Whole-plant phenotypic engineering: moving beyond ratios for multi-objective optimization of nutrient use efficiency

York, Larry M.; Griffiths, Marcus; Maaz, Tai McClellan

doi:10.1016/j.copbio.2022.102682

Title: Whole-plant phenotypic engineering: moving beyond ratios for multi-objective optimization of nutrient use efficiency

Journal Article · 30 January 2022 · Current Opinion in Biotechnology

DOI: https://doi.org/10.1016/j.copbio.2022.102682 · OSTI ID:1854477

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Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Donald Danforth Plant Science Center, St. Louis, MO (United States)
Univ. of Hawaii at Manoa, Honolulu, HI (United States)

Nutrient use efficiency (NUE) is typically measured as the ratio of yield to soil nutrient availability but ignores contributions of underlying plant traits. Relevant plant traits can be grouped as root acquisition efficiency, shoot radiation use efficiency, and plant metabolic efficiency. The intentional integration of these traits will lead to synergistic improvements of NUE. Recent progress in trait-focused research includes phenotyping root nutrient uptake rates and respiration, engineering reduced photorespiration, and identification of nutrient assimilation pathways. Traits need to be conceptualized in agricultural systems contexts to improve synchrony of plant demand and soil supply of nutrients, including consideration of crop mixtures. Use of simulation modeling and multi-objective optimization will allow accelerating NUE gains beyond selection for a single ratio.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1854477

Journal Information:: Current Opinion in Biotechnology, Journal Name: Current Opinion in Biotechnology Journal Issue: 1 Vol. 75; ISSN 0958-1669

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

References (51)

The breeding of crop ideotypes Donald, C. M. Euphytica, Vol. 17, Issue 3 https://doi.org/10.1007/BF00056241	journal	December 1968
Current knowledge and future research opportunities for modeling annual crop mixtures. A review Gaudio, Noémie; Escobar-Gutiérrez, Abraham J.; Casadebaig, Pierre Agronomy for Sustainable Development, Vol. 39, Issue 2 https://doi.org/10.1007/s13593-019-0562-6	journal	March 2019
Reduced nitrate leaching in a perennial grain crop compared to maize in the Upper Midwest, USA Jungers, Jacob M.; DeHaan, Lee H.; Mulla, David J. Agriculture, Ecosystems & Environment, Vol. 272 https://doi.org/10.1016/j.agee.2018.11.007	journal	February 2019
Dry matter accumulation and post-silking N economy of ‘stay-green’ maize (Zea mays L.) hybrids Kosgey, J. R.; Moot, D. J.; Fletcher, A. L. European Journal of Agronomy, Vol. 51 https://doi.org/10.1016/j.eja.2013.07.001	journal	November 2013
Characterizing nitrogen use efficiency in natural and agricultural ecosystems to improve the performance of cereal crops in low-input and organic agricultural systems Dawson, Julie C.; Huggins, David R.; Jones, Stephen S. Field Crops Research, Vol. 107, Issue 2 https://doi.org/10.1016/j.fcr.2008.01.001	journal	May 2008
Selection for erect canopy architecture can increase yield and biomass of spring wheat Richards, Richard A.; Cavanagh, Colin R.; Riffkin, Penny Field Crops Research, Vol. 244 https://doi.org/10.1016/j.fcr.2019.107649	journal	December 2019
Consequences of hybridization and heterozygosity on plant vigor and phenotypic stability Fridman, Eyal Plant Science, Vol. 232 https://doi.org/10.1016/j.plantsci.2014.11.014	journal	March 2015
Suppression of soil nitrification by plants Subbarao, Guntur Venkata; Yoshihashi, Tadashi; Worthington, Margaret Plant Science, Vol. 233 https://doi.org/10.1016/j.plantsci.2015.01.012	journal	April 2015
Diversity in Plant Breeding: A New Conceptual Framework Litrico, Isabelle; Violle, Cyrille Trends in Plant Science, Vol. 20, Issue 10 https://doi.org/10.1016/j.tplants.2015.07.007	journal	October 2015
The ERECTA gene regulates plant transpiration efficiency in Arabidopsis Masle, Josette; Gilmore, Scott R.; Farquhar, Graham D. Nature, Vol. 436, Issue 7052 https://doi.org/10.1038/nature03835	journal	July 2005
Erect leaves caused by brassinosteroid deficiency increase biomass production and grain yield in rice Sakamoto, Tomoaki; Morinaka, Yoichi; Ohnishi, Toshiyuki Nature Biotechnology, Vol. 24, Issue 1 https://doi.org/10.1038/nbt1173	journal	December 2005
Variation in NRT1.1B contributes to nitrate-use divergence between rice subspecies Hu, Bin; Wang, Wei; Ou, Shujun Nature Genetics, Vol. 47, Issue 7 https://doi.org/10.1038/ng.3337	journal	June 2015
Deep rooting conferred by DEEPER ROOTING 1 enhances rice yield in paddy fields Arai-Sanoh, Yumiko; Takai, Toshiyuki; Yoshinaga, Satoshi Scientific Reports, Vol. 4, Issue 1 https://doi.org/10.1038/srep05563	journal	July 2014
Metabolic and diffusional limitations of photosynthesis in fluctuating irradiance in Arabidopsis thaliana Kaiser, Elias; Morales, Alejandro; Harbinson, Jeremy Scientific Reports, Vol. 6, Issue 1 https://doi.org/10.1038/srep31252	journal	August 2016
Root foraging elicits niche complementarity-dependent yield advantage in the ancient ‘three sisters’ (maize/bean/squash) polyculture Zhang, Chaochun; Postma, Johannes A.; York, Larry M. Annals of Botany, Vol. 114, Issue 8 https://doi.org/10.1093/aob/mcu191	journal	October 2014
RhizoVision Explorer: Open-source software for root image analysis and measurement standardization Seethepalli, Anand; Dhakal, Kundan; Griffiths, Marcus AoB PLANTS https://doi.org/10.1093/aobpla/plab056	journal	September 2021
Transcriptomic, proteomic, and physiological studies reveal key players in wheat nitrogen use efficiency under both high and low nitrogen supply Meng, Xiaodan; Wang, Xiaochun; Zhang, Zhiyong Journal of Experimental Botany, Vol. 72, Issue 12 https://doi.org/10.1093/jxb/erab153	journal	April 2021
The challenge of improving nitrogen use efficiency in crop plants: towards a more central role for genetic variability and quantitative genetics within integrated approaches Hirel, B.; Le Gouis, J.; Ney, B. Journal of Experimental Botany, Vol. 58, Issue 9 https://doi.org/10.1093/jxb/erm097	journal	March 2007
Yield–trait performance landscapes: from theory to application in breeding maize for drought tolerance Messina, Carlos D.; Podlich, Dean; Dong, Zhanshan Journal of Experimental Botany, Vol. 62, Issue 3 https://doi.org/10.1093/jxb/erq329	journal	November 2010
Insights into metabolic efficiency from flux analysis Chen, Xuewen; Shachar-Hill, Yair Journal of Experimental Botany, Vol. 63, Issue 6 https://doi.org/10.1093/jxb/ers057	journal	February 2012
Spatiotemporal variation of nitrate uptake kinetics within the maize ( Zea mays L.) root system is associated with greater nitrate uptake and interactions with architectural phenes York, Larry M.; Silberbush, Moshe; Lynch, Jonathan P. Journal of Experimental Botany, Vol. 67, Issue 12 https://doi.org/10.1093/jxb/erw133	journal	April 2016
LARGE ROOT ANGLE1, encoding OsPIN2, is involved in root system architecture in rice Wang, Lingling; Guo, Mengxue; Li, Yong Journal of Experimental Botany, Vol. 69, Issue 3 https://doi.org/10.1093/jxb/erx427	journal	December 2017
Functional phenomics: an emerging field integrating high-throughput phenotyping, physiology, and bioinformatics York, Larry M. Journal of Experimental Botany, Vol. 70, Issue 2 https://doi.org/10.1093/jxb/ery379	journal	October 2018
A multiple ion-uptake phenotyping platform reveals shared mechanisms affecting nutrient uptake by roots Griffiths, Marcus; Roy, Sonali; Guo, Haichao Plant Physiology, Vol. 185, Issue 3 https://doi.org/10.1093/plphys/kiaa080	journal	December 2020
Root Architecture and Plant Productivity Lynch, J. Plant Physiology, Vol. 109, Issue 1 https://doi.org/10.1104/pp.109.1.7	journal	September 1995
Root Cortical Aerenchyma Enhances Nitrogen Acquisition from Low-Nitrogen Soils in Maize Saengwilai, P.; Nord, E. A.; Chimungu, J. G. PLANT PHYSIOLOGY, Vol. 166, Issue 2 https://doi.org/10.1104/pp.114.241711	journal	June 2014
Plant Nutrition: Root Transporters on the Move Zelazny, Enric; Vert, Grégory Plant Physiology, Vol. 166, Issue 2 https://doi.org/10.1104/pp.114.244475	journal	July 2014
Large Root Cortical Cell Size Improves Drought Tolerance in Maize Chimungu, Joseph G.; Brown, Kathleen M.; Lynch, Jonathan P. Plant Physiology, Vol. 166, Issue 4 https://doi.org/10.1104/pp.114.250449	journal	October 2014
Regulation of Root Traits for Internal Aeration and Tolerance to Soil Waterlogging-Flooding Stress Yamauchi, Takaki; Colmer, Timothy D.; Pedersen, Ole Plant Physiology, Vol. 176, Issue 2 https://doi.org/10.1104/pp.17.01157	journal	November 2017
Targeting Root Ion Uptake Kinetics to Increase Plant Productivity and Nutrient Use Efficiency Griffiths, Marcus; York, Larry M. Plant Physiology, Vol. 182, Issue 4 https://doi.org/10.1104/pp.19.01496	journal	February 2020
Uncovering hidden genetic variation in photosynthesis of field‐grown maize under ozone pollution Choquette, Nicole E.; Ogut, Funda; Wertin, Timothy M. Global Change Biology, Vol. 25, Issue 12 https://doi.org/10.1111/gcb.14794	journal	October 2019
An Architectural Approach to the Comparative Ecology of Plant root Systems Fitter, A. H. New Phytologist, Vol. 106 https://doi.org/10.1111/j.1469-8137.1987.tb04683.x	journal	May 1987
Biological nitrification inhibition by rice root exudates and its relationship with nitrogen‐use efficiency Sun, Li; Lu, Yufang; Yu, Fangwei New Phytologist, Vol. 212, Issue 3 https://doi.org/10.1111/nph.14057	journal	June 2016
Field crop phenomics: enabling breeding for radiation use efficiency and biomass in cereal crops Furbank, Robert T.; Jimenez‐Berni, Jose A.; George‐Jaeggli, Barbara New Phytologist, Vol. 223, Issue 4 https://doi.org/10.1111/nph.15817	journal	April 2019
Variation in photosynthetic induction between rice accessions and its potential for improving productivity Acevedo‐Siaca, Liana G.; Coe, Robert; Wang, Yu New Phytologist, Vol. 227, Issue 4 https://doi.org/10.1111/nph.16454	journal	March 2020
Functional phenomics and genetics of the root economics space in winter wheat using high‐throughput phenotyping of respiration and architecture Guo, Haichao; Ayalew, Habtamu; Seethepalli, Anand New Phytologist, Vol. 232, Issue 1 https://doi.org/10.1111/nph.17329	journal	April 2021
miR444a has multiple functions in the rice nitrate-signaling pathway Yan, Yongsheng; Wang, Huacai; Hamera, Sadia The Plant Journal, Vol. 78, Issue 1 https://doi.org/10.1111/tpj.12446	journal	March 2014
The genetics underlying natural variation of plant-plant interactions, a beloved but forgotten member of the family of biotic interactions Subrahmaniam, Harihar Jaishree; Libourel, Cyril; Journet, Etienne-Pascal The Plant Journal, Vol. 93, Issue 4 https://doi.org/10.1111/tpj.13799	journal	January 2018
Multiscale computational models can guide experimentation and targeted measurements for crop improvement Benes, Bedrich; Guan, Kaiyu; Lang, Meagan The Plant Journal, Vol. 103, Issue 1 https://doi.org/10.1111/tpj.14722	journal	March 2020
Synthetic glycolate metabolism pathways stimulate crop growth and productivity in the field South, Paul F.; Cavanagh, Amanda P.; Liu, Helen W. Science, Vol. 363, Issue 6422 https://doi.org/10.1126/science.aat9077	journal	January 2019
Plant roots sense soil compaction through restricted ethylene diffusion Pandey, Bipin K.; Huang, Guoqiang; Bhosale, Rahul Science, Vol. 371, Issue 6526 https://doi.org/10.1126/science.abf3013	journal	January 2021
Multi-trait Genomic Selection Methods for Crop Improvement Moeinizade, Saba; Kusmec, Aaron; Hu, Guiping Genetics, Vol. 215, Issue 4 https://doi.org/10.1534/genetics.120.303305	journal	June 2020
Analysis and Interpretation of Factors Which Contribute to Efficiency of Nitrogen Utilization ¹ Moll, R. H.; Kamprath, E. J.; Jackson, W. A. Agronomy Journal, Vol. 74, Issue 3 https://doi.org/10.2134/agronj1982.00021962007400030037x	journal	May 1982
Nitrogen Efficiency Component Analysis: An Evaluation of Cropping System Differences in Productivity Huggins, D. R.; Pan, W. L. Agronomy Journal, Vol. 85, Issue 4 https://doi.org/10.2134/agronj1993.00021962008500040022x	journal	July 1993
Screening Corn Hybrids for Cold Tolerance using Morphological Traits for Early-Season Seeding Wijewardana, Chathurika; Hock, Matthew; Henry, Brien Crop Science, Vol. 55, Issue 2 https://doi.org/10.2135/cropsci2014.07.0487	journal	March 2015
Integration of root phenes for soil resource acquisition York, Larry M.; Nord, Eric A.; Lynch, Jonathan P. Frontiers in Plant Science, Vol. 4 https://doi.org/10.3389/fpls.2013.00355	journal	January 2013
QTLs and Potential Candidate Genes for Heat Stress Tolerance Identified from the Mapping Populations Specifically Segregating for Fv/Fm in Wheat Sharma, Dew Kumari; Torp, Anna Maria; Rosenqvist, Eva Frontiers in Plant Science, Vol. 8 https://doi.org/10.3389/fpls.2017.01668	journal	September 2017
Genetic Dissection of Root Morphological Traits Related to Nitrogen Use Efficiency in Brassica napus L. under Two Contrasting Nitrogen Conditions Wang, Jie; Dun, Xiaoling; Shi, Jiaqin Frontiers in Plant Science, Vol. 8 https://doi.org/10.3389/fpls.2017.01709	journal	September 2017
Modeling Illustrates That Genomic Selection Provides New Opportunities for Intercrop Breeding Bančič, Jon; Werner, Christian R.; Gaynor, R. Chris Frontiers in Plant Science, Vol. 12 https://doi.org/10.3389/fpls.2021.605172	journal	February 2021
Multi-Species Genomics-Enabled Selection for Improving Agroecosystems Across Space and Time Wolfe, Marnin D.; Jannink, Jean-Luc; Kantar, Michael B. Frontiers in Plant Science, Vol. 12 https://doi.org/10.3389/fpls.2021.665349	journal	June 2021
A Research Road Map for Responsible Use of Agricultural Nitrogen Udvardi, Michael; Below, Frederick E.; Castellano, Michael J. Frontiers in Sustainable Food Systems, Vol. 5 https://doi.org/10.3389/fsufs.2021.660155	journal	May 2021

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