynthesis to salt stress in two C4 species: a glycophyte Setaria viridis (SV) and a halophyte Spartina alterniflora (SA). Specifically, the effect of short-term salt stress treatment on the photosynthetic CO2 uptake and electron transport were investigated in SV and its salt-tolerant close relative SA. In this experiment, at the beginning, plants were grown in soil then were exposed to salt stress under hydroponic conditions for two weeks. SV demonstrated a much higher susceptibility to salt stress than SA; while, SV was incapable to survive subjected to about 100 mM, SA can tolerate salt concentrations up to 550 mM with slight effect on photosynthetic CO2 uptake rates and electrons transport chain conductance (gETC ). Regardless the oxygen concentration used, our results show an enhancement in the P700 oxidation with increasing O2 concentration for SV following NaCl treatment and almost no change for SA. We also observed an activation of the cyclic NDH-dependent pathway in SV by about 2.36 times upon exposure to 50 mM NaCl for 12 days (d); however, its activity in SA drops by about 25% compared to the control without salt treatment. Using PTOX inhibitor (n-PG) and that of the Qo-binding site of Cytb6/f (DBMIB), at two O2 levels (2 and 21%), to restrict electrons flow towards PSI, we successfully revealed the presence of a possible PTOX activity under salt stress for SA but not for SV. However, by q-PCR and western-blot analysis, we showed an increase in PTOX amount by about 3-4 times for SA under salt stress but not or very less for SV. Overall, this study provides strong proof for the existence of PTOX as an alternative electron pathway in C4 species (SA), which might play more than a photoprotective role under salt stress.
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Chen QY, Luo XB, Xie DH, Li ML, Ji XY, Zhou R, Huang YB, Zhang W, Feng W, Zhang Y, Huang L, Hao QQ, Liu Q, Zhu XG, Liu Y, Zhang P, Lai XC, Si Q, Tan SY. Orbital-Selective Kondo Entanglement and Antiferromagnetic Order in USb_{2}. Phys Rev Lett 2019; 123:106402. [PMID: 31573295 DOI: 10.1103/physrevlett.123.106402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Revised: 07/22/2019] [Indexed: 06/10/2023]
Abstract
In heavy-fermion compounds, the dual character of f electrons underlies their rich and often exotic properties like fragile heavy quasiparticles, a variety of magnetic orders and unconventional superconductivity. 5f-electron actinide materials provide a rich setting to elucidate the larger and outstanding issue of the competition between magnetic order and Kondo entanglement and, more generally, the interplay among different channels of interactions in correlated electron systems. Here, by using angle-resolved photoemission spectroscopy, we present the detailed electronic structure of USb_{2} and observe two different kinds of nearly flat bands in the antiferromagnetic state of USb_{2}. Polarization-dependent measurements show that these electronic states are derived from 5f orbitals with different characters; in addition, further temperature-dependent measurements reveal that one of them is driven by the Kondo correlations between the 5f electrons and conduction electrons, while the other reflects the dominant role of the magnetic order. Our results on the low-energy electronic excitations of USb_{2} implicate orbital selectivity as an important new ingredient for the competition between Kondo correlations and magnetic order and, by extension, in the rich landscape of quantum phases for strongly correlated f electron systems.
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Affiliation(s)
- Q Y Chen
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - X B Luo
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - D H Xie
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - M L Li
- Institute of Applied Physics and Computational Mathematics, Beijing 100088, China
| | - X Y Ji
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - R Zhou
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Y B Huang
- Shanghai Institute of Applied Physics, CAS, Shanghai, 201204, China
| | - W Zhang
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - W Feng
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Y Zhang
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - L Huang
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Q Q Hao
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Q Liu
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - X G Zhu
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Y Liu
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - P Zhang
- Institute of Applied Physics and Computational Mathematics, Beijing 100088, China
| | - X C Lai
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
| | - Q Si
- Department of Physics and Astronomy and Rice Center for Quantum Materials, Rice University, Houston, Texas 77005, USA
| | - S Y Tan
- Science and Technology on Surface Physics and Chemistry Laboratory, Mianyang 621908, China
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Duren Z, Wang Y, Wang J, Zhao XM, Lv L, Li X, Liu J, Zhu XG, Chen L, Wang Y. Hierarchical graphical model reveals HFR1 bridging circadian rhythm and flower development in Arabidopsis thaliana. NPJ Syst Biol Appl 2019; 5:28. [PMID: 31428455 PMCID: PMC6690920 DOI: 10.1038/s41540-019-0106-3] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2018] [Accepted: 07/23/2019] [Indexed: 01/02/2023] Open
Abstract
To study systems-level properties of the cell, it is necessary to go beyond individual regulators and target genes to study the regulatory network among transcription factors (TFs). However, it is difficult to directly dissect the TFs mediated genome-wide gene regulatory network (GRN) by experiment. Here, we proposed a hierarchical graphical model to estimate TF activity from mRNA expression by building TF complexes with protein cofactors and inferring TF's downstream regulatory network simultaneously. Then we applied our model on flower development and circadian rhythm processes in Arabidopsis thaliana. The computational results show that the sequence specific bHLH family TF HFR1 recruits the chromatin regulator HAC1 to flower development master regulator TF AG and further activates AG's expression by histone acetylation. Both independent data and experimental results supported this discovery. We also found a flower tissue specific H3K27ac ChIP-seq peak at AG gene body and a HFR1 motif in the center of this H3K27ac peak. Furthermore, we verified that HFR1 physically interacts with HAC1 by yeast two-hybrid experiment. This HFR1-HAC1-AG triplet relationship may imply that flower development and circadian rhythm are bridged by epigenetic regulation and enrich the classical ABC model in flower development. In addition, our TF activity network can serve as a general method to elucidate molecular mechanisms on other complex biological regulatory processes.
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Affiliation(s)
- Zhana Duren
- CEMS, NCMIS, MDIS, Academy of Mathematics and Systems Science, Chinese Academy of Sciences, Beijing, 100190 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
| | - Yaling Wang
- State Key Laboratory of Molecular Plant Sciences and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032 China
| | - Jiguang Wang
- Division of Life Science, Department of Chemical and Biological Engineering, Center of Systems Biology and Human Health, State Key Laboratory of Molecular Neuroscience, The Hong Kong University of Science and Technology, Hong Kong, China
| | - Xing-Ming Zhao
- Institute of Science and Technology for Brain-Inspired Intelligence, Fudan University, Shanghai, 200433 China
- Key Laboratory of Computational Neuroscience and Brain-Inspired Intelligence, Ministry of Education, Shanghai, China
| | - Le Lv
- Bayer U.S. – Crop Science, Monsanto Legal Entity, St. Louis, MO 63156 USA
| | - Xiaobo Li
- Department of Plant Biology, Carnegie Institution for Science, 260 Panama Street, Stanford, CA 94305 USA
| | - Jingdong Liu
- Bayer U.S. – Crop Science, Monsanto Legal Entity, St. Louis, MO 63156 USA
| | - Xin-Guang Zhu
- State Key Laboratory of Molecular Plant Sciences and Center of Excellence for Molecular Plant Sciences, Chinese Academy of Sciences, Shanghai, 200032 China
| | - Luonan Chen
- Key Laboratory of Systems Biology, Center for Excellence in Molecular Cell Science, Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, Shanghai, 200031 China
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, 650223 China
- School of Life Science and Technology, ShanghaiTech University, Shanghai, 201210 China
- Research Center for Brain Science and Brain-Inspired Intelligence, 201210 Shanghai, China
| | - Yong Wang
- CEMS, NCMIS, MDIS, Academy of Mathematics and Systems Science, Chinese Academy of Sciences, Beijing, 100190 China
- University of Chinese Academy of Sciences, Beijing, 100049 China
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, 650223 China
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Hamdani S, Wang H, Zheng G, Perveen S, Qu M, Khan N, Khan W, Jiang J, Li M, Liu X, Zhu X, Chu C, Zhu XG. Genome-wide association study identifies variation of glucosidase being linked to natural variation of the maximal quantum yield of photosystem II. Physiol Plant 2019; 166:105-119. [PMID: 30834537 DOI: 10.1111/ppl.12957] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/19/2018] [Revised: 02/06/2019] [Accepted: 03/01/2019] [Indexed: 06/09/2023]
Abstract
The maximum quantum yield of photosystem II (as reflected by variable to maximum chlorophyll a fluorescence, Fv /Fm ) is regarded as one of the most important photosynthetic parameters. The genetic basis underlying natural variation in Fv /Fm , which shows low level of variations in plants under non-stress conditions, is not easy to be exploited using the conventional gene cloning approaches. Thus, in order to answer this question, we have followed another strategy: we used genome-wide association study (GWAS) and transgenic analysis in a rice mini-core collection. We report here that four single-nucleotide polymorphisms, located in the promoter region of β-glucosidase 5 (BGlu-5), are associated with observed variation in Fv /Fm . Indeed, our transgenic analysis showed a good correlation between BGlu-5 and Fv /Fm . Thus, our work demonstrates the feasibility of using GWAS to study natural variation in Fv /Fm , suggesting that cis-element polymorphism, affecting the BGlu-5 expression level, may, indirectly, contribute to Fv /Fm variation in rice through the gibberellin signaling pathway. Further research is needed to understand the mechanism of our novel observation.
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Affiliation(s)
- Saber Hamdani
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Hongru Wang
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Guangyong Zheng
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Shahnaz Perveen
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Mingnan Qu
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Naveed Khan
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Waqasuddin Khan
- Jamil-ur-Rahman Center for Genome Research, DR. Panjwani Center for Molecular Medicine and Drug Research, International Center for Chemical and Biological Sciences, University of Karachi, Karachi, 75270, Pakistan
| | - Jianjun Jiang
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Ming Li
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Xinyu Liu
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Xiaocen Zhu
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
| | - Chengcai Chu
- State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China
| | - Xin-Guang Zhu
- Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, 200031, China
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49
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Chang TG, Zhao H, Wang N, Song QF, Xiao Y, Qu M, Zhu XG. A three-dimensional canopy photosynthesis model in rice with a complete description of the canopy architecture, leaf physiology, and mechanical properties. J Exp Bot 2019; 70:2479-2490. [PMID: 30801123 PMCID: PMC6487591 DOI: 10.1093/jxb/ery430] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2018] [Accepted: 01/08/2019] [Indexed: 05/19/2023]
Abstract
In current rice breeding programs, morphological parameters such as plant height, leaf length and width, leaf angle, panicle architecture, and tiller number during the grain filling stage are used as major selection targets. However, so far, there is no robust approach to quantitatively define the optimal combinations of parameters that can lead to increased canopy radiation use efficiency (RUE). Here we report the development of a three-dimensional canopy photosynthesis model (3dCAP), which effectively combines three-dimensional canopy architecture, canopy vertical nitrogen distribution, a ray-tracing algorithm, and a leaf photosynthesis model. Concurrently, we developed an efficient workflow for the parameterization of 3dCAP. 3dCAP predicted daily canopy RUE for different nitrogen treatments of a given rice cultivar under different weather conditions. Using 3dCAP, we explored the influence of three canopy architectural parameters-tiller number, tiller angle and leaf angle-on canopy RUE. Under different weather conditions and different nitrogen treatments, canopy architecture optimized by manipulating these parameters can increase daily net canopy photosynthetic CO2 uptake by 10-52%. Generally, a smaller tiller angle was predicted for most elite rice canopy architectures, especially under scattered light conditions. Results further show that similar canopy RUE can be obtained by multiple different parameter combinations; these combinations share two common features of high light absorption by leaves in the canopy and a high level of coordination between the nitrogen concentration and the light absorbed by each leaf within the canopy. Overall, this new model has potential to be used in rice ideotype design for improved canopy RUE.
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Affiliation(s)
- Tian-Gen Chang
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Honglong Zhao
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Ning Wang
- CAS MPG Partner Institute for Computational Biology, Chinese Academy of Sciences, Shanghai, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Qing-Feng Song
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Yi Xiao
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Mingnan Qu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
| | - Xin-Guang Zhu
- National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Shanghai Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China
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50
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Hamdani S, Khan N, Perveen S, Qu M, Jiang J, Zhu XG. Changes in the photosynthesis properties and photoprotection capacity in rice (Oryza sativa) grown under red, blue, or white light. Photosynth Res 2019; 139:107-121. [PMID: 30456488 DOI: 10.1007/s11120-018-0589-6] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2018] [Accepted: 09/24/2018] [Indexed: 05/25/2023]
Abstract
Non-photochemical quenching (NPQ) of the excited state of chlorophyll a is a major photoprotective mechanism plants utilize to survive under high light. Here, we report the impact of long-term light quality treatment on photosynthetic properties, especially NPQ in rice. We used three LED-based light regimes, i.e., red (648-672 nm), blue (438-460 nm), and "warm" white light (529-624 nm), with the incident photon flux density of 300 µmol photons m-2 s-1, the difference in the absorbed photon flux densities by leaves grown under different light quality being less than 7%. Our results show that blue light, as compared to white light, induced a significant decrease in Fv/Fm, a decreased rate of reduction of P700+ after P700 was completely oxidized; furthermore, blue light also induced higher NPQ with an increased initial speed of NPQ induction, which corresponds to the qE component of NPQ, and a lower maximum quantum yield of PSII, i.e., Y(II). In contrast, rice grown under long-term red light showed decreased Y(II) and increased NPQ, but with no change in Fv/Fm. Furthermore, we found that rice grown under either blue or red light showed decreased transcript abundance of both catalase and ascorbate peroxidase, together with an increased H2O2 content, as compared to rice grown under white light. All these data suggest that even under a moderate incident light level, rice grown under blue or red light led to compromised antioxidant system, which contributed to decreased quantum yield of photosystem II and increased NPQ.
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Affiliation(s)
- Saber Hamdani
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai, 200032, China
| | - Naveed Khan
- Max-Planck Partner Institute of Computational Biology, Shanghai Institute of Biological Sciences, University of Chinese Academy of Sciences, Shanghai, 200032, China
| | - Shahnaz Perveen
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai, 200032, China
| | - Mingnan Qu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai, 200032, China
| | - Jianjun Jiang
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai, 200032, China
| | - Xin-Guang Zhu
- National Key Laboratory for Plant Molecular Genetics, Center of Excellence for Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, 300 Fenglin Road, Shanghai, 200032, China.
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