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Srivastava A, Srinivasan V, Long SP. Stomatal conductance reduction tradeoffs in maize leaves: A theoretical study. Plant Cell Environ 2024; 47:1716-1731. [PMID: 38305579 DOI: 10.1111/pce.14821] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 12/07/2023] [Accepted: 01/07/2024] [Indexed: 02/03/2024]
Abstract
As the leading global grain crop, maize significantly impacts agricultural water usage. Presently, photosynthesis (A net ${A}_{\text{net}}$ ) in leaves of modern maize crops is saturated withCO 2 ${\text{CO}}_{2}$ , implying that reducing stomatal conductance (g s ${g}_{{\rm{s}}}$ ) would not affectA net ${A}_{\text{net}}$ but reduce transpiration (τ $\tau $ ), thereby increasing water use efficiency (WUE). Whileg s ${g}_{{\rm{s}}}$ reduction benefits upper canopy leaves under optimal conditions, the tradeoffs in low light and nitrogen-deficient leaves under nonoptimal microenvironments remain unexplored. Moreover,g s ${g}_{{\rm{s}}}$ reduction increases leaf temperature (T leaf ${T}_{\text{leaf}}$ ) and water vapor pressure deficit, partially counteracting transpiratory water savings. Therefore, the overall impact ofg s ${g}_{{\rm{s}}}$ reduction on water savings remains unclear. Here, we use a process-based leaf model to investigate the benefits of reducedg s ${g}_{{\rm{s}}}$ in maize leaves under different microenvironments. Our findings show that increases inT leaf ${T}_{\text{leaf}}$ due tog s ${g}_{{\rm{s}}}$ reduction can diminish WUE gains by up to 20%. However,g s ${g}_{{\rm{s}}}$ reduction still results in beneficial WUE tradeoffs, where a 29% decrease ing s ${g}_{{\rm{s}}}$ in upper canopy leaves results in a 28% WUE gain without loss inA net ${A}_{\text{net}}$ . Lower canopy leaves exhibit superior tradeoffs ing s ${g}_{{\rm{s}}}$ reduction with 178% gains in WUE without loss inA net ${A}_{\text{net}}$ . Our simulations show that these WUE benefits are resilient to climate change.
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Affiliation(s)
- Antriksh Srivastava
- Department of Civil Engineering, Indian Institute of Technology Madras, Chennai, India
| | - Venkatraman Srinivasan
- Department of Civil Engineering, Indian Institute of Technology Madras, Chennai, India
- School of Sustainability, Indian Institute of Technology Madras, Chennai, India
| | - Stephen P Long
- The Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana Champaign, Champaign, Illinois, USA
- Department of Crop Sciences, University of Illinois Urbana Champaign, Champaign, Illinois, USA
- Department of Plant Biology, University of Illinois Urbana Champaign, Champaign, Illinois, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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2
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Salesse-Smith CE, Lochocki EB, Doran L, Haas BE, Stutz SS, Long SP. Greater mesophyll conductance and leaf photosynthesis in the field through modified cell wall porosity and thickness via AtCGR3 expression in tobacco. Plant Biotechnol J 2024. [PMID: 38687118 DOI: 10.1111/pbi.14364] [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: 02/16/2024] [Revised: 04/02/2024] [Accepted: 04/11/2024] [Indexed: 05/02/2024]
Abstract
Mesophyll conductance (gm) describes the ease with which CO2 passes from the sub-stomatal cavities of the leaf to the primary carboxylase of photosynthesis, Rubisco. Increasing gm is suggested as a means to engineer increases in photosynthesis by increasing [CO2] at Rubisco, inhibiting oxygenation and accelerating carboxylation. Here, tobacco was transgenically up-regulated with Arabidopsis Cotton Golgi-related 3 (CGR3), a gene controlling methylesterification of pectin, as a strategy to increase CO2 diffusion across the cell wall and thereby increase gm. Across three independent events in tobacco strongly expressing AtCGR3, mesophyll cell wall thickness was decreased by 7%-13%, wall porosity increased by 75% and gm measured by carbon isotope discrimination increased by 28%. Importantly, field-grown plants showed an average 8% increase in leaf photosynthetic CO2 uptake. Up-regulating CGR3 provides a new strategy for increasing gm in dicotyledonous crops, leading to higher CO2 assimilation and a potential means to sustainable crop yield improvement.
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Affiliation(s)
- Coralie E Salesse-Smith
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Edward B Lochocki
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Lynn Doran
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Benjamin E Haas
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Samantha S Stutz
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
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Rotundo JL, Marshall R, McCormick R, Truong SK, Styles D, Gerde JA, Gonzalez-Escobar E, Carmo-Silva E, Janes-Bassett V, Logue J, Annicchiarico P, de Visser C, Dind A, Dodd IC, Dye L, Long SP, Lopes MS, Pannecoucque J, Reckling M, Rushton J, Schmid N, Shield I, Signor M, Messina CD, Rufino MC. European soybean to benefit people and the environment. Sci Rep 2024; 14:7612. [PMID: 38556523 PMCID: PMC10982307 DOI: 10.1038/s41598-024-57522-z] [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: 11/08/2023] [Accepted: 03/19/2024] [Indexed: 04/02/2024] Open
Abstract
Europe imports large amounts of soybean that are predominantly used for livestock feed, mainly sourced from Brazil, USA and Argentina. In addition, the demand for GM-free soybean for human consumption is project to increase. Soybean has higher protein quality and digestibility than other legumes, along with high concentrations of isoflavones, phytosterols and minerals that enhance the nutritional value as a human food ingredient. Here, we examine the potential to increase soybean production across Europe for livestock feed and direct human consumption, and review possible effects on the environment and human health. Simulations and field data indicate rainfed soybean yields of 3.1 ± 1.2 t ha-1 from southern UK through to southern Europe (compared to a 3.5 t ha-1 average from North America). Drought-prone southern regions and cooler northern regions require breeding to incorporate stress-tolerance traits. Literature synthesized in this work evidenced soybean properties important to human nutrition, health, and traits related to food processing compared to alternative protein sources. While acknowledging the uncertainties inherent in any modelling exercise, our findings suggest that further integrating soybean into European agriculture could reduce GHG emissions by 37-291 Mt CO2e year-1 and fertiliser N use by 0.6-1.2 Mt year-1, concurrently improving human health and nutrition.
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Affiliation(s)
- Jose L Rotundo
- Corteva Agriscience, Seville, Spain.
- Corteva Agriscience, Johnston, USA.
| | - Rachel Marshall
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | | | | | - David Styles
- School of Biological and Chemical Sciences, University of Galway, Galway, Ireland
| | - Jose A Gerde
- Instituto de Ciencias Agrarias de Rosario, UNR, CONICET, Zavalla, Argentina
| | | | | | | | - Jennifer Logue
- Lancaster Medical School, Lancaster University, Lancaster, UK
| | | | - Chris de Visser
- Wageningen University and Research, Wageningen, The Netherlands
| | - Alice Dind
- Research Institute of Organic Agriculture (FiBL), Frick, Switzerland
| | - Ian C Dodd
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Louise Dye
- School of Psychology and Food Science and Nutrition, University of Leeds, Leeds, UK
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
- Departments of Crop Sciences and of Plant Biology, University of Illinois, Champaign, USA
| | - Marta S Lopes
- Sustainable Field Crops, Institute of Agrifood Research and Technology (IRTA), Lleida, Spain
| | - Joke Pannecoucque
- Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), Merelbeke, Belgium
| | - Moritz Reckling
- Leibniz Centre for Agricultural Landscape Research (ZALF), Müncheberg, Germany
- Department of Crop Production Ecology, Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden
| | - Jonathan Rushton
- Centre of Excellence for Sustainable Food Systems, University of Liverpool, Liverpool, UK
| | - Nathaniel Schmid
- Research Institute of Organic Agriculture (FiBL), Frick, Switzerland
| | | | - Marco Signor
- Regional Agency for Rural Development (ERSA), Gorizia, Italy
| | | | - Mariana C Rufino
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
- School of Life Sciences, Technical University of Munich, München, Germany
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McGrath JM, Siebers MH, Fu P, Long SP, Bernacchi CJ. To have value, comparisons of high-throughput phenotyping methods need statistical tests of bias and variance. Front Plant Sci 2024; 14:1325221. [PMID: 38312358 PMCID: PMC10835710 DOI: 10.3389/fpls.2023.1325221] [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: 10/20/2023] [Accepted: 12/20/2023] [Indexed: 02/06/2024]
Abstract
The gap between genomics and phenomics is narrowing. The rate at which it is narrowing, however, is being slowed by improper statistical comparison of methods. Quantification using Pearson's correlation coefficient (r) is commonly used to assess method quality, but it is an often misleading statistic for this purpose as it is unable to provide information about the relative quality of two methods. Using r can both erroneously discount methods that are inherently more precise and validate methods that are less accurate. These errors occur because of logical flaws inherent in the use of r when comparing methods, not as a problem of limited sample size or the unavoidable possibility of a type I error. A popular alternative to using r is to measure the limits of agreement (LOA). However both r and LOA fail to identify which instrument is more or less variable than the other and can lead to incorrect conclusions about method quality. An alternative approach, comparing variances of methods, requires repeated measurements of the same subject, but avoids incorrect conclusions. Variance comparison is arguably the most important component of method validation and, thus, when repeated measurements are possible, variance comparison provides considerable value to these studies. Statistical tests to compare variances presented here are well established, easy to interpret and ubiquitously available. The widespread use of r has potentially led to numerous incorrect conclusions about method quality, hampering development, and the approach described here would be useful to advance high throughput phenotyping methods but can also extend into any branch of science. The adoption of the statistical techniques outlined in this paper will help speed the adoption of new high throughput phenotyping techniques by indicating when one should reject a new method, outright replace an old method or conditionally use a new method.
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Affiliation(s)
- Justin M. McGrath
- Global Change and Photosynthesis Research Unit, USDA-Agricultural Research Service (ARS), Urbana, IL, United States
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
| | - Matthew H. Siebers
- Global Change and Photosynthesis Research Unit, USDA-Agricultural Research Service (ARS), Urbana, IL, United States
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
| | - Peng Fu
- Center for Advanced Agriculture and Sustainability, Harrisburg University of Science and Technology, Harrisburg, PA, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
| | - Stephen P. Long
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois, Urbana-Champaign, Urbana, IL, United States
| | - Carl J. Bernacchi
- Global Change and Photosynthesis Research Unit, USDA-Agricultural Research Service (ARS), Urbana, IL, United States
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL, United States
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Njuguna JN, Clark LV, Lipka AE, Anzoua KG, Bagmet L, Chebukin P, Dwiyanti MS, Dzyubenko E, Dzyubenko N, Ghimire BK, Jin X, Johnson DA, Kjeldsen JB, Nagano H, de Bem Oliveira I, Peng J, Petersen KK, Sabitov A, Seong ES, Yamada T, Yoo JH, Yu CY, Zhao H, Munoz P, Long SP, Sacks EJ. Impact of genotype-calling methodologies on genome-wide association and genomic prediction in polyploids. Plant Genome 2023; 16:e20401. [PMID: 37903749 DOI: 10.1002/tpg2.20401] [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: 03/29/2023] [Revised: 09/17/2023] [Accepted: 09/23/2023] [Indexed: 11/01/2023]
Abstract
Discovery and analysis of genetic variants underlying agriculturally important traits are key to molecular breeding of crops. Reduced representation approaches have provided cost-efficient genotyping using next-generation sequencing. However, accurate genotype calling from next-generation sequencing data is challenging, particularly in polyploid species due to their genome complexity. Recently developed Bayesian statistical methods implemented in available software packages, polyRAD, EBG, and updog, incorporate error rates and population parameters to accurately estimate allelic dosage across any ploidy. We used empirical and simulated data to evaluate the three Bayesian algorithms and demonstrated their impact on the power of genome-wide association study (GWAS) analysis and the accuracy of genomic prediction. We further incorporated uncertainty in allelic dosage estimation by testing continuous genotype calls and comparing their performance to discrete genotypes in GWAS and genomic prediction. We tested the genotype-calling methods using data from two autotetraploid species, Miscanthus sacchariflorus and Vaccinium corymbosum, and performed GWAS and genomic prediction. In the empirical study, the tested Bayesian genotype-calling algorithms differed in their downstream effects on GWAS and genomic prediction, with some showing advantages over others. Through subsequent simulation studies, we observed that at low read depth, polyRAD was advantageous in its effect on GWAS power and limit of false positives. Additionally, we found that continuous genotypes increased the accuracy of genomic prediction, by reducing genotyping error, particularly at low sequencing depth. Our results indicate that by using the Bayesian algorithm implemented in polyRAD and continuous genotypes, we can accurately and cost-efficiently implement GWAS and genomic prediction in polyploid crops.
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Affiliation(s)
- Joyce N Njuguna
- Department of Crop Sciences, University of Illinois Urbana-Champaign, Urbana, Illinois, USA
| | - Lindsay V Clark
- Research Scientific Computing, Seattle Children's Research Institute, Seattle, Washington, USA
| | - Alexander E Lipka
- Department of Crop Sciences, University of Illinois Urbana-Champaign, Urbana, Illinois, USA
| | - Kossonou G Anzoua
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Japan
| | - Larisa Bagmet
- Vavilov All-Russian Institute of Plant Genetic Resources, St. Petersburg, Russian Federation
| | - Pavel Chebukin
- FSBSI "FSC of Agricultural Biotechnology of the Far East named after A.K. Chaiki", Ussuriysk, Russian Federation
| | - Maria S Dwiyanti
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Japan
| | - Elena Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, St. Petersburg, Russian Federation
| | - Nicolay Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, St. Petersburg, Russian Federation
| | - Bimal Kumar Ghimire
- Department of Crop Science, College of Sanghuh Life Science, Konkuk University, Seoul, South Korea
| | - Xiaoli Jin
- Agronomy Department, Key Laboratory of Crop Germplasm Research of Zhejiang Province, Zhejiang University, Hangzhou, China
| | - Douglas A Johnson
- USDA-ARS Forage and Range Research Lab, Utah State University, Logan, Utah, USA
| | | | - Hironori Nagano
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Japan
| | | | - Junhua Peng
- Spring Valley Agriscience Co. Ltd., Jinan, China
| | | | - Andrey Sabitov
- Vavilov All-Russian Institute of Plant Genetic Resources, St. Petersburg, Russian Federation
| | - Eun Soo Seong
- Division of Bioresource Sciences, Kangwon National University, Chuncheon, South Korea
| | - Toshihiko Yamada
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Japan
| | - Ji Hye Yoo
- Bioherb Research Institute, Kangwon National University, Chuncheon, South Korea
| | - Chang Yeon Yu
- Bioherb Research Institute, Kangwon National University, Chuncheon, South Korea
| | - Hua Zhao
- Key Laboratory of Horticultural Plant Biology of Ministry of Education, Huazhong Agricultural University, Wuhan, China
| | - Patricio Munoz
- Horticultural Science Department, University of Florida, Gainesville, Florida, USA
| | - Stephen P Long
- Department of Crop Sciences, University of Illinois Urbana-Champaign, Urbana, Illinois, USA
| | - Erik J Sacks
- Department of Crop Sciences, University of Illinois Urbana-Champaign, Urbana, Illinois, USA
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Holland BL, Matthews ML, Bota P, Sweetlove LJ, Long SP, diCenzo GC. A genome-scale metabolic reconstruction of soybean and Bradyrhizobium diazoefficiens reveals the cost-benefit of nitrogen fixation. New Phytol 2023; 240:744-756. [PMID: 37649265 DOI: 10.1111/nph.19203] [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: 03/29/2023] [Accepted: 07/05/2023] [Indexed: 09/01/2023]
Abstract
Nitrogen-fixing symbioses allow legumes to thrive in nitrogen-poor soils at the cost of diverting some photoassimilate to their microsymbionts. Effort is being made to bioengineer nitrogen fixation into nonleguminous crops. This requires a quantitative understanding of its energetic costs and the links between metabolic variations and symbiotic efficiency. A whole-plant metabolic model for soybean (Glycine max) with its associated microsymbiont Bradyrhizobium diazoefficiens was developed and applied to predict the cost-benefit of nitrogen fixation with varying soil nitrogen availability. The model predicted a nitrogen-fixation cost of c. 4.13 g C g-1 N, which when implemented into a crop scale model, translated to a grain yield reduction of 27% compared with a non-nodulating plant receiving its nitrogen from the soil. Considering the lower nitrogen content of cereals, the yield cost to a hypothetical N-fixing cereal is predicted to be less than half that of soybean. Soybean growth was predicted to be c. 5% greater when the nodule nitrogen export products were amides versus ureides. This is the first metabolic reconstruction in a tropical crop species that simulates the entire plant and nodule metabolism. Going forward, this model will serve as a tool to investigate carbon use efficiency and key mechanisms within N-fixing symbiosis in a tropical species forming determinate nodules.
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Affiliation(s)
- Bethany L Holland
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Megan L Matthews
- Department of Civil and Environmental Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Pedro Bota
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Lee J Sweetlove
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Stephen P Long
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - George C diCenzo
- Department of Biology, Queen's University, Kingston, ON, K7L 3N6, Canada
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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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Głowacka K, Kromdijk J, Salesse-Smith CE, Smith C, Driever SM, Long SP. Is chloroplast size optimal for photosynthetic efficiency? New Phytol 2023; 239:2197-2211. [PMID: 37357337 DOI: 10.1111/nph.19091] [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] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2023] [Accepted: 06/04/2023] [Indexed: 06/27/2023]
Abstract
Improving photosynthetic efficiency has recently emerged as a promising way to increase crop production in a sustainable manner. While chloroplast size may affect photosynthetic efficiency in several ways, we aimed to explore whether chloroplast size manipulation can be a viable approach to improving photosynthetic performance. Several tobacco (Nicotiana tabacum) lines with contrasting chloroplast sizes were generated via manipulation of chloroplast division genes to assess photosynthetic performance under steady-state and fluctuating light. A selection of lines was included in a field trial to explore productivity. Lines with enlarged chloroplasts underperformed in most of the measured traits. Lines with smaller and more numerous chloroplasts showed a similar efficiency compared with wild-type (WT) tobacco. Chloroplast size only weakly affected light absorptance and light profiles within the leaf. Increasing chloroplast size decreased mesophyll conductance (gm ) but decreased chloroplast size did not increase gm . Increasing chloroplast size reduced chloroplast movements and enhanced non-photochemical quenching. The chloroplast smaller than WT appeared to be no better than WT for photosynthetic efficiency and productivity under field conditions. The results indicate that chloroplast size manipulations are therefore unlikely to lead to higher photosynthetic efficiency or growth.
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Affiliation(s)
- Katarzyna Głowacka
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Department of Biochemistry and Center for Plant Science Innovation, University of Nebraska-Lincoln, 1901 Vine Street, Lincoln, NE, 68588, USA
- Institute of Plant Genetics, Polish Academy of Sciences, Strzeszynska 34, Poznań, 60-479, Poland
| | - Johannes Kromdijk
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
| | - Coralie E Salesse-Smith
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
| | - Cailin Smith
- Department of Biochemistry and Center for Plant Science Innovation, University of Nebraska-Lincoln, 1901 Vine Street, Lincoln, NE, 68588, USA
- Goshen College, 1700 South Main Street, Goshen, IN, 46526, USA
| | - Steven M Driever
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Centre for Crop Systems Analysis, Wageningen University, Bornsesteeg 48, Wageningen, 6708PE, the Netherlands
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Departments of Plant Biology and of Crop Sciences, University of Illinois, 505 South Goodwin Avenue, Urbana, IL, 61801, USA
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Aspray EK, Mies TA, McGrath JA, Montes CM, Dalsing B, Puthuval KK, Whetten A, Herriott J, Li S, Bernacchi CJ, DeLucia EH, Leakey ADB, Long SP, McGrath JM, Miglietta F, Ort DR, Ainsworth EA. Two decades of fumigation data from the Soybean Free Air Concentration Enrichment facility. Sci Data 2023; 10:226. [PMID: 37081032 PMCID: PMC10119297 DOI: 10.1038/s41597-023-02118-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 03/28/2023] [Indexed: 04/22/2023] Open
Abstract
The Soybean Free Air Concentration Enrichment (SoyFACE) facility is the longest running open-air carbon dioxide and ozone enrichment facility in the world. For over two decades, soybean, maize, and other crops have been exposed to the elevated carbon dioxide and ozone concentrations anticipated for late this century. The facility, located in East Central Illinois, USA, exposes crops to different atmospheric concentrations in replicated octagonal ~280 m2 Free Air Concentration Enrichment (FACE) treatment plots. Each FACE plot is paired with an untreated control (ambient) plot. The experiment provides important ground truth data for predicting future crop productivity. Fumigation data from SoyFACE were collected every four seconds throughout each growing season for over two decades. Here, we organize, quality control, and collate 20 years of data to facilitate trend analysis and crop modeling efforts. This paper provides the rationale for and a description of the SoyFACE experiments, along with a summary of the fumigation data and collation process, weather and ambient data collection procedures, and explanations of air pollution metrics and calculations.
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Affiliation(s)
- Elise Kole Aspray
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
| | - Timothy A Mies
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, 1102 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Jesse A McGrath
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Christopher M Montes
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Bradley Dalsing
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Kannan K Puthuval
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Andrew Whetten
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Mathematical Sciences, University of Wisconsin-Milwaukee, 2200 E Kenwood Blvd, Milwaukee, WI, 53211, USA
| | - Jelena Herriott
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Department of Agriculture and Applied Sciences, Langston University, 701 Sammy Davis Jr. Drive, Langston, OK, 73050, USA
| | - Shuai Li
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
| | - Carl J Bernacchi
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, 1102 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Evan H DeLucia
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
| | - Andrew D B Leakey
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
| | - Stephen P Long
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, 1102 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Justin M McGrath
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Franco Miglietta
- National Research Council of Italy, Institute for Bioeconomy (CNR IBE), Florence, Italy
| | - Donald R Ort
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, 1102 S. Goodwin Ave, Urbana, IL, 61801, USA
| | - Elizabeth A Ainsworth
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture, Agricultural Research Service, Urbana, IL, 61801, USA.
- Department of Plant Biology, University of Illinois at Urbana-Champaign, 505 S. Goodwin Ave, Urbana, IL, 61801, USA.
- Institute of Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W. Gregory Drive, Urbana, IL, 61801, USA.
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, 1102 S. Goodwin Ave, Urbana, IL, 61801, USA.
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10
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Wang Y, Stutz SS, Bernacchi CJ, Boyd RA, Ort DR, Long SP. Increased bundle-sheath leakiness of CO 2 during photosynthetic induction shows a lack of coordination between the C 4 and C 3 cycles. New Phytol 2022; 236:1661-1675. [PMID: 36098668 PMCID: PMC9827928 DOI: 10.1111/nph.18485] [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] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2022] [Accepted: 08/25/2022] [Indexed: 05/31/2023]
Abstract
Use of a complete dynamic model of NADP-malic enzyme C4 photosynthesis indicated that, during transitions from dark or shade to high light, induction of the C4 pathway was more rapid than that of C3 , resulting in a predicted transient increase in bundle-sheath CO2 leakiness (ϕ). Previously, ϕ has been measured at steady state; here we developed a new method, coupling a tunable diode laser absorption spectroscope with a gas-exchange system to track ϕ in sorghum and maize through the nonsteady-state condition of photosynthetic induction. In both species, ϕ showed a transient increase to > 0.35 before declining to a steady state of 0.2 by 1500 s after illumination. Average ϕ was 60% higher than at steady state over the first 600 s of induction and 30% higher over the first 1500 s. The transient increase in ϕ, which was consistent with model prediction, indicated that capacity to assimilate CO2 into the C3 cycle in the bundle sheath failed to keep pace with the rate of dicarboxylate delivery by the C4 cycle. Because nonsteady-state light conditions are the norm in field canopies, the results suggest that ϕ in these major crops in the field is significantly higher and energy conversion efficiency lower than previous measured values under steady-state conditions.
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Affiliation(s)
- Yu Wang
- The Carl R. Woese Institute for Genomic BiologyUniversity of Illinois Urbana‐Champaign1206 W Gregory DrUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Samantha S. Stutz
- The Carl R. Woese Institute for Genomic BiologyUniversity of Illinois Urbana‐Champaign1206 W Gregory DrUrbanaIL61801USA
| | - Carl J. Bernacchi
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- USDA‐ARS Global Change and Photosynthesis Research UnitUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Departments of Plant Biology and Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Ryan A. Boyd
- The Carl R. Woese Institute for Genomic BiologyUniversity of Illinois Urbana‐Champaign1206 W Gregory DrUrbanaIL61801USA
| | - Donald R. Ort
- The Carl R. Woese Institute for Genomic BiologyUniversity of Illinois Urbana‐Champaign1206 W Gregory DrUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Departments of Plant Biology and Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Stephen P. Long
- The Carl R. Woese Institute for Genomic BiologyUniversity of Illinois Urbana‐Champaign1206 W Gregory DrUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Departments of Plant Biology and Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Lancaster Environment CentreLancaster UniversityLancasterLA1 4YQUK
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11
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Acevedo-Siaca LG, Głowacka K, Driever SM, Salesse-Smith CE, Lugassi N, Granot D, Long SP, Kromdijk J. Guard-cell-targeted overexpression of Arabidopsis Hexokinase 1 can improve water use efficiency in field-grown tobacco plants. J Exp Bot 2022; 73:5745-5757. [PMID: 35595294 PMCID: PMC9467653 DOI: 10.1093/jxb/erac218] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/20/2021] [Accepted: 05/18/2022] [Indexed: 06/15/2023]
Abstract
Water deficit currently acts as one of the largest limiting factors for agricultural productivity worldwide. Additionally, limitation by water scarcity is projected to continue in the future with the further onset of effects of global climate change. As a result, it is critical to develop or breed for crops that have increased water use efficiency and that are more capable of coping with water scarce conditions. However, increased intrinsic water use efficiency (iWUE) typically brings a trade-off with CO2 assimilation as all gas exchange is mediated by stomata, through which CO2 enters the leaf while water vapor exits. Previously, promising results were shown using guard-cell-targeted overexpression of hexokinase to increase iWUE without incurring a penalty in photosynthetic rates or biomass production. Here, two homozygous transgenic tobacco (Nicotiana tabacum) lines expressing Arabidopsis Hexokinase 1 (AtHXK1) constitutively (35SHXK2 and 35SHXK5) and a line that had guard-cell-targeted overexpression of AtHXK1 (GCHXK2) were evaluated relative to wild type for traits related to photosynthesis and yield. In this study, iWUE was significantly higher in GCHXK2 compared with wild type without negatively impacting CO2 assimilation, although results were dependent upon leaf age and proximity of precipitation event to gas exchange measurement.
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Affiliation(s)
- Liana G Acevedo-Siaca
- International Maize and Wheat Improvement Center (CIMMYT), El Batan, Mexico
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Katarzyna Głowacka
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, USA
| | - Steven M Driever
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Coralie E Salesse-Smith
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Nitsan Lugassi
- Institute of Plant Sciences, Agricultural Research Organisation, The Volcani Center, Bet Dagan, Israel
| | - David Granot
- Institute of Plant Sciences, Agricultural Research Organisation, The Volcani Center, Bet Dagan, Israel
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster, UK
| | - Johannes Kromdijk
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Plant Sciences, University of Cambridge, Cambridge, UK
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12
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Taylor SH, Gonzalez-Escobar E, Page R, Parry MAJ, Long SP, Carmo-Silva E. Author Correction: Faster than expected Rubisco deactivation in shade reduces cowpea photosynthetic potential in variable light conditions. Nat Plants 2022; 8:1127. [PMID: 35995836 PMCID: PMC9477727 DOI: 10.1038/s41477-022-01243-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Affiliation(s)
- Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | | | - Rhiannon Page
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Martin A J Parry
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
- Departments of Plant Biology and of Crop Sciences, Carl R. Woese Institute of Genomic Biology, University of Illinois, Urbana, IL, USA
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13
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De Souza AP, Burgess SJ, Doran L, Hansen J, Manukyan L, Maryn N, Gotarkar D, Leonelli L, Niyogi KK, Long SP. Soybean photosynthesis and crop yield are improved by accelerating recovery from photoprotection. Science 2022; 377:851-854. [PMID: 35981033 DOI: 10.1126/science.adc9831] [Citation(s) in RCA: 56] [Impact Index Per Article: 28.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Crop leaves in full sunlight dissipate damaging excess absorbed light energy as heat. This protective dissipation continues after the leaf transitions to shade, reducing crop photosynthesis. A bioengineered acceleration of this adjustment increased photosynthetic efficiency and biomass in tobacco in the field. But could that also translate to increased yield in a food crop? Here we bioengineered the same change into soybean. In replicated field trials, photosynthetic efficiency in fluctuating light was higher and seed yield in five independent transformation events increased by up to 33%. Despite increased seed quantity, seed protein and oil content were unaltered. This validates increasing photosynthetic efficiency as a much needed strategy toward sustainably increasing crop yield in support of future global food security.
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Affiliation(s)
- Amanda P De Souza
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Steven J Burgess
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.,Department of Plant Biology, Morrill Hall, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Lynn Doran
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Jeffrey Hansen
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Lusya Manukyan
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Nina Maryn
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA
| | - Dhananjay Gotarkar
- Department of Plant Biology, Morrill Hall, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Lauriebeth Leonelli
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.,Department of Agricultural and Biological Engineering, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Krishna K Niyogi
- Howard Hughes Medical Institute, Department of Plant and Microbial Biology, University of California, Berkeley, CA, USA.,Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Stephen P Long
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.,Lancaster Environment Centre, Lancaster University, Lancaster, UK
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14
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Ruiz-Vera UM, Acevedo-Siaca LG, Brown KL, Afamefule C, Gherli H, Simkin AJ, Long SP, Lawson T, Raines CA. Field-grown ictB tobacco transformants show no difference in photosynthetic efficiency for biomass relative to the wild type. J Exp Bot 2022; 73:4897-4907. [PMID: 35561330 PMCID: PMC9366323 DOI: 10.1093/jxb/erac193] [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] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Accepted: 05/12/2022] [Indexed: 06/15/2023]
Abstract
In this study, four tobacco transformants overexpressing the inorganic carbon transporter B gene (ictB) were screened for photosynthetic performance relative to the wild type (WT) in field-based conditions. The WT and transgenic tobacco plants were evaluated for photosynthetic performance to determine the maximum rate of carboxylation (Vc, max), maximum rate of electron transport (Jmax), the photosynthetic compensation point (Γ*), quantum yield of PSII (ΦPSII), and mesophyll conductance (gm). Additionally, all plants were harvested to compare differences in above-ground biomass. Overall, transformants did not perform better than the WT on photosynthesis-, biomass-, and leaf composition-related traits. This is in contrast to previous studies that have suggested significant increases in photosynthesis and yield with the overexpression of ictB, although not widely evaluated under field conditions. These findings suggest that the benefit of ictB is not universal and may only be seen under certain growth conditions. While there is certainly still potential benefit to utilizing ictB in the future, further effort must be concentrated on understanding the underlying function of the gene and in which environmental conditions it offers the greatest benefit to crop performance. As it stands at present, it is possible that ictB overexpression may be largely favorable in controlled environments, such as greenhouses.
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Affiliation(s)
- Ursula M Ruiz-Vera
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Drive, Urbana, IL, USA
- Bayer CropScience LLC, Bayer Marana Greenhouse, 9475 N Sanders Rd, Tucson, AZ, USA
| | - Liana G Acevedo-Siaca
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Drive, Urbana, IL, USA
- International Maize and Wheat Improvement Center (CIMMYT), México-Veracruz, El Batán Km. 45, Mexico
| | - Kenny L Brown
- School of Life Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK
- N2 Applied AS, Hagaløkkveien 7, 1383 Asker, Norway
| | - Chidi Afamefule
- School of Life Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Hussein Gherli
- School of Life Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Andrew J Simkin
- School of Biosciences, University of Kent, Canterbury CT2 7NJ, UK
- Crop Science and Production Systems, NIAB-EMR, New Road, East Malling, Kent, UK
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Drive, Urbana, IL, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster, UK
| | - Tracy Lawson
- School of Life Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Christine A Raines
- School of Life Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK
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15
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Long SP, Taylor SH, Burgess SJ, Carmo-Silva E, Lawson T, De Souza AP, Leonelli L, Wang Y. Into the Shadows and Back into Sunlight: Photosynthesis in Fluctuating Light. Annu Rev Plant Biol 2022; 73:617-648. [PMID: 35595290 DOI: 10.1146/annurev-arplant-070221-024745] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [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] [Indexed: 06/15/2023]
Abstract
Photosynthesis is an important remaining opportunity for further improvement in the genetic yield potential of our major crops. Measurement, analysis, and improvement of leaf CO2 assimilation (A) have focused largely on photosynthetic rates under light-saturated steady-state conditions. However, in modern crop canopies of several leaf layers, light is rarely constant, and the majority of leaves experience marked light fluctuations throughout the day. It takes several minutes for photosynthesis to regain efficiency in both sun-shade and shade-sun transitions, costing a calculated 10-40% of potential crop CO2 assimilation. Transgenic manipulations to accelerate the adjustment in sun-shade transitions have already shown a substantial productivity increase in field trials. Here, we explore means to further accelerate these adjustments and minimize these losses through transgenic manipulation, gene editing, and exploitation of natural variation. Measurement andanalysis of photosynthesis in sun-shade and shade-sun transitions are explained. Factors limiting speeds of adjustment and how they could be modified to effect improved efficiency are reviewed, specifically nonphotochemical quenching (NPQ), Rubisco activation, and stomatal responses.
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Affiliation(s)
- Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;
- Departments of Plant Biology and Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, United Kingdom
| | - Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Lancaster, United Kingdom
| | - Steven J Burgess
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;
| | | | - Tracy Lawson
- School of Life Sciences, University of Essex, Colchester, United Kingdom
| | - Amanda P De Souza
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;
| | - Lauriebeth Leonelli
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;
- Department of Agricultural and Biological Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA
| | - Yu Wang
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;
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16
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Taylor SH, Gonzalez-Escobar E, Page R, Parry MAJ, Long SP, Carmo-Silva E. Faster than expected Rubisco deactivation in shade reduces cowpea photosynthetic potential in variable light conditions. Nat Plants 2022; 8:118-124. [PMID: 35058608 PMCID: PMC8863576 DOI: 10.1038/s41477-021-01068-9] [Citation(s) in RCA: 5] [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: 11/20/2020] [Accepted: 11/25/2021] [Indexed: 05/12/2023]
Abstract
Cowpea is the major source of vegetable protein for rural populations in sub-Saharan Africa and average yields are not keeping pace with population growth. Each day, crop leaves experience many shade events and the speed of photosynthetic adjustment to this dynamic environment strongly affects daily carbon gain. Rubisco activity is particularly important because it depends on the speed and extent of deactivation in shade and recovers slowly on return to sun. Here, direct biochemical measurements showed a much faster rate of Rubisco deactivation in cowpea than prior estimates inferred from dynamics of leaf gas exchange in other species1-3. Shade-induced deactivation was driven by decarbamylation, and half-times for both deactivation in shade and activation in saturating light were shorter than estimates from gas exchange (≤53% and 79%, respectively). Incorporating these half-times into a model of diurnal canopy photosynthesis predicted a 21% diurnal loss of productivity and suggests slowing Rubisco deactivation during shade is an unexploited opportunity for improving crop productivity.
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Affiliation(s)
- Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | | | - Rhiannon Page
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Martin A J Parry
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
- Departments of Plant Biology and of Crop Sciences, Carl R. Woese Institute of Genomic Biology, University of Illinois, Urbana, IL, USA
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17
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Shameer S, Wang Y, Bota P, Ratcliffe RG, Long SP, Sweetlove LJ. A hybrid kinetic and constraint-based model of leaf metabolism allows predictions of metabolic fluxes in different environments. Plant J 2022; 109:295-313. [PMID: 34699645 DOI: 10.1111/tpj.15551] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [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: 03/12/2021] [Revised: 10/08/2021] [Accepted: 10/20/2021] [Indexed: 06/13/2023]
Abstract
While flux balance analysis (FBA) provides a framework for predicting steady-state leaf metabolic network fluxes, it does not readily capture the response to environmental variables without being coupled to other modelling formulations. To address this, we coupled an FBA model of 903 reactions of soybean (Glycine max) leaf metabolism with e-photosynthesis, a dynamic model that captures the kinetics of 126 reactions of photosynthesis and associated chloroplast carbon metabolism. Successful coupling was achieved in an iterative formulation in which fluxes from e-photosynthesis were used to constrain the FBA model and then, in turn, fluxes computed from the FBA model used to update parameters in e-photosynthesis. This process was repeated until common fluxes in the two models converged. Coupling did not hamper the ability of the kinetic module to accurately predict the carbon assimilation rate, photosystem II electron flux, and starch accumulation of field-grown soybean at two CO2 concentrations. The coupled model also allowed accurate predictions of additional parameters such as nocturnal respiration, as well as analysis of the effect of light intensity and elevated CO2 on leaf metabolism. Predictions included an unexpected decrease in the rate of export of sucrose from the leaf at high light, due to altered starch-sucrose partitioning, and altered daytime flux modes in the tricarboxylic acid cycle at elevated CO2 . Mitochondrial fluxes were notably different between growing and mature leaves, with greater anaplerotic, tricarboxylic acid cycle and mitochondrial ATP synthase fluxes predicted in the former, primarily to provide carbon skeletons and energy for protein synthesis.
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Affiliation(s)
- Sanu Shameer
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Yu Wang
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
| | - Pedro Bota
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - R George Ratcliffe
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Stephen P Long
- Carl R Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ, UK
| | - Lee J Sweetlove
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
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18
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Smith P, Beaumont L, Bernacchi CJ, Byrne M, Cheung W, Conant RT, Cotrufo F, Feng X, Janssens I, Jones H, Kirschbaum MUF, Kobayashi K, LaRoche J, Luo Y, McKechnie A, Penuelas J, Piao S, Robinson S, Sage RF, Sugget DJ, Thackeray SJ, Way D, Long SP. Essential outcomes for COP26. Glob Chang Biol 2022; 28:1-3. [PMID: 34697870 DOI: 10.1111/gcb.15926] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2021] [Accepted: 10/11/2021] [Indexed: 05/09/2023]
Affiliation(s)
- Pete Smith
- Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK
| | - Linda Beaumont
- Department of Biological Sciences, Macquarie University, New South Wales, Australia
| | - Carl J Bernacchi
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, Illinois, USA
- Global Change and Photosynthesis Research Unit, Agriculture Research Service of the United States Department of Agriculture (USDA), Urbana, Illinois, USA
- Departments of Plant Biology and of Crop Science, University of Illinois, Urbana, Illinois, USA
| | - Maria Byrne
- Schools of Medical and Biological Sciences, The University of Sydney, Sydney, New South Wales, Australia
| | - William Cheung
- Changing Ocean Research Unit, Institute for the Oceans and Fisheries, The University of British Columbia, Vancouver, British Columbia, Canada
| | | | | | - Xiaojuan Feng
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Ivan Janssens
- Research Group Plants and Ecosystems, University of Antwerp, Wilrijk, Belgium
| | - Hefin Jones
- Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | | | - Kazuhiko Kobayashi
- Graduate School of Agricultural and Life Sciences, The University of Tokyo, Tokyo, Japan
| | - Julie LaRoche
- Biology Department, Dalhousie University, Halifax, Nova Scotia, Canada
| | - Yiqi Luo
- Center for Ecosystem Science and Society (ECOSS), Department of Biological Sciences, Northern Arizona University, Flagstaff, Arizona, USA
| | - Andrew McKechnie
- South African Research Chair in Conservation Physiology, South African National Biodiversity Institute, Pretoria, South Africa
- Department of Zoology and Entomology, University of Pretoria, Pretoria, South Africa
| | - Josep Penuelas
- Global Ecology Unit CREAF-CSIC-UAB, CSIC, Barcelona, Catalonia, Spain
- CREAF, Campus Universitat Autònoma de Barcelona, Barcelona, Catalonia, Spain
| | - Shilong Piao
- Sino-French Institute for Earth System Science, College of Urban and Environmental Sciences, Peking University, Beijing, China
| | - Sharon Robinson
- Securing Antarctica's Environmental Future, Global Challenges Program & School of Earth, Atmospheric and Life Sciences, University of Wollongong, Wollongong, New South Wales, Australia
| | - Rowan F Sage
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
| | - David J Sugget
- Climate Change Cluster, Faculty of Science, University of Technology Sydney, Sydney, Australia
| | - Stephen J Thackeray
- Lake Ecosystems Group, UK Centre for Ecology & Hydrology, Bailrigg, Lancaster, UK
| | - Danielle Way
- Department of Biology, The University of Western Ontario, London, Ontario, Canada
- Division of Plant Sciences, Research School of Biology, The Australian National University, Canberra, Australian Capital Territory, Australia
- Environmental and Climate Sciences Department, Brookhaven National Laboratory, Upton, New York, USA
- Nicholas School of the Environment, Duke University, Durham, North Carolina, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, Illinois, USA
- Departments of Plant Biology and of Crop Science, University of Illinois, Urbana, Illinois, USA
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19
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Pignon CP, Fernandes SB, Valluru R, Bandillo N, Lozano R, Buckler E, Gore MA, Long SP, Brown PJ, Leakey ADB. Phenotyping stomatal closure by thermal imaging for GWAS and TWAS of water use efficiency-related genes. Plant Physiol 2021; 187:2544-2562. [PMID: 34618072 PMCID: PMC8644692 DOI: 10.1093/plphys/kiab395] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Accepted: 07/26/2021] [Indexed: 05/07/2023]
Abstract
Stomata allow CO2 uptake by leaves for photosynthetic assimilation at the cost of water vapor loss to the atmosphere. The opening and closing of stomata in response to fluctuations in light intensity regulate CO2 and water fluxes and are essential for maintaining water-use efficiency (WUE). However, a little is known about the genetic basis for natural variation in stomatal movement, especially in C4 crops. This is partly because the stomatal response to a change in light intensity is difficult to measure at the scale required for association studies. Here, we used high-throughput thermal imaging to bypass the phenotyping bottleneck and assess 10 traits describing stomatal conductance (gs) before, during and after a stepwise decrease in light intensity for a diversity panel of 659 sorghum (Sorghum bicolor) accessions. Results from thermal imaging significantly correlated with photosynthetic gas exchange measurements. gs traits varied substantially across the population and were moderately heritable (h2 up to 0.72). An integrated genome-wide and transcriptome-wide association study identified candidate genes putatively driving variation in stomatal conductance traits. Of the 239 unique candidate genes identified with the greatest confidence, 77 were putative orthologs of Arabidopsis (Arabidopsis thaliana) genes related to functions implicated in WUE, including stomatal opening/closing (24 genes), stomatal/epidermal cell development (35 genes), leaf/vasculature development (12 genes), or chlorophyll metabolism/photosynthesis (8 genes). These findings demonstrate an approach to finding genotype-to-phenotype relationships for a challenging trait as well as candidate genes for further investigation of the genetic basis of WUE in a model C4 grass for bioenergy, food, and forage production.
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Affiliation(s)
- Charles P Pignon
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Samuel B Fernandes
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Ravi Valluru
- Institute for Genomic Diversity, Cornell University, Ithaca, New York 14853, USA
- Lincoln Institute for Agri-Food Technology, University of Lincoln, Lincoln LN1 3QE, UK
| | - Nonoy Bandillo
- Institute for Genomic Diversity, Cornell University, Ithaca, New York 14853, USA
- Department of Plant Sciences, North Dakota State University, Fargo, North Dakota 58105, USA
| | - Roberto Lozano
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Edward Buckler
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
- United States Department of Agriculture, Agricultural Research Service (USDA-ARS) R.W. Holley Center for Agriculture and Health, Ithaca, New York 14853, USA
| | - Michael A Gore
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, New York 14853, USA
| | - Stephen P Long
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster LA1 1YX, UK
| | - Patrick J Brown
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
| | - Andrew D B Leakey
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, USA
- Institute for Genomic Diversity, Cornell University, Ithaca, New York 14853, USA
- Author for communication:
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20
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Fu P, Jaiswal D, McGrath JM, Wang S, Long SP, Bernacchi CJ. Drought imprints on crops can reduce yield loss: Nature's insights for food security. Food Energy Secur 2021; 11:e332. [PMID: 35846892 PMCID: PMC9285083 DOI: 10.1002/fes3.332] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [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: 05/12/2021] [Revised: 09/12/2021] [Accepted: 09/20/2021] [Indexed: 11/12/2022] Open
Abstract
The Midwestern “Corn‐Belt” in the United States is the most productive agricultural region on the planet despite being predominantly rainfed. In this region, global climate change is driving precipitation patterns toward wetter springs and drier mid‐ to late‐summers, a trend that is likely to intensify in the future. The lack of precipitation can lead to crop water limitations that ultimately impact growth and yields. Young plants exposed to water stress will often invest more resources into their root systems, possibly priming the crop for any subsequent mid‐ or late‐season drought. The trend toward wetter springs, however, suggests that opportunities for crop priming may lessen in the future. Here, we test the hypothesis that early season dry conditions lead to drought priming in field‐grown crops and this response will protect crops against growth and yield losses from late‐season droughts. This hypothesis was tested for the two major Midwestern crop, maize and soybean, using high‐resolution daily weather data, satellite‐derived phenological metrics, field yield data, and ecosystem‐scale model (Agricultural Production System Simulator) simulations. The results from this study showed that priming mitigated yield losses from a late season drought of up to 4.0% and 7.0% for maize and soybean compared with unprimed crops experiencing a late season drought. These results suggest that if the trend toward wet springs with drier summers continues, the relative impact of droughts on crop productivity is likely to worsen. Alternatively, identifying opportunities to breed or genetically modify pre‐primed crop species may provide improved resilience to future climate change.
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Affiliation(s)
- Peng Fu
- Carl R. Woese Institute for Genomic Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
- Departments of Plant Biology and Crop Sciences University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - Deepak Jaiswal
- Carl R. Woese Institute for Genomic Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - Justin M. McGrath
- USDA‐ARS Global Change and Photosynthesis Research Unit University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - Shaowen Wang
- Department of Geography and Geographic Information Science University of Illinois at Urbana‐Champaign Urbana Illinois USA
| | - Stephen P. Long
- Carl R. Woese Institute for Genomic Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
- Departments of Plant Biology and Crop Sciences University of Illinois at Urbana‐Champaign Urbana Illinois USA
- Lancaster Environment Centre Lancaster University Lancaster UK
| | - Carl J. Bernacchi
- Carl R. Woese Institute for Genomic Biology University of Illinois at Urbana‐Champaign Urbana Illinois USA
- Departments of Plant Biology and Crop Sciences University of Illinois at Urbana‐Champaign Urbana Illinois USA
- USDA‐ARS Global Change and Photosynthesis Research Unit University of Illinois at Urbana‐Champaign Urbana Illinois USA
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21
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Acevedo‐Siaca LG, Dionora J, Laza R, Paul Quick W, Long SP. Dynamics of photosynthetic induction and relaxation within the canopy of rice and two wild relatives. Food Energy Secur 2021; 10:e286. [PMID: 34594547 PMCID: PMC8459282 DOI: 10.1002/fes3.286] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2020] [Revised: 03/16/2021] [Accepted: 03/29/2021] [Indexed: 02/05/2023] Open
Abstract
Wild rice species are a source of genetic material for improving cultivated rice (Oryza sativa) and a means to understand its evolutionary history. Renewed interest in non-steady-state photosynthesis in crops has taken place due its potential in improving sustainable productivity. Variation was characterized for photosynthetic induction and relaxation at two leaf canopy levels in three rice species. The wild rice accessions had 16%-40% higher rates of leaf CO2 uptake (A) during photosynthetic induction relative to the O. sativa accession. However, O. sativa had an overall higher photosynthetic capacity when compared to accessions of its wild progenitors. Additionally, O. sativa had a faster stomatal closing response, resulting in higher intrinsic water-use efficiency during high-to-low light transitions. Leaf position in the canopy had a significant effect on non-steady-state photosynthesis, but not steady-state photosynthesis. The results show potential to utilize wild material to refine plant models and improve non-steady-state photosynthesis in cultivated rice for increased productivity.
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Affiliation(s)
- Liana G. Acevedo‐Siaca
- Department of Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Carl R. Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Global Wheat Program, International Maize and Wheat Improvement Center (CIMMYT)Mexico DFMexico
| | | | - Rebecca Laza
- C4 Rice CenterInternational Rice Research InstituteLos BañosPhilippines
| | - William Paul Quick
- C4 Rice CenterInternational Rice Research InstituteLos BañosPhilippines
- Department of Animal and Plant SciencesUniversity of SheffieldSheffieldUK
| | - Stephen P. Long
- Department of Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Carl R. Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Department of Plant BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Lancaster Environment CentreLancaster UniversityLancasterUK
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22
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Wolffe MC, Wild O, Long SP, Ashworth K. Temporal variability in the impacts of particulate matter on crop yields on the North China Plain. Sci Total Environ 2021; 776:145135. [PMID: 33652318 DOI: 10.1016/j.scitotenv.2021.145135] [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] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Revised: 12/22/2020] [Accepted: 01/09/2021] [Indexed: 06/12/2023]
Abstract
The North China Plain (NCP) is a major agricultural region, producing 45% of China's maize. It is also vital to the Chinese economy, encompassing the Beijing-Tianjin-Hebei megacity region. Anthropogenic factors increasingly impact crop yields on the NCP, and globally. Particulate matter (PM) pollution is a significant problem in this region, where annual average PM concentrations over three times the Chinese national air quality standard were recorded for the Beijing-Tianjin-Hebei megacity region between 2013 and 18. PM absorbs light, reducing total shortwave radiation (SW), thereby limiting plant productivity. However, PM also scatters incoming SW, increasing the diffuse fraction, which has been shown to increase growth and biomass assimilation. The Joint UK Land Environment Simulator (JULES) crop model was used to assess the net impact of these competing changes in light on NCP maize yields. In contrast to some previous analyses, we find that PM-associated decreases in SW outweigh any positive impact on yield from an increasing proportion of diffuse radiation. Furthermore, carbon allocation to different portions of the growing cropchanges during the development cycle. We find significant differences between the effect on final yield of identical changes to diffuse fraction and total SW occurring during different development stages. The greatest simulated yield gains from increased SW and reduced diffuse fraction, consistent with reductions in PM, are observed during the early reproductive stage of development (July-August), when the simulated gain of yield is as much as 12.9% more than in other periods. To further assess the impact of PM-linked changes in SW and diffuse fraction on NCP crop yields, radiation profiles from different city regions were then applied across the NCP. The changes in SW associated with these city regions could increase maize yields across China by ~8 Mt. This would completely offset China's annual maize imports, increasing both national and global food security.
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Affiliation(s)
- Michael C Wolffe
- Lancaster Environment Centre, Lancaster University, Bailrigg, Lancaster LA1 4YW, United Kingdom.
| | - Oliver Wild
- Lancaster Environment Centre, Lancaster University, Bailrigg, Lancaster LA1 4YW, United Kingdom
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Bailrigg, Lancaster LA1 4YW, United Kingdom; Crop Sciences and Plant Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Dr, Urbana, IL 61801, United States
| | - Kirsti Ashworth
- Lancaster Environment Centre, Lancaster University, Bailrigg, Lancaster LA1 4YW, United Kingdom
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23
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Wang Y, Chan KX, Long SP. Towards a dynamic photosynthesis model to guide yield improvement in C4 crops. Plant J 2021; 107:343-359. [PMID: 34087011 PMCID: PMC9291162 DOI: 10.1111/tpj.15365] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [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: 02/04/2021] [Revised: 05/19/2021] [Accepted: 05/22/2021] [Indexed: 05/22/2023]
Abstract
The most productive C4 food and biofuel crops, such as Saccharum officinarum (sugarcane), Sorghum bicolor (sorghum) and Zea mays (maize), all use NADP-ME-type C4 photosynthesis. Despite high productivities, these crops fall well short of the theoretical maximum solar conversion efficiency of 6%. Understanding the basis of these inefficiencies is key for bioengineering and breeding strategies to increase the sustainable productivity of these major C4 crops. Photosynthesis is studied predominantly at steady state in saturating light. In field stands of these crops light is continually changing, and often with rapid fluctuations. Although light may change in a second, the adjustment of photosynthesis may take many minutes, leading to inefficiencies. We measured the rates of CO2 uptake and stomatal conductance of maize, sorghum and sugarcane under fluctuating light regimes. The gas exchange results were combined with a new dynamic photosynthesis model to infer the limiting factors under non-steady-state conditions. The dynamic photosynthesis model was developed from an existing C4 metabolic model for maize and extended to include: (i) post-translational regulation of key photosynthetic enzymes and their temperature responses; (ii) dynamic stomatal conductance; and (iii) leaf energy balance. Testing the model outputs against measured rates of leaf CO2 uptake and stomatal conductance in the three C4 crops indicated that Rubisco activase, the pyruvate phosphate dikinase regulatory protein and stomatal conductance are the major limitations to the efficiency of NADP-ME-type C4 photosynthesis during dark-to-high light transitions. We propose that the level of influence of these limiting factors make them targets for bioengineering the improved photosynthetic efficiency of these key crops.
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Affiliation(s)
- Yu Wang
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Kher Xing Chan
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Stephen P. Long
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- DOE Center for Advanced Bioenergy and Bioproducts InnovationUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Departments of Plant Biology and of Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Lancaster Environment CentreLancaster UniversityLancasterLA1 4YQUK
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24
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Jaikumar NS, Stutz SS, Fernandes SB, Leakey ADB, Bernacchi CJ, Brown PJ, Long SP. Can improved canopy light transmission ameliorate loss of photosynthetic efficiency in the shade? An investigation of natural variation in Sorghum bicolor. J Exp Bot 2021; 72:4965-4980. [PMID: 33914063 PMCID: PMC8219039 DOI: 10.1093/jxb/erab176] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [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: 11/15/2020] [Accepted: 04/28/2021] [Indexed: 05/29/2023]
Abstract
Previous studies have found that maximum quantum yield of CO2 assimilation (Φ CO2,max,app) declines in lower canopies of maize and miscanthus, a maladaptive response to self-shading. These observations were limited to single genotypes, leaving it unclear whether the maladaptive shade response is a general property of this C4 grass tribe, the Andropogoneae. We explored the generality of this maladaptation by testing the hypothesis that erect leaf forms (erectophiles), which allow more light into the lower canopy, suffer less of a decline in photosynthetic efficiency than drooping leaf (planophile) forms. On average, Φ CO2,max,app declined 27% in lower canopy leaves across 35 accessions, but the decline was over twice as great in planophiles than in erectophiles. The loss of photosynthetic efficiency involved a decoupling between electron transport and assimilation. This was not associated with increased bundle sheath leakage, based on 13C measurements. In both planophiles and erectophiles, shaded leaves had greater leaf absorptivity and lower activities of key C4 enzymes than sun leaves. The erectophile form is considered more productive because it allows a more effective distribution of light through the canopy to support photosynthesis. We show that in sorghum, it provides a second benefit, maintenance of higher Φ CO2,max,app to support efficient use of that light resource.
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Affiliation(s)
- Nikhil S Jaikumar
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Samantha S Stutz
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Samuel B Fernandes
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Andrew D B Leakey
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Carl J Bernacchi
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- USDA ARS Global Change and Photosynthesis Research Unit, Urbana, IL 61801, USA
| | - Patrick J Brown
- Department of Plant Sciences, University of California at Davis, Davis, CA 95616, USA
| | - Stephen P Long
- Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster LA1 4YQ, UK
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25
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Horton P, Long SP, Smith P, Banwart SA, Beerling DJ. Technologies to deliver food and climate security through agriculture. Nat Plants 2021; 7:250-255. [PMID: 33731918 DOI: 10.1038/s41477-021-00877-2] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2020] [Accepted: 02/08/2021] [Indexed: 06/12/2023]
Abstract
Agriculture is a major contributor to environmental degradation and climate change. At the same time, a growing human population with changing dietary preferences is driving ever increasing demand for food. The need for urgent reform of agriculture is widely recognized and has resulted in a number of ambitious plans. However, there is credible evidence to suggest that these are unlikely to meet the twin objectives of keeping the increase in global temperature within the target of 2.0 °C above preindustrial levels set out in the Paris Agreement and delivering global food security. Here, we discuss a series of technological options to bring about change in agriculture for delivering food security and providing multiple routes to the removal of CO2 from the atmosphere. These technologies include the use of silicate amendment of soils to sequester atmospheric CO2, agronomy technologies to increase soil organic carbon, and high-yielding resource-efficient crops to deliver increased agricultural yield, thus freeing land that is less suited for intensive cropping for land use practices that will further increase carbon storage. Such alternatives include less intensive regenerative agriculture, afforestation and bioenergy crops coupled with carbon capture and storage technologies.
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Affiliation(s)
- Peter Horton
- Department of Molecular Biology and Biotechnology, University of Sheffield, Sheffield, UK
| | - Stephen P Long
- Carl R. Woese Institute of Genomic Biology, University of Illinois, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Bailrigg, UK
| | - Pete Smith
- Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, UK
| | - Steven A Banwart
- Global Food and Environment Institute, School of Earth and Environment, University of Leeds, Leeds, UK
| | - David J Beerling
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK.
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26
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Acevedo-Siaca LG, Coe R, Quick WP, Long SP. Variation between rice accessions in photosynthetic induction in flag leaves and underlying mechanisms. J Exp Bot 2021; 72:1282-1294. [PMID: 33159790 PMCID: PMC7904153 DOI: 10.1093/jxb/eraa520] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [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: 07/07/2020] [Accepted: 11/10/2020] [Indexed: 05/03/2023]
Abstract
Several breeding initiatives have sought to improve flag leaf performance as its health and physiology are closely correlated to rice yield. Previous studies have described natural variation of photosynthesis for flag leaves; however, none has examined their performance under the non-steady-state conditions that prevail in crop fields. Photosynthetic induction is the transient response of photosynthesis to a change from low to high light. Rice flag leaf photosynthesis was measured in both steady- and non-steady-state conditions to characterize natural variation. Between the lowest and highest performing accession, there was a 152% difference for average CO2 assimilation during induction (Ā300), a 77% difference for average intrinsic water use efficiency during induction (iWUEavg), and a 185% difference for the speed of induction (IT50), indicating plentiful variation. No significant correlation was found between steady- and non-steady-state photosynthetic traits. Additionally, measures of neither steady-state nor non-steady-state photosynthesis of flag leaves correlated with the same measures of leaves in the vegetative growth stage, with the exception of iWUEavg. Photosynthetic induction was measured at six [CO2], to determine biochemical and diffusive limitations to photosynthesis in vivo. Photosynthetic induction in rice flag leaves was limited primarily by biochemistry.
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Affiliation(s)
- Liana G Acevedo-Siaca
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Robert Coe
- High Resolution Plant Phenomics Centre, Commonwealth Scientific and Industrial Research Organization (CSIRO), Plant Industry, Canberra, Australia
| | - W Paul Quick
- C4 Rice Center, International Rice Research Institute, Los Baños, Laguna, Philippines
- Department of Animal and Plant Sciences, University of Sheffield, Western Bank, Sheffield, UK
| | - Stephen P Long
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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27
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Pignon CP, Leakey ADB, Long SP, Kromdijk J. Drivers of Natural Variation in Water-Use Efficiency Under Fluctuating Light Are Promising Targets for Improvement in Sorghum. Front Plant Sci 2021; 12:627432. [PMID: 33597965 PMCID: PMC7882533 DOI: 10.3389/fpls.2021.627432] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2020] [Accepted: 01/05/2021] [Indexed: 05/20/2023]
Abstract
Improving leaf intrinsic water-use efficiency (iWUE), the ratio of photosynthetic CO2 assimilation to stomatal conductance, could decrease crop freshwater consumption. iWUE has primarily been studied under steady-state light, but light in crop stands rapidly fluctuates. Leaf responses to these fluctuations substantially affect overall plant performance. Notably, photosynthesis responds faster than stomata to decreases in light intensity: this desynchronization results in substantial loss of iWUE. Traits that could improve iWUE under fluctuating light, such as faster stomatal movement to better synchronize stomata with photosynthesis, show significant natural diversity in C3 species. However, C4 crops have been less closely investigated. Additionally, while modification of photosynthetic or stomatal traits independent of one another will theoretically have a proportionate effect on iWUE, in reality these traits are inter-dependent. It is unclear how interactions between photosynthesis and stomata affect natural diversity in iWUE, and whether some traits are more tractable drivers to improve iWUE. Here, measurements of photosynthesis, stomatal conductance and iWUE under steady-state and fluctuating light, along with stomatal patterning, were obtained in 18 field-grown accessions of the C4 crop sorghum. These traits showed significant natural diversity but were highly correlated, with important implications for improvement of iWUE. Some features, such as gradual responses of photosynthesis to decreases in light, appeared promising for improvement of iWUE. Other traits showed tradeoffs that negated benefits to iWUE, e.g., accessions with faster stomatal responses to decreases in light, expected to benefit iWUE, also displayed more abrupt losses in photosynthesis, resulting in overall lower iWUE. Genetic engineering might be needed to break these natural tradeoffs and achieve optimal trait combinations, e.g., leaves with fewer, smaller stomata, more sensitive to changes in photosynthesis. Traits describing iWUE at steady-state, and the change in iWUE following decreases in light, were important contributors to overall iWUE under fluctuating light.
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Affiliation(s)
- Charles P. Pignon
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Andrew D. B. Leakey
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- *Correspondence: Andrew D. B. Leakey,
| | - Stephen P. Long
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Lancaster Environment Centre, Lancaster University, Lancaster, United Kingdom
| | - Johannes Kromdijk
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
- Department of Plant Sciences, University of Cambridge, Cambridge, United Kingdom
- Johannes Kromdijk, ;
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Ainsworth EA, Long SP. 30 years of free-air carbon dioxide enrichment (FACE): What have we learned about future crop productivity and its potential for adaptation? Glob Chang Biol 2021; 27:27-49. [PMID: 33135850 DOI: 10.1111/gcb.15375] [Citation(s) in RCA: 115] [Impact Index Per Article: 38.3] [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: 06/04/2020] [Revised: 09/17/2020] [Accepted: 09/22/2020] [Indexed: 05/03/2023]
Abstract
Free-air CO2 enrichment (FACE) allows open-air elevation of [CO2 ] without altering the microclimate. Its scale uniquely supports simultaneous study from physiology and yield to soil processes and disease. In 2005 we summarized results of then 28 published observations by meta-analysis. Subsequent studies have combined FACE with temperature, drought, ozone, and nitrogen treatments. Here, we summarize the results of now almost 250 observations, spanning 14 sites and five continents. Across 186 independent studies of 18 C3 crops, elevation of [CO2 ] by ca. 200 ppm caused a ca. 18% increase in yield under non-stress conditions. Legumes and root crops showed a greater increase and cereals less. Nitrogen deficiency reduced the average increase to 10%, as did warming by ca. 2°C. Two conclusions of the 2005 analysis were that C4 crops would not be more productive in elevated [CO2 ], except under drought, and that yield responses of C3 crops were diminished by nitrogen deficiency and wet conditions. Both stand the test of time. Further studies of maize and sorghum showed no yield increase, except in drought, while soybean productivity was negatively affected by early growing season wet conditions. Subsequent study showed reduced levels of nutrients, notably Zn and Fe in most crops, and lower nitrogen and protein in the seeds of non-leguminous crops. Testing across crop germplasm revealed sufficient variation to maintain nutrient content under rising [CO2 ]. A strong correlation of yield response under elevated [CO2 ] to genetic yield potential in both rice and soybean was observed. Rice cultivars with the highest yield potential showed a 35% yield increase in elevated [CO2 ] compared to an average of 14%. Future FACE experiments have the potential to develop cultivars and management strategies for co-promoting sustainability and productivity under future elevated [CO2 ].
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Affiliation(s)
- Elizabeth A Ainsworth
- USDA ARS Global Change and Photosynthesis Research Unit, Urbana, IL, USA
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Stephen P Long
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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29
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Taylor SH, Orr DJ, Carmo-Silva E, Long SP. During photosynthetic induction, biochemical and stomatal limitations differ between Brassica crops. Plant Cell Environ 2020; 43:2623-2636. [PMID: 32740963 DOI: 10.1111/pce.13862] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [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: 04/04/2020] [Revised: 07/28/2020] [Accepted: 07/28/2020] [Indexed: 06/11/2023]
Abstract
Interventions to increase crop radiation use efficiency rely on understanding of how biochemical and stomatal limitations affect photosynthesis. When leaves transition from shade to high light, slow increases in maximum Rubisco carboxylation rate and stomatal conductance limit net CO2 assimilation for several minutes. However, as stomata open intercellular [CO2 ] increases, so electron transport rate could also become limiting. Photosynthetic limitations were evaluated in three important Brassica crops: Brassica rapa, Brassica oleracea and Brassica napus. Measurements of induction after a period of shade showed that net CO2 assimilation by B. rapa and B. napus saturated by 10 min. A new method of analyzing limitations to induction by varying intercellular [CO2 ] showed this was due to co-limitation by Rubisco and electron transport. By contrast, in B. oleracea persistent Rubisco limitation meant that CO2 assimilation was still recovering 15 min after induction. Correspondingly, B. oleracea had the lowest Rubisco total activity. The methodology developed, and its application here, shows a means to identify the basis of variation in photosynthetic efficiency in fluctuating light, which could be exploited in breeding and bioengineering to improve crop productivity.
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Affiliation(s)
- Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Douglas J Orr
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | | | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
- Departments of Plant Biology and of Crop Sciences, Carl R. Woese Institute of Genomic Biology, University of Illinois, Urbana, Illinois, USA
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30
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Pignon CP, Long SP. Retrospective analysis of biochemical limitations to photosynthesis in 49 species: C 4 crops appear still adapted to pre-industrial atmospheric [CO 2 ]. Plant Cell Environ 2020; 43:2606-2622. [PMID: 32743797 DOI: 10.1111/pce.13863] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [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: 02/02/2020] [Revised: 06/23/2020] [Accepted: 07/24/2020] [Indexed: 06/11/2023]
Abstract
Leaf CO2 uptake (A) in C4 photosynthesis is limited by the maximum apparent rate of PEPc carboxylation (Vpmax ) at low intercellular [CO2 ] (ci ) with a sharp transition to a ci -saturated rate (Vmax ) due to co-limitation by ribulose-1:5-bisphosphate carboxylase/oxygenase (Rubisco) and regeneration of PEP. The response of A to ci has been widely used to determine these two parameters. Vmax and Vpmax depend on different enzymes but draw on a shared pool of leaf resources, such that resource distribution is optimized, and A maximized, when Vmax and Vpmax are co-limiting. We collected published A/ci curves in 49 C4 species and assessed variation in photosynthetic traits between phylogenetic groups, and as a function of atmospheric [CO2 ]. The balance of Vmax -Vpmax varied among evolutionary lineages and C4 subtypes. Operating A was strongly Vmax -limited, such that re-allocation of resources from Vpmax towards Vmax was predicted to improve A by 12% in C4 crops. This would not require additional inputs but rather altered partitioning of existing leaf nutrients, resulting in increased water and nutrient-use efficiency. Optimal partitioning was achieved only in plants grown at pre-industrial atmospheric [CO2 ], suggesting C4 crops have not adjusted to the rapid increase in atmospheric [CO2 ] of the past few decades.
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Affiliation(s)
- Charles P Pignon
- Carl Woese Institute for Genomic Biology and Departments of Crop Sciences and Plant Biology, University of Illinois, Urbana, Illinois, USA
| | - Stephen P Long
- Carl Woese Institute for Genomic Biology and Departments of Crop Sciences and Plant Biology, University of Illinois, Urbana, Illinois, USA
- Lancaster Environment Centre, University of Lancaster, UK
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31
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Field JL, Richard TL, Smithwick EAH, Cai H, Laser MS, LeBauer DS, Long SP, Paustian K, Qin Z, Sheehan JJ, Smith P, Wang MQ, Lynd LR. Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels. Proc Natl Acad Sci U S A 2020; 117:21968-21977. [PMID: 32839342 PMCID: PMC7486778 DOI: 10.1073/pnas.1920877117] [Citation(s) in RCA: 67] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Biofuel and bioenergy systems are integral to most climate stabilization scenarios for displacement of transport sector fossil fuel use and for producing negative emissions via carbon capture and storage (CCS). However, the net greenhouse gas mitigation benefit of such pathways is controversial due to concerns around ecosystem carbon losses from land use change and foregone sequestration benefits from alternative land uses. Here, we couple bottom-up ecosystem simulation with models of cellulosic biofuel production and CCS in order to track ecosystem and supply chain carbon flows for current and future biofuel systems, with comparison to competing land-based biological mitigation schemes. Analyzing three contrasting US case study sites, we show that on land transitioning out of crops or pasture, switchgrass cultivation for cellulosic ethanol production has per-hectare mitigation potential comparable to reforestation and severalfold greater than grassland restoration. In contrast, harvesting and converting existing secondary forest at those sites incurs large initial carbon debt requiring long payback periods. We also highlight how plausible future improvements in energy crop yields and biorefining technology together with CCS would achieve mitigation potential 4 and 15 times greater than forest and grassland restoration, respectively. Finally, we show that recent estimates of induced land use change are small relative to the opportunities for improving system performance that we quantify here. While climate and other ecosystem service benefits cannot be taken for granted from cellulosic biofuel deployment, our scenarios illustrate how conventional and carbon-negative biofuel systems could make a near-term, robust, and distinctive contribution to the climate challenge.
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Affiliation(s)
- John L Field
- Natural Resource Ecology Laboratory, Colorado State University, Fort Collins, CO 80523;
| | - Tom L Richard
- Department of Agricultural and Biological Engineering, The Pennsylvania State University, University Park, PA 16802
| | - Erica A H Smithwick
- Department of Geography, The Pennsylvania State University, University Park, PA 16802
- Earth and Environmental Systems Institute, The Pennsylvania State University, University Park, PA 16802
| | - Hao Cai
- Energy Systems Division, Argonne National Laboratory, Lemont, IL 60439
| | - Mark S Laser
- Thayer School of Engineering, Dartmouth College, Hanover, NH 03755
| | - David S LeBauer
- Arizona Experiment Station, University of Arizona, Tucson, AZ 85721
| | - Stephen P Long
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801
- Lancaster Environment Centre, Lancaster University, LA1 4YQ Lancaster, United Kingdom
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801
| | - Keith Paustian
- Natural Resource Ecology Laboratory, Colorado State University, Fort Collins, CO 80523
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO 80523
| | - Zhangcai Qin
- Earth and Environmental Systems Institute, The Pennsylvania State University, University Park, PA 16802
- School of Atmospheric Sciences, Guangdong Province Key Laboratory for Climate Change and Natural Disaster Studies, Sun Yat-sen University, Guangzhou 510245, China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Zhuhai 519082, China
| | - John J Sheehan
- School of Agricultural Engineering, University of Campinas, Campinas, SP 13083-875, Brazil
- Department of Chemical and Biological Engineering, Colorado State University, Fort Collins, CO 80523
| | - Pete Smith
- Institute of Biological and Environmental Sciences, University of Aberdeen, AB24 3UU Aberdeen, United Kingdom
| | - Michael Q Wang
- Energy Systems Division, Argonne National Laboratory, Lemont, IL 60439
| | - Lee R Lynd
- Thayer School of Engineering, Dartmouth College, Hanover, NH 03755
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Acevedo‐Siaca LG, Coe R, Wang Y, Kromdijk J, Quick WP, Long SP. Variation in photosynthetic induction between rice accessions and its potential for improving productivity. New Phytol 2020; 227:1097-1108. [PMID: 32124982 PMCID: PMC7383871 DOI: 10.1111/nph.16454] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [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: 10/25/2019] [Accepted: 01/13/2020] [Indexed: 05/18/2023]
Abstract
Photosynthetic induction describes the transient increase in leaf CO2 uptake with an increase in light. During induction, efficiency is lower than at steady state. Under field conditions of fluctuating light, this lower efficiency during induction may cost > 20% of potential crop assimilation. Accelerating induction would boost photosynthetic and resource-use efficiencies. Variation between rice accessions and potential for accelerating induction was analysed by gas exchange. Induction during shade to sun transitions of 14 accessions representing five subpopulations from the 3000 Rice Genome Project Panel (3K RGP) was analysed. Differences of 109% occurred in the CO2 fixed during the first 300 s of induction, 117% in the half-time to completion of induction, and 65% in intrinsic water-use efficiency during induction, between the highest and lowest performing accessions. Induction in three accessions with contrasting responses (AUS 278, NCS 771 A and IR64-21) was compared for a range of [CO2 ] to analyse limitations. This showed in vivo capacity for carboxylation at Rubisco (Vc,max ), and not stomata, as the primary limitation to induction, with significant differences between accessions. Variation in nonsteady-state efficiency greatly exceeded that at steady state, suggesting a new and more promising opportunity for selection of greater crop photosynthetic efficiency in this key food crop.
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Affiliation(s)
| | - Robert Coe
- C4 Rice CenterInternational Rice Research InstituteLos BañosLaguna4031Philippines
- High Resolution Plant Phenomics CentreCommonwealth Scientific and Industrial Research Organization (CSIRO)Plant IndustryCanberraACT2601Australia
| | - Yu Wang
- Carl R. Woese Institute for Genomic BiologyUniversity of Illinois at Urbana–ChampaignUrbanaIL61801USA
| | - Johannes Kromdijk
- Carl R. Woese Institute for Genomic BiologyUniversity of Illinois at Urbana–ChampaignUrbanaIL61801USA
- Department of Plant SciencesUniversity of CambridgeCambridgeCB2 3EAUK
| | - W. Paul Quick
- C4 Rice CenterInternational Rice Research InstituteLos BañosLaguna4031Philippines
- Department of Animal and Plant SciencesUniversity of SheffieldWestern BankSheffieldS10 2TNUK
| | - Stephen P. Long
- Department of Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Carl R. Woese Institute for Genomic BiologyUniversity of Illinois at Urbana–ChampaignUrbanaIL61801USA
- Department of Plant BiologyUniversity of Illinois at Urbana–ChampaignUrbanaIL61801USA
- Lancaster Environment CentreLancaster UniversityLancasterLA1 4YQUK
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33
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Olatoye MO, Clark LV, Labonte NR, Dong H, Dwiyanti MS, Anzoua KG, Brummer JE, Ghimire BK, Dzyubenko E, Dzyubenko N, Bagmet L, Sabitov A, Chebukin P, Głowacka K, Heo K, Jin X, Nagano H, Peng J, Yu CY, Yoo JH, Zhao H, Long SP, Yamada T, Sacks EJ, Lipka AE. Training Population Optimization for Genomic Selection in Miscanthus. G3 (Bethesda) 2020; 10:2465-2476. [PMID: 32457095 PMCID: PMC7341128 DOI: 10.1534/g3.120.401402] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [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] [Subscribe] [Scholar Register] [Received: 02/27/2020] [Accepted: 05/20/2020] [Indexed: 01/08/2023]
Abstract
Miscanthus is a perennial grass with potential for lignocellulosic ethanol production. To ensure its utility for this purpose, breeding efforts should focus on increasing genetic diversity of the nothospecies Miscanthus × giganteus (M×g) beyond the single clone used in many programs. Germplasm from the corresponding parental species M. sinensis (Msi) and M. sacchariflorus (Msa) could theoretically be used as training sets for genomic prediction of M×g clones with optimal genomic estimated breeding values for biofuel traits. To this end, we first showed that subpopulation structure makes a substantial contribution to the genomic selection (GS) prediction accuracies within a 538-member diversity panel of predominately Msi individuals and a 598-member diversity panels of Msa individuals. We then assessed the ability of these two diversity panels to train GS models that predict breeding values in an interspecific diploid 216-member M×g F2 panel. Low and negative prediction accuracies were observed when various subsets of the two diversity panels were used to train these GS models. To overcome the drawback of having only one interspecific M×g F2 panel available, we also evaluated prediction accuracies for traits simulated in 50 simulated interspecific M×g F2 panels derived from different sets of Msi and diploid Msa parents. The results revealed that genetic architectures with common causal mutations across Msi and Msa yielded the highest prediction accuracies. Ultimately, these results suggest that the ideal training set should contain the same causal mutations segregating within interspecific M×g populations, and thus efforts should be undertaken to ensure that individuals in the training and validation sets are as closely related as possible.
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Affiliation(s)
| | | | | | - Hongxu Dong
- Plant Genome Mapping Laboratory, University of Georgia, 111 Riverbend Road, Athens, GA 30605
| | - Maria S Dwiyanti
- Applied Plant Genome Laboratory, Research Faculty of Agriculture, Hokkaido University, Japan
| | - Kossonou G Anzoua
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Joe E Brummer
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, CO 80523
| | - Bimal K Ghimire
- Department of Applied Bioscience, Konkuk University, Seoul 05029, South Korea
| | - Elena Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, 42-44 Bolshaya Morskaya Street, 190000 St. Petersburg, Russia
| | - Nikolay Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, 42-44 Bolshaya Morskaya Street, 190000 St. Petersburg, Russia
| | - Larisa Bagmet
- Vavilov All-Russian Institute of Plant Genetic Resources, 42-44 Bolshaya Morskaya Street, 190000 St. Petersburg, Russia
| | - Andrey Sabitov
- Vavilov All-Russian Institute of Plant Genetic Resources, 42-44 Bolshaya Morskaya Street, 190000 St. Petersburg, Russia
| | - Pavel Chebukin
- Vavilov All-Russian Institute of Plant Genetic Resources, 42-44 Bolshaya Morskaya Street, 190000 St. Petersburg, Russia
| | | | - Kweon Heo
- Department of Applied Plant Science, Kangwon National University, Chuncheon 24341, South Korea
| | - Xiaoli Jin
- Department of Agronomy, Zhejiang University, Hangzhou 310058, China
| | - Hironori Nagano
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Junhua Peng
- China National Seed Group Co. Ltd, Wuhan, Hubei 430040, China
| | - Chang Y Yu
- Department of Applied Plant Sciences, Kangwon National University, Chuncheon, Gangwon 200-701, South Korea
| | - Ji H Yoo
- Department of Applied Plant Sciences, Kangwon National University, Chuncheon, Gangwon 200-701, South Korea
| | - Hua Zhao
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, Hubei 430070, China
| | - Stephen P Long
- Dept. of Crop Sciences, University of Illinois, Urbana, IL
| | - Toshihiko Yamada
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan
| | - Erik J Sacks
- Dept. of Crop Sciences, University of Illinois, Urbana, IL
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Benes B, Guan K, Lang M, Long SP, Lynch JP, Marshall-Colón A, Peng B, Schnable J, Sweetlove LJ, Turk MJ. Multiscale computational models can guide experimentation and targeted measurements for crop improvement. Plant J 2020; 103:21-31. [PMID: 32053236 DOI: 10.1111/tpj.14722] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [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: 10/21/2019] [Accepted: 01/23/2020] [Indexed: 05/18/2023]
Abstract
Computational models of plants have identified gaps in our understanding of biological systems, and have revealed ways to optimize cellular processes or organ-level architecture to increase productivity. Thus, computational models are learning tools that help direct experimentation and measurements. Models are simplifications of complex systems, and often simulate specific processes at single scales (e.g. temporal, spatial, organizational, etc.). Consequently, single-scale models are unable to capture the critical cross-scale interactions that result in emergent properties of the system. In this perspective article, we contend that to accurately predict how a plant will respond in an untested environment, it is necessary to integrate mathematical models across biological scales. Computationally mimicking the flow of biological information from the genome to the phenome is an important step in discovering new experimental strategies to improve crops. A key challenge is to connect models across biological, temporal and computational (e.g. CPU versus GPU) scales, and then to visualize and interpret integrated model outputs. We address this challenge by describing the efforts of the international Crops in silico consortium.
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Affiliation(s)
- Bedrich Benes
- Computer Graphics Technology and Computer Science, Purdue University, Knoy Hall of Technology, West Lafayette, IN, 47906, USA
| | - Kaiyu Guan
- College of Agricultural, Consumer and Environmental Sciences, University of Illinois at Urbana Champaign, Urbana, IL, USA
- National Center of Supercomputing Applications, University of Illinois at Urbana Champaign, Urbana, IL, USA
- Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana Champaign, Urbana, IL, USA
| | - Meagan Lang
- National Center of Supercomputing Applications, University of Illinois at Urbana Champaign, Urbana, IL, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster, LA1 1YX, UK
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, PA, 16802, USA
- School of Biosciences, University of Nottingham, Sutton Bonington, Leicestershire, LE12 5RD, UK
| | - Amy Marshall-Colón
- National Center of Supercomputing Applications, University of Illinois at Urbana Champaign, Urbana, IL, USA
- Center for Advanced Bioenergy and Bioproducts Innovation, University of Illinois at Urbana Champaign, Urbana, IL, USA
- Department of Plant Biology, University of Illinois Urbana-Champaign, 265 Morrill Hall, MC-116, 505 South Goodwin Ave., Urbana, IL, 61801, USA
| | - Bin Peng
- College of Agricultural, Consumer and Environmental Sciences, University of Illinois at Urbana Champaign, Urbana, IL, USA
- National Center of Supercomputing Applications, University of Illinois at Urbana Champaign, Urbana, IL, USA
| | - James Schnable
- Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, 68583, USA
| | - Lee J Sweetlove
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Matthew J Turk
- National Center of Supercomputing Applications, University of Illinois at Urbana Champaign, Urbana, IL, USA
- School of Information Sciences, University of Illinois, Urbana-Champaign, Urbana, IL, USA
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De Souza AP, Wang Y, Orr DJ, Carmo-Silva E, Long SP. Photosynthesis across African cassava germplasm is limited by Rubisco and mesophyll conductance at steady state, but by stomatal conductance in fluctuating light. New Phytol 2020; 225:2498-2512. [PMID: 31446639 PMCID: PMC7065220 DOI: 10.1111/nph.16142] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [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: 04/24/2019] [Accepted: 08/15/2019] [Indexed: 05/18/2023]
Abstract
Sub-Saharan Africa is projected to see a 55% increase in food demand by 2035, where cassava (Manihot esculenta) is the most widely planted crop and a major calorie source. Yet, cassava yield in this region has not increased significantly for 13 yr. Improvement of genetic yield potential, the basis of the first Green Revolution, could be realized by improving photosynthetic efficiency. First, the factors limiting photosynthesis and their genetic variability within extant germplasm must be understood. Biochemical and diffusive limitations to leaf photosynthetic CO2 uptake under steady state and fluctuating light in 13 farm-preferred and high-yielding African cultivars were analyzed. A cassava leaf metabolic model was developed to quantify the value of overcoming limitations to leaf photosynthesis. At steady state, in vivo Rubisco activity and mesophyll conductance accounted for 84% of the limitation. Under nonsteady-state conditions of shade to sun transition, stomatal conductance was the major limitation, resulting in an estimated 13% and 5% losses in CO2 uptake and water use efficiency, across a diurnal period. Triose phosphate utilization, although sufficient to support observed rates, would limit improvement in leaf photosynthesis to 33%, unless improved itself. The variation of carbon assimilation among cultivars was three times greater under nonsteady state compared to steady state, pinpointing important overlooked breeding targets for improved photosynthetic efficiency in cassava.
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Affiliation(s)
- Amanda P. De Souza
- Carl R Woese Institute for Genomic Biology, University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Yu Wang
- Carl R Woese Institute for Genomic Biology, University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Douglas J. Orr
- Lancaster Environment Centre, Lancaster University,
Lancaster, LA1 4YQ, UK
| | | | - Stephen P. Long
- Carl R Woese Institute for Genomic Biology, University of
Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Lancaster Environment Centre, Lancaster University,
Lancaster, LA1 4YQ, UK
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Wang Y, Burgess SJ, de Becker EM, Long SP. Photosynthesis in the fleeting shadows: an overlooked opportunity for increasing crop productivity? Plant J 2020; 101:874-884. [PMID: 31908116 PMCID: PMC7064922 DOI: 10.1111/tpj.14663] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [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: 10/07/2019] [Revised: 12/16/2019] [Accepted: 12/19/2019] [Indexed: 05/20/2023]
Abstract
Photosynthesis measurements are traditionally taken under steady-state conditions; however, leaves in crop fields experience frequent fluctuations in light and take time to respond. This slow response reduces the efficiency of carbon assimilation. Transitions from low to high light require photosynthetic induction, including the activation of Rubisco and the opening of stomata, whereas transitions from high to low light require the relaxation of dissipative energy processes, collectively known as non-photochemical quenching (NPQ). Previous attempts to assess the impact of these delays on net carbon assimilation have used simplified models of crop canopies, limiting the accuracy of predictions. Here, we use ray tracing to predict the spatial and temporal dynamics of lighting for a rendered mature Glycine max (soybean) canopy to review the relative importance of these delays on net cumulative assimilation over the course of both a sunny and a cloudy summer day. Combined limitations result in a 13% reduction in crop carbon assimilation on both sunny and cloudy days, with induction being more important on cloudy than on sunny days. Genetic variation in NPQ relaxation rates and photosynthetic induction in parental lines of a soybean nested association mapping (NAM) population was assessed. Short-term NPQ relaxation (<30 min) showed little variation across the NAM lines, but substantial variation was found in the speeds of photosynthetic induction, attributable to Rubisco activation. Over the course of a sunny and an intermittently cloudy day these would translate to substantial differences in total crop carbon assimilation. These findings suggest an unexplored potential for breeding improved photosynthetic potential in our major crops.
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Affiliation(s)
- Yu Wang
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Steven J. Burgess
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Elsa M. de Becker
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Department of Plant BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | - Stephen P. Long
- Carl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Department of Crop SciencesUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
- Lancaster Environment CentreLancaster UniversityLancasterLA1 4YQUK
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Long SP. Twenty-five years of GCB: Putting the biology into global change. Glob Chang Biol 2020; 26:1-2. [PMID: 31898877 DOI: 10.1111/gcb.14921] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Accepted: 11/12/2019] [Indexed: 06/10/2023]
Affiliation(s)
- Stephen P Long
- Departments of Plant Biology and of Crop Sciences, University of Illinois, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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Collison RF, Raven EC, Pignon CP, Long SP. Light, Not Age, Underlies the Maladaptation of Maize and Miscanthus Photosynthesis to Self-Shading. Front Plant Sci 2020; 11:783. [PMID: 32733493 PMCID: PMC7358635 DOI: 10.3389/fpls.2020.00783] [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] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Accepted: 05/18/2020] [Indexed: 05/12/2023]
Abstract
Zea mays and Miscanthus × giganteus use NADP-ME subtype C4 photosynthesis and are important food and biomass crops, respectively. Both crops are grown in dense stands where shaded leaves can contribute a significant proportion of overall canopy productivity. This is because shaded leaves, despite intercepting little light, typically process light energy very efficiently for photosynthesis, when compared to light-saturated leaves at the top of the canopy. However, an apparently maladaptive loss in photosynthetic light-use efficiency as leaves become shaded has been shown to reduce productivity in these two species. It is unclear whether this is due to leaf aging or progressive shading from leaves forming above. This was resolved here by analysing photosynthesis in leaves of the same chronological age in the centre and exposed southern edge of field plots of these crops. Photosynthetic light-response curves were used to assess maximum quantum yield of photosynthesis; the key measure of photosynthetic capacity of a leaf in shade. Compared to the upper canopy, maximum quantum yield of photosynthesis of lower canopy leaves was significantly reduced in the plot centre; but increased slightly at the plot edge. This indicates loss of efficiency of shaded leaves is due not to aging, but to the altered light environment of the lower canopy, i.e., reduced light intensity and/or altered spectral composition. This work expands knowledge of the cause of this maladaptive shade response, which limits productivity of some of the world's most important crops.
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Affiliation(s)
- Robert F. Collison
- Department of Plant Sciences, University of Oxford, Oxford, United Kingdom
| | - Emma C. Raven
- Department of Plant Sciences, University of Oxford, Oxford, United Kingdom
| | - Charles P. Pignon
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois, Urbana, IL, United States
- Department of Plant Biology, University of Illinois, Urbana, IL, United States
| | - Stephen P. Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, IL, United States
- Department of Crop Sciences, University of Illinois, Urbana, IL, United States
- Department of Plant Biology, University of Illinois, Urbana, IL, United States
- Lancaster Environment Centre, Lancaster University, Lancaster, United Kingdom
- *Correspondence: Stephen P. Long,
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Kromdijk J, Głowacka K, Long SP. Photosynthetic efficiency and mesophyll conductance are unaffected in Arabidopsis thaliana aquaporin knock-out lines. J Exp Bot 2020; 71:318-329. [PMID: 31731291 DOI: 10.1093/jxb/erz442] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2019] [Accepted: 10/06/2019] [Indexed: 05/12/2023]
Abstract
Improving photosynthetic efficiency is widely regarded as a major route to achieving much-needed yield gains in crop plants. In plants with C3 photosynthesis, increasing the diffusion conductance for CO2 transfer from substomatal cavity to chloroplast stroma (gm) could help to improve the efficiencies of CO2 assimilation and photosynthetic water use in parallel. The diffusion pathway from substomatal cavity to chloroplast traverses cell wall, plasma membrane, cytosol, chloroplast envelope membranes, and chloroplast stroma. Specific membrane intrinsic proteins of the aquaporin family can facilitate CO2 diffusion across membranes. Some of these aquaporins, such as PIP1;2 in Arabidopsis thaliana, have been suggested to exert control over gm and the magnitude of the CO2 assimilation flux, but the evidence for a direct physiological role of aquaporins in determining gm is limited. Here, we estimated gm with four different methods under a range of light intensities and CO2 concentrations in two previously characterized pip1;2 knock-out lines as well as pip1;3 and pip2;6 knock-out lines, which have not been previously evaluated for a role in gm. This study presents the most in-depth analysis of gm in Arabidopsis aquaporin knock-out mutants to date. Surprisingly, all methods failed to show any significant differences between the pip1;2, pip1;3, or pip2;6 mutants and the Col-0 control.
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Affiliation(s)
- Johannes Kromdijk
- Department of Plant Sciences, University of Cambridge, Downing street, Cambridge, UK
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Katarzyna Głowacka
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland
- Department of Biochemistry, University of Nebraska-Lincoln, N246 Beadle Center, Lincoln, NE, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, University of Lancaster, Lancaster, UK
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40
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Clark LV, Jin X, Petersen KK, Anzoua KG, Bagmet L, Chebukin P, Deuter M, Dzyubenko E, Dzyubenko N, Heo K, Johnson DA, Jørgensen U, Kjeldsen JB, Nagano H, Peng J, Sabitov A, Yamada T, Yoo JH, Yu CY, Long SP, Sacks EJ. Population structure of Miscanthus sacchariflorus reveals two major polyploidization events, tetraploid-mediated unidirectional introgression from diploid M. sinensis, and diversity centred around the Yellow Sea. Ann Bot 2019; 124:731-748. [PMID: 30247525 PMCID: PMC6821896 DOI: 10.1093/aob/mcy161] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [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: 04/09/2018] [Accepted: 08/08/2018] [Indexed: 05/22/2023]
Abstract
BACKGROUND AND AIMS Miscanthus, a C4 perennial grass native to East Asia, is a promising biomass crop. Miscanthus sacchariflorus has a broad geographic range, is used to produce paper in China and is one of the parents (along with Miscanthus sinensis) of the important biomass species Miscanthus × giganteus. The largest study of M. sacchariflorus population genetics to date is reported here. METHODS Collections included 764 individuals across East Asia. Samples were genotyped with 34 605 single nucleotide polymorphisms (SNPs) derived from restriction site-associated DNA sequencing (RAD-seq) and ten plastid microsatellites, and were subjected to ploidy analysis by flow cytometry. KEY RESULTS Six major genetic groups within M. sacchariflorus were identified using SNP data: three diploid groups, comprising Yangtze (M. sacchariflorus ssp. lutarioriparius), N China and Korea/NE China/Russia; and three tetraploid groups, comprising N China/Korea/Russia, S Japan and N Japan. Miscanthus sacchariflorus ssp. lutarioriparius was derived from the N China group, with a substantial bottleneck. Japanese and mainland tetraploids originated from independent polyploidization events. Hybrids between diploid M. sacchariflorus and M. sinensis were identified in Korea, but without introgression into either parent species. In contrast, tetraploid M. sacchariflorus in southern Japan and Korea exhibited substantial hybridization and introgression with local diploid M. sinensis. CONCLUSIONS Genetic data indicated that the land now under the Yellow Sea was a centre of diversity for M. sacchariflorus during the last glacial maximum, followed by a series of migrations as the climate became warmer and wetter. Overall, M. sacchariflorus has greater genetic diversity than M. sinensis, suggesting that breeding and selection within M. sacchariflorus will be important for the development of improved M. × giganteus. Ornamental M. sacchariflorus genotypes in Europe and North America represent a very narrow portion of the species' genetic diversity, and thus do not well represent the species as a whole.
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Affiliation(s)
- Lindsay V Clark
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Xiaoli Jin
- Agronomy Department, Key Laboratory of Crop Germplasm Research of Zhejiang Province, Zhejiang University, Hangzhou, China
| | | | - Kossanou G Anzoua
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Larissa Bagmet
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Pavel Chebukin
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Martin Deuter
- TINPLANT Biotechnik und Pflanzenvermehrung GmbH, Klein Wanzleben, Germany
- Present address: Rosmarienbergstrasse 3A, D-39164 Wanzleben-Börde, Germany
| | - Elena Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | | | - Kweon Heo
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Douglas A Johnson
- USDA-ARS Forage and Range Research Lab, Utah State University, Logan, UT, USA
- Present address: 1229 N. 1800 E., Logan, UT 84341, USA
| | - Uffe Jørgensen
- Department of Agroecology, Aarhus University, Tjele, Denmark
| | | | - Hironori Nagano
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Junhua Peng
- Life Science and Technology Center, China National Seed Group Co. Ltd, Wuhan, Hubei, China
| | - Andrey Sabitov
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Toshihiko Yamada
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Ji Hye Yoo
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Chang Yeon Yu
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Stephen P Long
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Erik J Sacks
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- For correspondence. E-mail
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41
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Clark LV, Jin X, Petersen KK, Anzoua KG, Bagmet L, Chebukin P, Deuter M, Dzyubenko E, Dzyubenko N, Heo K, Johnson DA, Jørgensen U, Kjeldsen JB, Nagano H, Peng J, Sabitov A, Yamada T, Yoo JH, Yu CY, Long SP, Sacks EJ. Population structure of Miscanthus sacchariflorus reveals two major polyploidization events, tetraploid-mediated unidirectional introgression from diploid M. sinensis, and diversity centred around the Yellow Sea. Ann Bot 2019. [PMID: 30247525 DOI: 10.1093/aob/mcy1161] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
BACKGROUND AND AIMS Miscanthus, a C4 perennial grass native to East Asia, is a promising biomass crop. Miscanthus sacchariflorus has a broad geographic range, is used to produce paper in China and is one of the parents (along with Miscanthus sinensis) of the important biomass species Miscanthus × giganteus. The largest study of M. sacchariflorus population genetics to date is reported here. METHODS Collections included 764 individuals across East Asia. Samples were genotyped with 34 605 single nucleotide polymorphisms (SNPs) derived from restriction site-associated DNA sequencing (RAD-seq) and ten plastid microsatellites, and were subjected to ploidy analysis by flow cytometry. KEY RESULTS Six major genetic groups within M. sacchariflorus were identified using SNP data: three diploid groups, comprising Yangtze (M. sacchariflorus ssp. lutarioriparius), N China and Korea/NE China/Russia; and three tetraploid groups, comprising N China/Korea/Russia, S Japan and N Japan. Miscanthus sacchariflorus ssp. lutarioriparius was derived from the N China group, with a substantial bottleneck. Japanese and mainland tetraploids originated from independent polyploidization events. Hybrids between diploid M. sacchariflorus and M. sinensis were identified in Korea, but without introgression into either parent species. In contrast, tetraploid M. sacchariflorus in southern Japan and Korea exhibited substantial hybridization and introgression with local diploid M. sinensis. CONCLUSIONS Genetic data indicated that the land now under the Yellow Sea was a centre of diversity for M. sacchariflorus during the last glacial maximum, followed by a series of migrations as the climate became warmer and wetter. Overall, M. sacchariflorus has greater genetic diversity than M. sinensis, suggesting that breeding and selection within M. sacchariflorus will be important for the development of improved M. × giganteus. Ornamental M. sacchariflorus genotypes in Europe and North America represent a very narrow portion of the species' genetic diversity, and thus do not well represent the species as a whole.
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Affiliation(s)
- Lindsay V Clark
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Xiaoli Jin
- Agronomy Department, Key Laboratory of Crop Germplasm Research of Zhejiang Province, Zhejiang University, Hangzhou, China
| | | | - Kossanou G Anzoua
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Larissa Bagmet
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Pavel Chebukin
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Martin Deuter
- TINPLANT Biotechnik und Pflanzenvermehrung GmbH, Klein Wanzleben, Germany
| | - Elena Dzyubenko
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | | | - Kweon Heo
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Douglas A Johnson
- USDA-ARS Forage and Range Research Lab, Utah State University, Logan, UT, USA
| | - Uffe Jørgensen
- Department of Agroecology, Aarhus University, Tjele, Denmark
| | | | - Hironori Nagano
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Junhua Peng
- Life Science and Technology Center, China National Seed Group Co. Ltd, Wuhan, Hubei, China
| | - Andrey Sabitov
- Vavilov All-Russian Institute of Plant Genetic Resources, Russia
| | - Toshihiko Yamada
- Field Science Center for Northern Biosphere, Hokkaido University, Sapporo, Hokkaido, Japan
| | - Ji Hye Yoo
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Chang Yeon Yu
- Kangwon National University, Chuncheon, Gangwon, South Korea
| | - Stephen P Long
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Erik J Sacks
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USA
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42
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Schmidt JA, McGrath JM, Hanson MR, Long SP, Ahner BA. Field-grown tobacco plants maintain robust growth while accumulating large quantities of a bacterial cellulase in chloroplasts. Nat Plants 2019; 5:715-721. [PMID: 31285558 DOI: 10.1038/s41477-019-0467-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2018] [Accepted: 06/04/2019] [Indexed: 06/09/2023]
Abstract
High accumulation of heterologous proteins expressed from the plastid genome has sometimes been reported to result in compromised plant phenotypes. Comparisons of transplastomic plants to wild-type (WT) are typically made in environmentally controlled chambers with relatively low light; little is known about the performance of such plants under field conditions. Here, we report on two plastid-engineered tobacco lines expressing the bacterial cellulase Cel6A. Field-grown plants producing Cel6A at ~20% of total soluble protein exhibit no loss in biomass or Rubisco content and only minor reductions in photosynthesis compared to WT. These experiments demonstrate that, when grown in the field, tobacco possesses sufficient metabolic flexibility to accommodate high levels of recombinant protein by increasing total protein synthesis and accumulation and/or by reallocating unneeded endogenous proteins. Based on current tobacco cultivation practices and readily achievable recombinant protein yields, we estimate that specific proteins could be obtained from field-grown transgenic tobacco plants at costs three orders of magnitude less than current cell culture methods.
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Affiliation(s)
- Jennifer A Schmidt
- Department of Biological and Environmental Engineering, Cornell University, Ithaca, NY, USA
| | - Justin M McGrath
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana-Champaign, Urbana, IL, USA
| | - Maureen R Hanson
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
| | - Stephen P Long
- Department of Plant Biology, University of Illinois, Urbana-Champaign, Urbana, IL, USA
- Department of Crop Sciences, University of Illinois, Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Beth A Ahner
- Department of Biological and Environmental Engineering, Cornell University, Ithaca, NY, USA.
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43
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Kromdijk J, Głowacka K, Long SP. Predicting light-induced stomatal movements based on the redox state of plastoquinone: theory and validation. Photosynth Res 2019; 141:83-97. [PMID: 30891661 PMCID: PMC6612513 DOI: 10.1007/s11120-019-00632-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [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: 06/14/2018] [Accepted: 02/25/2019] [Indexed: 05/23/2023]
Abstract
Prediction of stomatal conductance is a key element to relate and scale up leaf-level gas exchange processes to canopy, ecosystem and land surface models. The empirical models that are typically employed for this purpose are simple and elegant formulations which relate stomatal conductance on a leaf area basis to the net rate of CO2 assimilation, humidity and CO2 concentration. Although light intensity is not directly modelled as a stomatal opening cue, it is well-known that stomata respond strongly to light. One response mode depends specifically on the blue-light part of the light spectrum, whereas the quantitative or 'red' light response is less spectrally defined and relies more on the quantity of incident light. Here, we present a modification of an empirical stomatal conductance model which explicitly accounts for the stomatal red-light response, based on a mesophyll-derived signal putatively initiated by the chloroplastic plastoquinone redox state. The modified model showed similar prediction accuracy compared to models using a relationship between stomatal conductance and net assimilation rate. However, fitted parameter values with the modified model varied much less across different measurement conditions, lessening the need for frequent re-parameterization to different conditions required of the current model. We also present a simple and easy to parameterize extension to the widely used Farquhar-Von Caemmerer-Berry photosynthesis model to facilitate coupling with the modified stomatal conductance model, which should enable use of the new stomatal conductance model to simulate ecosystem water vapour exchange in terrestrial biosphere models.
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Affiliation(s)
- Johannes Kromdijk
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA.
- Department of Plant Sciences, University of Cambridge, Downing Site, Cambridge, CB23EA, UK.
| | - Katarzyna Głowacka
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Institute of Plant Genetics, Polish Academy of Sciences, 60-479, Poznan, Poland
- Department of Biochemistry, University of Nebraska-Lincoln, N246 Beadle Center, 1901 Vine Street, Lincoln, NE, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 West Gregory Drive, Urbana, IL, 61801, USA
- Lancaster Environment Centre, University of Lancaster, Bailrigg, LA1 1YX, UK
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DeLucia EH, Chen S, Guan K, Peng B, Li Y, Gomez‐Casanovas N, Kantola IB, Bernacchi CJ, Huang Y, Long SP, Ort DR. Are we approaching a water ceiling to maize yields in the United States? Ecosphere 2019. [DOI: 10.1002/ecs2.2773] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Affiliation(s)
- Evan H. DeLucia
- Department of Plant Biology University of Illinois Urbana Illinois 61801 USA
- Institute for Sustainability, Energy, and Environment University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois Urbana Illinois 61801 USA
- Department of Natural Resources and Environmental Science University of Illinois Urbana Illinois 61801 USA
| | - Shiliu Chen
- Department of Natural Resources and Environmental Science University of Illinois Urbana Illinois 61801 USA
- State Key Laboratory of Plateau Ecology and Agriculture Qinghai University Xining Qinghai 810016 China
| | - Kaiyu Guan
- Institute for Sustainability, Energy, and Environment University of Illinois Urbana Illinois 61801 USA
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois Urbana Illinois 61801 USA
- Department of Natural Resources and Environmental Science University of Illinois Urbana Illinois 61801 USA
- National Center for Supercomputing Applications University of Illinois Urbana Illinois 61801 USA
- State Key Laboratory of Plateau Ecology and Agriculture Qinghai University Xining Qinghai 810016 China
| | - Bin Peng
- Department of Natural Resources and Environmental Science University of Illinois Urbana Illinois 61801 USA
- National Center for Supercomputing Applications University of Illinois Urbana Illinois 61801 USA
| | - Yan Li
- Department of Natural Resources and Environmental Science University of Illinois Urbana Illinois 61801 USA
| | - Nuria Gomez‐Casanovas
- Department of Plant Biology University of Illinois Urbana Illinois 61801 USA
- Institute for Sustainability, Energy, and Environment University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
| | - Ilsa B. Kantola
- Institute for Sustainability, Energy, and Environment University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
| | - Carl J. Bernacchi
- Department of Plant Biology University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois Urbana Illinois 61801 USA
- USDA‐ARS Global Change and Photosynthesis Research Unit Urbana Illinois 61801 USA
| | - Yuefei Huang
- Department of Hydraulic Engineering State Key Laboratory of Hydroscience and Engineering Tsinghua University Beijing 100084 China
- State Key Laboratory of Plateau Ecology and Agriculture Qinghai University Xining Qinghai 810016 China
| | - Stephen P. Long
- Department of Plant Biology University of Illinois Urbana Illinois 61801 USA
- Institute for Sustainability, Energy, and Environment University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois Urbana Illinois 61801 USA
- National Center for Supercomputing Applications University of Illinois Urbana Illinois 61801 USA
| | - Donald R. Ort
- Department of Plant Biology University of Illinois Urbana Illinois 61801 USA
- Carl R. Woese Institute for Genomic Biology University of Illinois Urbana Illinois 61801 USA
- Center for Advanced Bioenergy and Bioproducts Innovation University of Illinois Urbana Illinois 61801 USA
- Department of Crop Science University of Illinois Urbana Illinois 61801 USA
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45
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Conlan B, Birch R, Kelso C, Holland S, De Souza AP, Long SP, Beck JL, Whitney SM. BSD2 is a Rubisco-specific assembly chaperone, forms intermediary hetero-oligomeric complexes, and is nonlimiting to growth in tobacco. Plant Cell Environ 2019; 42:1287-1301. [PMID: 30375663 DOI: 10.1111/pce.13473] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [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: 07/24/2018] [Revised: 09/30/2018] [Accepted: 10/22/2018] [Indexed: 05/28/2023]
Abstract
The folding and assembly of Rubisco large and small subunits into L8 S8 holoenzyme in chloroplasts involves many auxiliary factors, including the chaperone BSD2. Here we identify apparent intermediary Rubisco-BSD2 assembly complexes in the model C3 plant tobacco. We show BSD2 and Rubisco content decrease in tandem with leaf age with approximately half of the BSD2 in young leaves (~70 nmol BSD2 protomer.m2 ) stably integrated in putative intermediary Rubisco complexes that account for <0.2% of the L8 S8 pool. RNAi-silencing BSD2 production in transplastomic tobacco producing bacterial L2 Rubisco had no effect on leaf photosynthesis, cell ultrastructure, or plant growth. Genetic crossing the same RNAi-bsd2 alleles into wild-type tobacco however impaired L8 S8 Rubisco production and plant growth, indicating the only critical function of BSD2 is in Rubisco biogenesis. Agrobacterium mediated transient expression of tobacco, Arabidopsis, or maize BSD2 reinstated Rubisco biogenesis in BSD2-silenced tobacco. Overexpressing BSD2 in tobacco chloroplasts however did not alter Rubisco content, activation status, leaf photosynthesis rate, or plant growth in the field or in the glasshouse at 20°C or 35°C. Our findings indicate BSD2 functions exclusively in Rubisco biogenesis, can efficiently facilitate heterologous plant Rubisco assembly, and is produced in amounts nonlimiting to tobacco growth.
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Affiliation(s)
- Brendon Conlan
- Research School of Biology, The Australian National University, Acton, Australian Capital Territory, Australia
| | - Rosemary Birch
- Research School of Biology, The Australian National University, Acton, Australian Capital Territory, Australia
| | - Celine Kelso
- School of Chemistry, Molecular Horizons, University of Wollongong, New South Wales, Australia
| | - Sophie Holland
- Research School of Biology, The Australian National University, Acton, Australian Capital Territory, Australia
| | - Amanda P De Souza
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, Illinois, USA
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois, Urbana, Illinois, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Jennifer L Beck
- School of Chemistry, Molecular Horizons, University of Wollongong, New South Wales, Australia
| | - Spencer M Whitney
- Research School of Biology, The Australian National University, Acton, Australian Capital Territory, Australia
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46
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Taylor SH, Long SP. Phenotyping photosynthesis on the limit - a critical examination of RACiR. New Phytol 2019; 221:621-624. [PMID: 30198109 DOI: 10.1111/nph.15382] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2018] [Accepted: 07/05/2018] [Indexed: 05/19/2023]
Affiliation(s)
- Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Library Avenue, Lancaster, LA1 4YQ, UK
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Library Avenue, Lancaster, LA1 4YQ, UK
- Carl R. Woese Institute of Genomic Biology, University of Illinois, 1206 W Gregory Dr., Urbana, IL, 61801, USA
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Pignon CP, Lundgren MR, Osborne CP, Long SP. Bundle sheath chloroplast volume can house sufficient Rubisco to avoid limiting C4 photosynthesis during chilling. J Exp Bot 2019; 70:357-365. [PMID: 30407578 PMCID: PMC6305190 DOI: 10.1093/jxb/ery345] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [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: 07/12/2018] [Accepted: 09/13/2018] [Indexed: 05/15/2023]
Abstract
C4 leaves confine Rubisco to bundle sheath cells. Thus, the size of bundle sheath compartments and the total volume of chloroplasts within them limit the space available for Rubisco. Rubisco activity limits photosynthesis at low temperatures. C3 plants counter this limitation by increasing leaf Rubisco content, yet few C4 species do the same. Because C3 plants usually outperform C4 plants in chilling environments, it has been suggested that there is insufficient chloroplast volume available in the bundle sheath of C4 leaves to allow such an increase in Rubisco at low temperatures. We investigated this potential limitation by measuring bundle sheath and mesophyll compartment volumes and chloroplast contents, as well as leaf thickness and inter-veinal distance, in three C4 Andropogoneae grasses: two crops (Zea mays and Saccharum officinarum) and a wild, chilling-tolerant grass (Miscanthus × giganteus). A wild C4 Paniceae grass (Alloteropsis semialata) was also included. Despite significant structural differences between species, there was no evidence of increased bundle sheath chloroplast volume per leaf area available to the chilling-tolerant species, relative to the chilling-sensitive ones. Maximal theoretical photosynthetic capacity of the leaf far exceeded the photosynthetic rates achieved even at low temperatures. C4 bundle sheath cells therefore have the chloroplast volume to house sufficient Rubisco to avoid limiting C4 photosynthesis during chilling.
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Affiliation(s)
- Charles P Pignon
- University of Illinois, Carl R. Woese Institute for Genomic Biology and Departments of Crop Sciences and of Plant Biology, Urbana, IL, USA
| | - Marjorie R Lundgren
- Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, USA
- Arnold Arboretum, Harvard University, Boston, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Colin P Osborne
- Department of Animal and Plant Sciences, Alfred Denny Building, University of Sheffield, Sheffield, UK
| | - Stephen P Long
- University of Illinois, Carl R. Woese Institute for Genomic Biology and Departments of Crop Sciences and of Plant Biology, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
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Beerling DJ, Leake JR, Long SP, Scholes JD, Ton J, Nelson PN, Bird M, Kantzas E, Taylor LL, Sarkar B, Kelland M, DeLucia E, Kantola I, Müller C, Rau GH, Hansen J. Publisher Correction: Farming with crops and rocks to address global climate, food and soil security. Nat Plants 2018; 4:392. [PMID: 29802316 DOI: 10.1038/s41477-018-0162-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
In the version of this Perspective originally published, 'acidification' was incorrectly spelt as 'adification' in Fig. 4. This has now been corrected.
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Affiliation(s)
- David J Beerling
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK.
| | - Jonathan R Leake
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Stephen P Long
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Lancaster Environment Centre, Lancaster University, Lancaster, UK
| | - Julie D Scholes
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Jurriaan Ton
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Paul N Nelson
- College of Science and Engineering and Centre for Tropical Environmental and Sustainability Science, James Cook University, Cairns, Queensland, Australia
| | - Michael Bird
- College of Science and Engineering and Centre for Tropical Environmental and Sustainability Science, James Cook University, Cairns, Queensland, Australia
| | - Euripides Kantzas
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Lyla L Taylor
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Binoy Sarkar
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Mike Kelland
- Leverhulme Centre for Climate Change Mitigation, Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK
| | - Evan DeLucia
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Ilsa Kantola
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | | | - Greg H Rau
- Institute of Marine Sciences, University of California, Santa Cruz, CA, USA
| | - James Hansen
- Earth Institute, Columbia University, New York, NY, USA
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De Souza AP, Long SP. Toward improving photosynthesis in cassava: Characterizing photosynthetic limitations in four current African cultivars. Food Energy Secur 2018; 7:e00130. [PMID: 30034799 PMCID: PMC6049889 DOI: 10.1002/fes3.130] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2017] [Revised: 02/16/2018] [Accepted: 02/20/2018] [Indexed: 11/10/2022] Open
Abstract
Despite the vast importance of cassava (Manihot esculenta Crantz) for smallholder farmers in Africa, yields per unit land area have not increased over the past 55 years. Genetic engineering or breeding for increased photosynthetic efficiency may represent a new approach. This requires the understanding of limitations to photosynthesis within existing germplasm. Here, leaf photosynthetic gas exchange, leaf carbon and nitrogen content, and nonstructural carbohydrates content and growth were analyzed in four high-yielding and farm-preferred African cultivars: two landraces (TME 7, TME 419) and two improved lines (TMS 98/0581 and TMS 30572). Surprisingly, the two landraces had, on average, 18% higher light-saturating leaf CO 2 uptake (Asat) than the improved lines due to higher maximum apparent carboxylation rates of Rubisco carboxylation (Vcmax) and regeneration of ribulose-1,5-biphosphate expressed as electron transport rate (Jmax). TME 419 also showed a greater intrinsic water use efficiency. Except for the cultivar TMS 30572, photosynthesis in cassava showed a triose phosphate utilization (TPU) limitation at high intercellular [CO 2]. The capacity for TPU in the leaf would not limit photosynthesis rates under current conditions, but without modification would be a barrier to increasing photosynthetic efficiency to levels predicted possible in this crop. The lower capacity of the lines improved through breeding, may perhaps reflect the predominant need, until now, in cassava breeding for improved disease and pest resistance. However, the availability today of equipment for high-throughput screening of photosynthetic capacity provides a means to select for maintenance or improvement of photosynthetic capacity while also selecting for pest and disease resistance.
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Affiliation(s)
- Amanda P. De Souza
- Departments of Crop Sciences and Plant BiologyCarl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
| | - Stephen P. Long
- Departments of Crop Sciences and Plant BiologyCarl R Woese Institute for Genomic BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaILUSA
- Lancaster Environment CentreLancaster UniversityLancasterUK
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Taylor SH, Long SP. Slow induction of photosynthesis on shade to sun transitions in wheat may cost at least 21% of productivity. Philos Trans R Soc Lond B Biol Sci 2018; 372:rstb.2016.0543. [PMID: 28808109 PMCID: PMC5566890 DOI: 10.1098/rstb.2016.0543] [Citation(s) in RCA: 128] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/02/2017] [Indexed: 12/02/2022] Open
Abstract
Wheat is the second most important direct source of food calories in the world. After considerable improvement during the Green Revolution, increase in genetic yield potential appears to have stalled. Improvement of photosynthetic efficiency now appears a major opportunity in addressing the sustainable yield increases needed to meet future food demand. Effort, however, has focused on increasing efficiency under steady-state conditions. In the field, the light environment at the level of individual leaves is constantly changing. The speed of adjustment of photosynthetic efficiency can have a profound effect on crop carbon gain and yield. Flag leaves of wheat are the major photosynthetic organs supplying the grain of wheat, and will be intermittently shaded throughout a typical day. Here, the speed of adjustment to a shade to sun transition in these leaves was analysed. On transfer to sun conditions, the leaf required about 15 min to regain maximum photosynthetic efficiency. In vivo analysis based on the responses of leaf CO2 assimilation (A) to intercellular CO2 concentration (ci) implied that the major limitation throughout this induction was activation of the primary carboxylase of C3 photosynthesis, ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco). This was followed in importance by stomata, which accounted for about 20% of the limitation. Except during the first few seconds, photosynthetic electron transport and regeneration of the CO2 acceptor molecule, ribulose-1,5-bisphosphate (RubP), did not affect the speed of induction. The measured kinetics of Rubisco activation in the sun and de-activation in the shade were predicted from the measurements. These were combined with a canopy ray tracing model that predicted intermittent shading of flag leaves over the course of a June day. This indicated that the slow adjustment in shade to sun transitions could cost 21% of potential assimilation. This article is part of the themed issue ‘Enhancing photosynthesis in crop plants: targets for improvement’.
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Affiliation(s)
- Samuel H Taylor
- Lancaster Environment Centre, Lancaster University, Lancaster, Lancashire LA1 4YQ, UK
| | - Stephen P Long
- Lancaster Environment Centre, Lancaster University, Lancaster, Lancashire LA1 4YQ, UK .,Department of Crop Sciences, University of Illinois, Urbana, IL 61801, USA.,Department of Plant Biology, University of Illinois, Urbana, IL 61801, USA
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