1
|
Wang Z, Yung WS, Gao Y, Huang C, Zhao X, Chen Y, Li MW, Lam HM. From phenotyping to genetic mapping: identifying water-stress adaptations in legume root traits. BMC PLANT BIOLOGY 2024; 24:749. [PMID: 39103780 DOI: 10.1186/s12870-024-05477-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 08/01/2024] [Indexed: 08/07/2024]
Abstract
BACKGROUND Climate change induces perturbation in the global water cycle, profoundly impacting water availability for agriculture and therefore global food security. Water stress encompasses both drought (i.e. water scarcity) that causes the drying of soil and subsequent plant desiccation, and flooding, which results in excess soil water and hypoxia for plant roots. Terrestrial plants have evolved diverse mechanisms to cope with soil water stress, with the root system serving as the first line of defense. The responses of roots to water stress can involve both structural and physiological changes, and their plasticity is a vital feature of these adaptations. Genetic methodologies have been extensively employed to identify numerous genetic loci linked to water stress-responsive root traits. This knowledge is immensely important for developing crops with optimal root systems that enhance yield and guarantee food security under water stress conditions. RESULTS This review focused on the latest insights into modifications in the root system architecture and anatomical features of legume roots in response to drought and flooding stresses. Special attention was given to recent breakthroughs in understanding the genetic underpinnings of legume root development under water stress. The review also described various root phenotyping techniques and examples of their applications in different legume species. Finally, the prevailing challenges and prospective research avenues in this dynamic field as well as the potential for using root system architecture as a breeding target are discussed. CONCLUSIONS This review integrated the latest knowledge of the genetic components governing the adaptability of legume roots to water stress, providing a reference for using root traits as the new crop breeding targets.
Collapse
Affiliation(s)
- Zhili Wang
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518057, China
| | - Wai-Shing Yung
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518057, China
| | - Yamin Gao
- College of Resources and Environment, Northwest A&F University, Yangling, Shaanxi, 712100, China
| | - Cheng Huang
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China
- Key Laboratory of the Ministry of Education for Crop Physiology and Molecular Biology, College of Agronomy, Hunan Agricultural University, Changsha, 410128, China
| | - Xusheng Zhao
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China
| | - Yinglong Chen
- The UWA Institute of Agriculture, & School of Agriculture and Environment, The University of Western Australia, Perth, WA, 6001, Australia
| | - Man-Wah Li
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518057, China
| | - Hon-Ming Lam
- Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China.
- Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518057, China.
- Institute of Environment, Energy and Sustainability, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China.
| |
Collapse
|
2
|
Klein SP, Kaeppler SM, Brown KM, Lynch JP. Integrating GWAS with a gene co-expression network better prioritizes candidate genes associated with root metaxylem phenes in maize. THE PLANT GENOME 2024:e20489. [PMID: 39034891 DOI: 10.1002/tpg2.20489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2024] [Revised: 04/17/2024] [Accepted: 05/02/2024] [Indexed: 07/23/2024]
Abstract
Root metaxylems are phenotypically diverse structures whose function is particularly important under drought stress. Significant research has dissected the genetic machinery underlying metaxylem phenotypes in dicots, but that of monocots are relatively underexplored. In maize (Zea mays), a robust pipeline integrated a genome-wide association study (GWAS) of root metaxylem phenes under well-watered and water-stress conditions with a gene co-expression network to prioritize the strongest gene candidates. We identified 244 candidate genes by GWAS, of which 103 reside in gene co-expression modules most relevant to xylem development. Several candidate genes may be involved in biosynthetic processes related to the cell wall, hormone signaling, oxidative stress responses, and drought responses. Of those, six gene candidates were detected in multiple root metaxylem phenes in both well-watered and water-stress conditions. We posit that candidate genes that are more essential to network function based on gene co-expression (i.e., hubs or bottlenecks) should be prioritized and classify 33 essential genes for further investigation. Our study demonstrates a new strategy for identifying promising gene candidates and presents several gene candidates that may enhance our understanding of vascular development and responses to drought in cereals.
Collapse
Affiliation(s)
- Stephanie P Klein
- Interdepartmental Graduate Degree Program in Plant Biology, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - Shawn M Kaeppler
- Department of Agronomy, University of Wisconsin, Madison, Wisconsin, USA
| | - Kathleen M Brown
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| |
Collapse
|
3
|
Sidhu JS, Lynch JP. Cortical cell size regulates root metabolic cost. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 118:1343-1357. [PMID: 38340035 DOI: 10.1111/tpj.16672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2023] [Accepted: 01/25/2024] [Indexed: 02/12/2024]
Abstract
It has been hypothesized that vacuolar occupancy in mature root cortical parenchyma cells regulates root metabolic cost and thereby plant fitness under conditions of drought, suboptimal nutrient availability, and increased soil mechanical impedance. However, the mechanistic role of vacuoles in reducing root metabolic cost was unproven. Here we provide evidence to support this hypothesis. We first show that root cortical cell size is determined by both cortical cell diameter and cell length. Significant genotypic variation for both cortical cell diameter (~1.1- to 1.5-fold) and cortical cell length (~ 1.3- to 7-fold) was observed in maize and wheat. GWAS and QTL analyses indicate cortical cell diameter and length are heritable and under independent genetic control. We identify candidate genes for both phenes. Empirical results from isophenic lines contrasting for cortical cell diameter and length show that increased cell size, due to either diameter or length, is associated with reduced root respiration, nitrogen content, and phosphorus content. RootSlice, a functional-structural model of root anatomy, predicts that an increased vacuolar: cytoplasmic ratio per unit cortical volume causes reduced root respiration and nutrient content. Ultrastructural imaging of cortical parenchyma cells with varying cortical diameter and cortical cell length confirms the in silico predictions and shows that an increase in cell size is correlated with increased vacuolar volume and reduced cytoplasmic volume. Vacuolar occupancy and its relationship with cell size merits further investigation as a phene for improving crop adaptation to edaphic stress.
Collapse
Affiliation(s)
- Jagdeep Singh Sidhu
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| |
Collapse
|
4
|
Zhang Y, Gu S, Du J, Huang G, Shi J, Lu X, Wang J, Yang W, Guo X, Zhao C. Plant microphenotype: from innovative imaging to computational analysis. PLANT BIOTECHNOLOGY JOURNAL 2024; 22:802-818. [PMID: 38217351 PMCID: PMC10955502 DOI: 10.1111/pbi.14244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Revised: 11/09/2023] [Accepted: 11/11/2023] [Indexed: 01/15/2024]
Abstract
The microphenotype plays a key role in bridging the gap between the genotype and the complex macro phenotype. In this article, we review the advances in data acquisition and the intelligent analysis of plant microphenotyping and present applications of microphenotyping in plant science over the past two decades. We then point out several challenges in this field and suggest that cross-scale image acquisition strategies, powerful artificial intelligence algorithms, advanced genetic analysis, and computational phenotyping need to be established and performed to better understand interactions among genotype, environment, and management. Microphenotyping has entered the era of Microphenotyping 3.0 and will largely advance functional genomics and plant science.
Collapse
Affiliation(s)
- Ying Zhang
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Shenghao Gu
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Jianjun Du
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Guanmin Huang
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Jiawei Shi
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, China
| | - Xianju Lu
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Jinglu Wang
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Wanneng Yang
- National Key Laboratory of Crop Genetic Improvement, National Center of Plant Gene Research, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan, China
| | - Xinyu Guo
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| | - Chunjiang Zhao
- Beijing Key Lab of Digital Plant, Information Technology Research Center, Beijing Academy of Agriculture and Forestry Sciences, Beijing, China
| |
Collapse
|
5
|
McLaughlin CM, Li M, Perryman M, Heymans A, Schneider H, Lasky JR, Sawers RJH. Evidence that variation in root anatomy contributes to local adaptation in Mexican native maize. Evol Appl 2024; 17:e13673. [PMID: 38468714 PMCID: PMC10925829 DOI: 10.1111/eva.13673] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Revised: 02/07/2024] [Accepted: 02/22/2024] [Indexed: 03/13/2024] Open
Abstract
Mexican native maize (Zea mays ssp. mays) is adapted to a wide range of climatic and edaphic conditions. Here, we focus specifically on the potential role of root anatomical variation in this adaptation. Given the investment required to characterize root anatomy, we present a machine-learning approach using environmental descriptors to project trait variation from a relatively small training panel onto a larger panel of genotyped and georeferenced Mexican maize accessions. The resulting models defined potential biologically relevant clines across a complex environment that we used subsequently for genotype-environment association. We found evidence of systematic variation in maize root anatomy across Mexico, notably a prevalence of trait combinations favoring a reduction in axial hydraulic conductance in varieties sourced from cooler, drier highland areas. We discuss our results in the context of previously described water-banking strategies and present candidate genes that are associated with both root anatomical and environmental variation. Our strategy is a refinement of standard environmental genome-wide association analysis that is applicable whenever a training set of georeferenced phenotypic data is available.
Collapse
Affiliation(s)
- Chloee M. McLaughlin
- Intercollege Graduate Degree Program in Plant BiologyThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | - Meng Li
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | - Melanie Perryman
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | - Adrien Heymans
- Umeå Plant Science Centre, Department of Forest Genetics and Plant PhysiologySwedish University of Agricultural SciencesUmeåSweden
- Earth and Life InstituteUC LouvainLouvain‐la‐NeuveBelgium
| | - Hannah Schneider
- Department of Physiology and Cell BiologyLeibniz Institute for Plant Genetics and Crop Plant Research (IPK)SeelandGermany
| | - Jesse R. Lasky
- Department of BiologyThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | - Ruairidh J. H. Sawers
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| |
Collapse
|
6
|
Kirschner GK. Getting to the roots of metabolism: the role of fermentation in aerobic conditions in maize root tissues. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:1551-1552. [PMID: 38078536 DOI: 10.1111/tpj.16565] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2023]
|
7
|
Hunt H, Leape S, Sidhu JS, Ajmera I, Lynch JP, Ratcliffe RG, Sweetlove LJ. A role for fermentation in aerobic conditions as revealed by computational analysis of maize root metabolism during growth by cell elongation. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:1553-1570. [PMID: 37831626 DOI: 10.1111/tpj.16478] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 09/07/2023] [Accepted: 09/11/2023] [Indexed: 10/15/2023]
Abstract
The root is a well-studied example of cell specialisation, yet little is known about the metabolism that supports the transport functions and growth of different root cell types. To address this, we used computational modelling to study metabolism in the elongation zone of a maize lateral root. A functional-structural model captured the cell-anatomical features of the root and modelled how they changed as the root elongated. From these data, we derived constraints for a flux balance analysis model that predicted metabolic fluxes of the 11 concentric rings of cells in the root. We discovered a distinct metabolic flux pattern in the cortical cell rings, endodermis and pericycle (but absent in the epidermis) that involved a high rate of glycolysis and production of the fermentation end-products lactate and ethanol. This aerobic fermentation was confirmed experimentally by metabolite analysis. The use of fermentation in the model was not obligatory but was the most efficient way to meet the specific demands for energy, reducing power and carbon skeletons of expanding cells. Cytosolic acidification was avoided in the fermentative mode due to the substantial consumption of protons by lipid synthesis. These results expand our understanding of fermentative metabolism beyond that of hypoxic niches and suggest that fermentation could play an important role in the metabolism of aerobic tissues.
Collapse
Affiliation(s)
- Hilary Hunt
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Stefan Leape
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Jagdeep Singh Sidhu
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| | - Ishan Ajmera
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, 16802, USA
| | - R George Ratcliffe
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| | - Lee J Sweetlove
- Department of Biology, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK
| |
Collapse
|
8
|
Cunha Neto IL, Hall BT, Lanba AR, Blosenski JD, Onyenedum JG. Laser ablation tomography (LATscan) as a new tool for anatomical studies of woody plants. THE NEW PHYTOLOGIST 2023; 239:429-444. [PMID: 36811411 DOI: 10.1111/nph.18831] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2022] [Accepted: 02/09/2023] [Indexed: 06/02/2023]
Abstract
Traditionally, botanists study plant anatomy by carefully sectioning samples, histological staining to highlight tissues of interests, then imaging slides under light microscopy. This approach generates significant details; however, this workflow is laborious, particularly in woody vines (lianas) with heterogeneous anatomies, and ultimately yields two-dimensional (2D) images. Laser ablation tomography (LATscan) is a high-throughput imaging system that yields hundreds of images per minute. This method has proven useful for studying the structure of delicate plant tissues; however, its utility in understanding the structure of woody tissues is underexplored. We report LATscan-derived anatomical data from several stems of lianas (c. 20 mm) of seven species and compare these results with those obtained through traditional anatomical techniques. LATscan successfully allows the description of tissue composition by differentiating cell type, size, and shape, but also permits the recognition of distinct cell wall composition (e.g. lignin, suberin, cellulose) based on differential fluorescent signals on unstained samples. LATscan generate high-quality 2D images and 3D reconstructions of woody plant samples; therefore, this new technology is useful for both qualitative and quantitative analyses. This high-throughput imaging technology has the potential to bolster phenotyping of vegetative and reproductive anatomy, wood anatomy, and other biological systems.
Collapse
Affiliation(s)
- Israel L Cunha Neto
- School of Integrative Plant Sciences and L. H. Bailey Hortorium, Cornell University, NY, 14853, Ithaca, USA
| | - Benjamin T Hall
- Laser for Innovative Solutions (L4iS), Suite 261, 200 Innovation Boulevard, State College, PA, 16803, USA
| | - Asheesh R Lanba
- Laser for Innovative Solutions (L4iS), Suite 261, 200 Innovation Boulevard, State College, PA, 16803, USA
- Department of Engineering, University of Southern Maine, 37 College Ave., Gorham, ME, 04038, USA
| | - Joshua D Blosenski
- Laser for Innovative Solutions (L4iS), Suite 261, 200 Innovation Boulevard, State College, PA, 16803, USA
| | - Joyce G Onyenedum
- School of Integrative Plant Sciences and L. H. Bailey Hortorium, Cornell University, NY, 14853, Ithaca, USA
| |
Collapse
|
9
|
Lopez-Valdivia I, Yang X, Lynch JP. Large root cortical cells and reduced cortical cell files improve growth under suboptimal nitrogen in silico. PLANT PHYSIOLOGY 2023:kiad214. [PMID: 37040571 DOI: 10.1093/plphys/kiad214] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2023] [Revised: 03/13/2023] [Accepted: 03/13/2023] [Indexed: 06/19/2023]
Abstract
Suboptimal nitrogen availability is a primary constraint to plant growth. We used OpenSimRoot, a functional-structural plant/soil model, to test the hypothesis that larger root cortical cell size (CCS), reduced cortical cell file number (CCFN), and their interactions with root cortical aerenchyma (RCA) and lateral root branching density (LRBD) are useful adaptations to suboptimal soil nitrogen availability in maize (Zea mays). Reduced CCFN increased shoot dry weight over 80%. Reduced respiration, reduced nitrogen content, and reduced root diameter accounted for 23%, 20%, and 33% of increased shoot biomass, respectively. Large CCS increased shoot biomass by 24% compared with small CCS. When simulated independently, reduced respiration and reduced nutrient content increased the shoot biomass by 14% and 3%, respectively. However, increased root diameter resulting from large CCS decreased shoot biomass by 4% due to an increase in root metabolic cost. Under moderate N stress, integrated phenotypes with reduced CCFN, large CCS, and high RCA improved shoot biomass in silt loam and loamy sand soils. In contrast, integrated phenotypes composed of reduced CCFN, large CCS and reduced lateral root branching density had the greatest growth in silt loam, while phenotypes with reduced CCFN, large CCS and high LRBD were the best performers in loamy sands. Our results support the hypothesis that larger CCS, reduced CCFN, and their interactions with RCA and LRBD could increase nitrogen acquisition by reducing root respiration and root nutrient demand. Phene synergisms may exist between CCS, CCFN, and LRBD. CCS and CCFN merit consideration for breeding cereal crops with improved nitrogen acquisition, which is critical for global food security.
Collapse
Affiliation(s)
- Ivan Lopez-Valdivia
- Department of Plant Science, The Pennsylvania State University, University Park, PA, U.S.A., 16802
| | - Xiyu Yang
- Department of Plant Science, The Pennsylvania State University, University Park, PA, U.S.A., 16802
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, PA, U.S.A., 16802
| |
Collapse
|
10
|
Czymmek KJ, Duncan KE, Berg H. Realizing the Full Potential of Advanced Microscopy Approaches for Interrogating Plant-Microbe Interactions. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2023; 36:245-255. [PMID: 36947723 DOI: 10.1094/mpmi-10-22-0208-fi] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Microscopy has served as a fundamental tool for insight and discovery in plant-microbe interactions for centuries. From classical light and electron microscopy to corresponding specialized methods for sample preparation and cellular contrasting agents, these approaches have become routine components in the toolkit of plant and microbiology scientists alike to visualize, probe and understand the nature of host-microbe relationships. Over the last three decades, three-dimensional perspectives led by the development of electron tomography, and especially, confocal techniques continue to provide remarkable clarity and spatial detail of tissue and cellular phenomena. Confocal and electron microscopy provide novel revelations that are now commonplace in medium and large institutions. However, many other cutting-edge technologies and sample preparation workflows are relatively unexploited yet offer tremendous potential for unprecedented advancement in our understanding of the inner workings of pathogenic, beneficial, and symbiotic plant-microbe interactions. Here, we highlight key applications, benefits, and challenges of contemporary advanced imaging platforms for plant-microbe systems with special emphasis on several recently developed approaches, such as light-sheet, single molecule, super-resolution, and adaptive optics microscopy, as well as ambient and cryo-volume electron microscopy, X-ray microscopy, and cryo-electron tomography. Furthermore, the potential for complementary sample preparation methodologies, such as optical clearing, expansion microscopy, and multiplex imaging, will be reviewed. Our ultimate goal is to stimulate awareness of these powerful cutting-edge technologies and facilitate their appropriate application and adoption to solve important and unresolved biological questions in the field. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.
Collapse
Affiliation(s)
- Kirk J Czymmek
- Donald Danforth Plant Science Center, Saint Louis, MO 63132, U.S.A
- Advanced Bioimaging Laboratory, Donald Danforth Plant Science Center, Saint Louis, MO 63132, U.S.A
| | - Keith E Duncan
- Donald Danforth Plant Science Center, Saint Louis, MO 63132, U.S.A
| | - Howard Berg
- Donald Danforth Plant Science Center, Saint Louis, MO 63132, U.S.A
| |
Collapse
|
11
|
Schneider HM. Functional implications of multiseriate cortical sclerenchyma for soil resource capture and crop improvement. AOB PLANTS 2022; 14:plac050. [PMID: 36545297 PMCID: PMC9762723 DOI: 10.1093/aobpla/plac050] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2022] [Accepted: 10/17/2022] [Indexed: 06/09/2023]
Abstract
Suboptimal nutrient and water availability are primary constraints to crop growth. Global agriculture requires crops with greater nutrient and water efficiency. Multiseriate cortical sclerenchyma (MCS), a root anatomical trait characterized by small cells with thick cell walls encrusted with lignin in the outer cortex, has been shown to be an important trait for adaptation in maize and wheat in mechanically impeded soils. However, MCS has the potential to improve edaphic stress tolerance in a number of different crop taxa and in a number of different environments. This review explores the functional implications of MCS as an adaptive trait for water and nutrient acquisition and discusses future research perspectives on this trait for incorporation into crop breeding programs. For example, MCS may influence water and nutrient uptake, resistance to pests, symbiotic interactions, microbial interactions in the rhizosphere and soil carbon deposition. Root anatomical phenotypes are underutilized; however, important breeding targets for the development of efficient, productive and resilient crops urgently needed in global agriculture.
Collapse
|
12
|
Siangliw JL, Thunnom B, Natividad MA, Quintana MR, Chebotarov D, McNally KL, Lynch JP, Brown KM, Henry A. Response of Southeast Asian rice root architecture and anatomy phenotypes to drought stress. FRONTIERS IN PLANT SCIENCE 2022; 13:1008954. [PMID: 36340400 PMCID: PMC9629509 DOI: 10.3389/fpls.2022.1008954] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/01/2022] [Accepted: 09/27/2022] [Indexed: 06/16/2023]
Abstract
Drought stress in Southeast Asia greatly affects rice production, and the rice root system plays a substantial role in avoiding drought stress. In this study, we examined the phenotypic and genetic correlations among root anatomical, morphological, and agronomic phenotypes over multiple field seasons. A set of >200 rice accessions from Southeast Asia (a subset of the 3000 Rice Genomes Project) was characterized with the aim to identify root morphological and anatomical phenotypes related to productivity under drought stress. Drought stress resulted in slight increases in the basal metaxylem and stele diameter of nodal roots. Although few direct correlations between root phenotypes and grain yield were identified, biomass was consistently positively correlated with crown root number and negatively correlated with stele diameter. The accessions with highest grain yield were characterized by higher crown root numbers and median metaxylem diameter and smaller stele diameter. Genome-wide association study (GWAS) revealed 162 and 210 significant SNPs associated with root phenotypes in the two seasons which resulted in identification of 59 candidate genes related to root development. The gene OsRSL3 was found in a QTL region for median metaxylem diameter. Four SNPs in OsRSL3 were found that caused amino acid changes and significantly associated with the root phenotype. Based on the haplotype analysis for median metaxylem diameter, the rice accessions studied were classified into five allele combinations in order to identify the most favorable haplotypes. The candidate genes and favorable haplotypes provide information useful for the genetic improvement of root phenotypes under drought stress.
Collapse
Affiliation(s)
- Jonaliza L. Siangliw
- National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, Pathum Thani, Thailand
| | - Burin Thunnom
- National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, Pathum Thani, Thailand
| | - Mignon A. Natividad
- Rice Breeding Innovations Platform, International Rice Research Institute, Los Baños, Philippines
| | - Marinell R. Quintana
- Rice Breeding Innovations Platform, International Rice Research Institute, Los Baños, Philippines
| | - Dmytro Chebotarov
- Rice Breeding Innovations Platform, International Rice Research Institute, Los Baños, Philippines
| | - Kenneth L. McNally
- Rice Breeding Innovations Platform, International Rice Research Institute, Los Baños, Philippines
| | - Jonathan P. Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, PA, United States
| | - Kathleen M. Brown
- Department of Plant Science, The Pennsylvania State University, University Park, PA, United States
| | - Amelia Henry
- Rice Breeding Innovations Platform, International Rice Research Institute, Los Baños, Philippines
| |
Collapse
|
13
|
Clément C, Schneider HM, Dresbøll DB, Lynch JP, Thorup-Kristensen K. Root and xylem anatomy varies with root length, root order, soil depth and environment in intermediate wheatgrass (Kernza®) and alfalfa. ANNALS OF BOTANY 2022; 130:367-382. [PMID: 35468194 PMCID: PMC9486898 DOI: 10.1093/aob/mcac058] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Accepted: 04/25/2022] [Indexed: 06/08/2023]
Abstract
BACKGROUND AND AIMS Deep roots (i.e. >1 m depth) are important for crops to access water when the topsoil is dry. Root anatomy and hydraulic conductance play important roles in the uptake of soil water, particularly water located deep in the soil. We investigated whether root and xylem anatomy vary as a function of root type, order and length, or with soil depth in roots of two deep-rooted perennial crops: intermediate wheatgrass [Thinopyrum intermedium (Kernza®)] and alfalfa (Medicago sativa). We linked the expression of these anatomical traits to the plants' capacity to take up water from deep soil layers. METHODS Using laser ablation tomography, we compared the roots of the two crops for cortical area, number and size of metaxylem vessels, and their estimated root axial hydraulic conductance (ERAHCe). The deepest roots investigated were located at soil depths of 2.25 and at 3.5 m in the field and in rhizoboxes, respectively. Anatomical differences were characterized along 1-m-long individual roots, among root types and orders, as well as between environmental conditions. KEY RESULTS For both crops, a decrease in the number and diameter, or both, of metaxylem vessels along individual root segments and with soil depth in the field resulted in a decrease in ERAHCe. Alfalfa, with a greater number of metaxylem vessels per root throughout the soil profile and, on average, a 4-fold greater ERAHCe, took up more water from the deep soil layers than intermediate wheatgrass. Root anatomical traits were significantly different across root types, classes and growth conditions. CONCLUSIONS Root anatomical traits are important tools for the selection of crops with enhanced exploitation of deep soil water. The development and breeding of perennial crops for improved subsoil exploitation will be aided by greater understanding of root phenotypes linked to deep root growth and activity.
Collapse
Affiliation(s)
| | - Hannah M Schneider
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802, USA
| | - Dorte Bodin Dresbøll
- Department of Plant and Environmental Science, University of Copenhagen, 1871 Frederiksberg, Denmark
| | - Jonathan P Lynch
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802, USA
| | | |
Collapse
|
14
|
Strock CF, Schneider HM, Lynch JP. Anatomics: High-throughput phenotyping of plant anatomy. TRENDS IN PLANT SCIENCE 2022; 27:520-523. [PMID: 35307268 DOI: 10.1016/j.tplants.2022.02.009] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Revised: 02/20/2022] [Accepted: 02/22/2022] [Indexed: 06/14/2023]
Abstract
Anatomics is a novel phenotyping strategy focused on high-throughput imaging and quantification of plant anatomy from field-grown plants. Here we highlight its potential applications for genetic and physiological analysis of plant anatomical phenotypes.
Collapse
Affiliation(s)
| | - Hannah M Schneider
- Centre for Crop Systems Analysis, Wageningen University & Research, Wageningen, The Netherlands
| | - Jonathan P Lynch
- Department of Plant Sciences, The Pennsylvania State University, State College, PA, USA.
| |
Collapse
|
15
|
Abstract
Despite their importance in supplying nutrients, root traits related to maize domestication are scarce. We used laser ablation tomography to characterize the root architecture and anatomy of 5,300-y-old maize specimens recovered from San Marcos (Tehuacán, Mexico), revealing exquisite preservation of their cellular organization. Outer cortical cells contained thick and lignified walls typical of extant maize adapted to hard soils. By contrast, the absence of seminal roots is only found in the maize ancestor, teosinte. Two genes important for seminal root development had mutations that could relate to their absence. Our results indicate that some traits related to drought adaptation were not fully present in the earliest maize from Tehuacán, providing clues to conditions prevailing during early maize cultivation. Efforts to understand the phenotypic transition that gave rise to maize from teosinte have mainly focused on the analysis of aerial organs, with little insights into possible domestication traits affecting the root system. Archeological excavations in San Marcos cave (Tehuacán, Mexico) yielded two well-preserved 5,300 to 4,970 calibrated y B.P. specimens (SM3 and SM11) corresponding to root stalks composed of at least five nodes with multiple nodal roots and, in case, a complete embryonic root system. To characterize in detail their architecture and anatomy, we used laser ablation tomography to reconstruct a three-dimensional segment of their nodal roots and a scutellar node, revealing exquisite preservation of the inner tissue and cell organization and providing reliable morphometric parameters for cellular characteristics of the stele and cortex. Whereas SM3 showed multiple cortical sclerenchyma typical of extant maize, the scutellar node of the SM11 embryonic root system completely lacked seminal roots, an attribute found in extant teosinte and in two specific maize mutants: root with undetectable meristem1 (rum1) and rootless concerning crown and seminal roots (rtcs). Ancient DNA sequences of SM10—a third San Marcos specimen of equivalent age to SM3 and SM11—revealed the presence of mutations in the transcribed sequence of both genes, offering the possibility for some of these mutations to be involved in the lack of seminal roots of the ancient specimens. Our results indicate that the root system of the earliest maize from Tehuacán resembled teosinte in traits important for maize drought adaptation.
Collapse
|
16
|
Ndoye MS, Burridge J, Bhosale R, Grondin A, Laplaze L. Root traits for low input agroecosystems in Africa: Lessons from three case studies. PLANT, CELL & ENVIRONMENT 2022; 45:637-649. [PMID: 35037274 DOI: 10.1111/pce.14256] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2021] [Accepted: 12/09/2021] [Indexed: 06/14/2023]
Abstract
In many regions across Africa, agriculture is largely based on low-input and small-holder farming systems that use little inorganic fertilisers and have limited access to irrigation and mechanisation. Improving agricultural practices and developing new cultivars adapted to these environments, where production already suffers from climate change, is a major priority for food security. Here, we illustrate how breeding for specific root traits could improve crop resilience in Africa using three case studies covering very contrasting low-input agroecosystems. We first review how greater basal root whorl number and longer and denser root hairs increased P acquisition efficiency and yield in common bean in South East Africa. We then discuss how water-saving strategies, root hair density and deep root growth could be targeted to improve sorghum and pearl millet yield in West Africa. Finally, we evaluate how breeding for denser root systems in the topsoil and interactions with arbuscular mycorrhizal fungi could be mobilised to optimise water-saving alternate wetting and drying practices in West African rice agroecosystems. We conclude with a discussion on how to evaluate the utility of root traits and how to make root trait selection feasible for breeders so that improved varieties can be made available to farmers through participatory approaches.
Collapse
Affiliation(s)
- Mame S Ndoye
- CERAAS, Thies Escale, Thies, Senegal
- LMI LAPSE, Centre de Recherche ISRA/IRD de Bel Air, Dakar, Senegal
- UMR DIADE, Université de Montpellier, IRD, CIRAD, Montpellier, France
| | - James Burridge
- UMR DIADE, Université de Montpellier, IRD, CIRAD, Montpellier, France
| | - Rahul Bhosale
- Future Food Beacon of Excellence and School of Biosciences, University of Nottingham, Nottingham, UK
| | - Alexandre Grondin
- CERAAS, Thies Escale, Thies, Senegal
- LMI LAPSE, Centre de Recherche ISRA/IRD de Bel Air, Dakar, Senegal
- UMR DIADE, Université de Montpellier, IRD, CIRAD, Montpellier, France
| | - Laurent Laplaze
- LMI LAPSE, Centre de Recherche ISRA/IRD de Bel Air, Dakar, Senegal
- UMR DIADE, Université de Montpellier, IRD, CIRAD, Montpellier, France
| |
Collapse
|
17
|
Vanhees DJ, Schneider HM, Sidhu JS, Loades KW, Bengough AG, Bennett MJ, Pandey BK, Brown KM, Mooney SJ, Lynch JP. Soil penetration by maize roots is negatively related to ethylene-induced thickening. PLANT, CELL & ENVIRONMENT 2022; 45:789-804. [PMID: 34453329 PMCID: PMC9291135 DOI: 10.1111/pce.14175] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Revised: 08/20/2021] [Accepted: 08/22/2021] [Indexed: 05/22/2023]
Abstract
Radial expansion is a classic response of roots to a mechanical impedance that has generally been assumed to aid penetration. We analysed the response of maize nodal roots to impedance to test the hypothesis that radial expansion is not related to the ability of roots to cross a compacted soil layer. Genotypes varied in their ability to cross the compacted layer, and those with a steeper approach to the compacted layer or less radial expansion in the compacted layer were more likely to cross the layer and achieve greater depth. Root radial expansion was due to cortical cell size expansion, while cortical cell file number remained constant. Genotypes and nodal root classes that exhibited radial expansion in the compacted soil layer generally also thickened in response to exogenous ethylene in hydroponic culture, that is, radial expansion in response to ethylene was correlated with the thickening response to impedance in soil. We propose that ethylene insensitive roots, that is, those that do not thicken and can overcome impedance, have a competitive advantage under mechanically impeded conditions as they can maintain their elongation rates. We suggest that prolonged exposure to ethylene could function as a stop signal for axial root growth.
Collapse
Affiliation(s)
- Dorien J. Vanhees
- School of BiosciencesUniversity of Nottingham, Sutton Bonington CampusLeicestershireUK
- The James Hutton InstituteInvergowrieUK
| | - Hannah M. Schneider
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
- Centre for Crop Systems AnalysisWageningen University & ResearchWageningenThe Netherlands
| | - Jagdeep Singh Sidhu
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | | | - A. Glyn Bengough
- The James Hutton InstituteInvergowrieUK
- School of Science and EngineeringThe University of DundeeDundeeUK
| | - Malcolm J. Bennett
- School of BiosciencesUniversity of Nottingham, Sutton Bonington CampusLeicestershireUK
| | - Bipin K. Pandey
- School of BiosciencesUniversity of Nottingham, Sutton Bonington CampusLeicestershireUK
| | - Kathleen M. Brown
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| | - Sacha J. Mooney
- School of BiosciencesUniversity of Nottingham, Sutton Bonington CampusLeicestershireUK
| | - Jonathan P. Lynch
- School of BiosciencesUniversity of Nottingham, Sutton Bonington CampusLeicestershireUK
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPennsylvaniaUSA
| |
Collapse
|
18
|
Duncan KE, Czymmek KJ, Jiang N, Thies AC, Topp CN. X-ray microscopy enables multiscale high-resolution 3D imaging of plant cells, tissues, and organs. PLANT PHYSIOLOGY 2022; 188:831-845. [PMID: 34618094 PMCID: PMC8825331 DOI: 10.1093/plphys/kiab405] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 07/29/2021] [Indexed: 05/12/2023]
Abstract
Capturing complete internal anatomies of plant organs and tissues within their relevant morphological context remains a key challenge in plant science. While plant growth and development are inherently multiscale, conventional light, fluorescence, and electron microscopy platforms are typically limited to imaging of plant microstructure from small flat samples that lack a direct spatial context to, and represent only a small portion of, the relevant plant macrostructures. We demonstrate technical advances with a lab-based X-ray microscope (XRM) that bridge the imaging gap by providing multiscale high-resolution three-dimensional (3D) volumes of intact plant samples from the cell to the whole plant level. Serial imaging of a single sample is shown to provide sub-micron 3D volumes co-registered with lower magnification scans for explicit contextual reference. High-quality 3D volume data from our enhanced methods facilitate sophisticated and effective computational segmentation. Advances in sample preparation make multimodal correlative imaging workflows possible, where a single resin-embedded plant sample is scanned via XRM to generate a 3D cell-level map, and then used to identify and zoom in on sub-cellular regions of interest for high-resolution scanning electron microscopy. In total, we present the methodologies for use of XRM in the multiscale and multimodal analysis of 3D plant features using numerous economically and scientifically important plant systems.
Collapse
Affiliation(s)
- Keith E Duncan
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
| | - Kirk J Czymmek
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
| | - Ni Jiang
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
| | | | - Christopher N Topp
- Donald Danforth Plant Science Center, St Louis, Missouri 63132, USA
- Author for communication:
| |
Collapse
|
19
|
Hazman MY, Kabil FF. Maize root responses to drought stress depend on root class and axial position. JOURNAL OF PLANT RESEARCH 2022; 135:105-120. [PMID: 34562205 DOI: 10.1007/s10265-021-01348-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2021] [Accepted: 09/16/2021] [Indexed: 06/13/2023]
Abstract
In this study we tested the hypotheses that root classes would exhibit distinctive anatomical and architectural responses to drought stress, and that those responses would vary along the root axes. The root systems of four maize (Zea mays L.) sweet corn genotypes designated SC1, SC2, SC3 and SC4 were phenotyped under well-watered and drought treatments in greenhouse mesocosms, permitting increasing stratification of moisture availability as the drought progressed. Anatomical and architectural responses to drought were evaluated for each root class. Lignin distribution was assessed by image processing of UV-illuminated root cross-sections acquired by laser ablation tomography. The two cultivars with less biomass reduction under drought, SC3 and SC4, substantially enhanced lateral root development along the apical segments of axial roots when plants were grown with drought stress. These segments grew into the deeper part of the mesocosm where more moisture was available. Apical segments of the axial and large lateral roots from drought-stressed plants were thicker and had greater theoretical axial water conductance than basal segments, especially in SC3 and SC4. Basal segments of crown roots of SC3 and SC4 showed increased lignification of the stele under drought. Root anatomical and architectural responses to drought are complex and vary among cultivars and root classes, and along root axes. Drought-induced proliferation of lateral roots on apical segments of axial roots would be expected to enhance deep water acquisition, while lignification of axial roots could help preserve axial water transport.
Collapse
Affiliation(s)
- Mohamed Y Hazman
- Agricultural Genetic Engineering Research Institute (AGERI), Agricultural Research Centre, 9 Gamma St., Giza, 12619, Egypt.
| | - Farida F Kabil
- Vegetable Crops Department, Faculty of Agriculture, Cairo University, Gamma St., Giza, 12613, Egypt
| |
Collapse
|
20
|
Martínez-Gómez J, Atluri TAM, Rose IJ, Holliday AJ, Strock CF, Lynch JP, Miller WB, Stevenson DW, Specht CD. Developmental Morphology and Anatomy Shed Light on Both Parallel and Convergent Evolution of the Umbellate Inflorescence in Monocots, Underlain by a New Variant of Metatopy. FRONTIERS IN PLANT SCIENCE 2022; 13:873505. [PMID: 35574142 PMCID: PMC9100582 DOI: 10.3389/fpls.2022.873505] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2022] [Accepted: 03/28/2022] [Indexed: 05/22/2023]
Abstract
Inflorescence structure is very diverse and homoplasious, yet the developmental basis of their homoplasy is poorly understood. To gain an understanding of the degree of homology that these diverse structures share, we characterize the developmental morphology and anatomy of various umbellate inflorescences across the monocots and analyzed them in an evolutionary context. To characterize branching order, we characterized the developmental morphology of multiple inflorescences with epi-illumination, and vascular anatomy with Laser Ablation Tomography, a novel high-throughput method to reconstruct three-dimensional vasculature. We used these approaches to analyze the umbellate inflorescences in five instances of presumed homoplasy: in three members of the Amaryllidaceae; in three members of the Asparagaceae, including a putatively derived raceme in Dichelostemma congestum; in Butomus umbellatus (Alismataceae), in Tacca chantrieri (Dioscoreaceae), and in umbellate structure in Fritillaria imperialis (Liliaceae). We compare these with racemes found in three members of the subfamily Scilliioideae (Asparagaceae). We find there are three convergent developmental programs that generate umbellate inflorescences in the monocots, bostryx-derived, cincinnus-derived and raceme-derived. Additionally, among the bostryx-derived umbellate inflorescence, there are three instances of parallel evolution found in the Amaryllidaceae, in two members of Brodiaeoideae (Asparagaceae), and Butomus umbellatus, all of which share the same generative developmental program. We discuss the morphological modifications necessary to generate such complex and condensed structures and use these insights to describe a new variant of metatopy, termed horizontal concaulesence. We contextualize our findings within the broader literature of monocot inflorescence development, with a focus on synthesizing descriptive developmental morphological studies.
Collapse
Affiliation(s)
- Jesús Martínez-Gómez
- Section of Plant Biology and the L.H. Bailey Hortorium, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
- *Correspondence: Jesús Martínez-Gómez,
| | - Tara A. M. Atluri
- Section of Plant Biology and the L.H. Bailey Hortorium, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Irving Jason Rose
- Section of Plant Biology and the L.H. Bailey Hortorium, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Aaliyah J. Holliday
- Section of Plant Biology and the L.H. Bailey Hortorium, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | - Christopher F. Strock
- Department of Plant Science, Pennsylvania State University, University Park, PA, United States
| | - Jonathan P. Lynch
- Department of Plant Science, Pennsylvania State University, University Park, PA, United States
| | - William B. Miller
- Section of Horticulture, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| | | | - Chelsea D. Specht
- Section of Plant Biology and the L.H. Bailey Hortorium, School of Integrative Plant Science, Cornell University, Ithaca, NY, United States
| |
Collapse
|
21
|
Burridge JD, Grondin A, Vadez V. Optimizing Crop Water Use for Drought and Climate Change Adaptation Requires a Multi-Scale Approach. FRONTIERS IN PLANT SCIENCE 2022; 13:824720. [PMID: 35574091 PMCID: PMC9100818 DOI: 10.3389/fpls.2022.824720] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 04/11/2022] [Indexed: 05/09/2023]
Abstract
Selection criteria that co-optimize water use efficiency and yield are needed to promote plant productivity in increasingly challenging and variable drought scenarios, particularly dryland cereals in the semi-arid tropics. Optimizing water use efficiency and yield fundamentally involves transpiration dynamics, where restriction of maximum transpiration rate helps to avoid early crop failure, while maximizing grain filling. Transpiration restriction can be regulated by multiple mechanisms and involves cross-organ coordination. This coordination involves complex feedbacks and feedforwards over time scales ranging from minutes to weeks, and from spatial scales ranging from cell membrane to crop canopy. Aquaporins have direct effect but various compensation and coordination pathways involve phenology, relative root and shoot growth, shoot architecture, root length distribution profile, as well as other architectural and anatomical aspects of plant form and function. We propose gravimetric phenotyping as an integrative, cross-scale solution to understand the dynamic, interwoven, and context-dependent coordination of transpiration regulation. The most fruitful breeding strategy is likely to be that which maintains focus on the phene of interest, namely, daily and season level transpiration dynamics. This direct selection approach is more precise than yield-based selection but sufficiently integrative to capture attenuating and complementary factors.
Collapse
Affiliation(s)
- James D. Burridge
- DIADE Group, Cereal Root Systems, Institute de Recherche pour le Développement/Université de Montpellier, Montpellier, France
- *Correspondence: James D. Burridge,
| | - Alexandre Grondin
- DIADE Group, Cereal Root Systems, Institute de Recherche pour le Développement/Université de Montpellier, Montpellier, France
- Adaptation des Plantes et Microorganismes Associés aux Stress Environnementaux, Laboratoire Mixte International, Dakar, Senegal
- Centre d’Étude Régional pour l’Amélioration de l’Adaptation à la Sécheresse, Thiès, Senegal
| | - Vincent Vadez
- DIADE Group, Cereal Root Systems, Institute de Recherche pour le Développement/Université de Montpellier, Montpellier, France
- Adaptation des Plantes et Microorganismes Associés aux Stress Environnementaux, Laboratoire Mixte International, Dakar, Senegal
- Centre d’Étude Régional pour l’Amélioration de l’Adaptation à la Sécheresse, Thiès, Senegal
- International Crops Research Institute for Semi-Arid Tropics (ICRISAT), Patancheru, India
- Vincent Vadez,
| |
Collapse
|
22
|
Ge S, Dupuy LX, MacDonald MP. In situ laser manipulation of root tissues in transparent soil. PLANT AND SOIL 2021; 468:475-489. [PMID: 34789948 PMCID: PMC8580905 DOI: 10.1007/s11104-021-05133-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 08/17/2021] [Indexed: 06/13/2023]
Abstract
AIMS Laser micromanipulation such as dissection or optical trapping enables remote physical modification of the activity of tissues, cells and organelles. To date, applications of laser manipulation to plant roots grown in soil have been limited. Here, we show laser manipulation can be applied in situ when plant roots are grown in transparent soil. METHODS We have developed a Q-switched laser manipulation and imaging instrument to perform controlled dissection of roots and to study light-induced root growth responses. We performed a detailed characterisation of the properties of the cutting beams through the soil, studying dissection and optical ablation. Furthermore, we also studied the use of low light doses to control the root elongation rate of lettuce seedlings (Lactuca sativa) in air, agar, gel and transparent soil. RESULTS We show that whilst soil inhomogeneities affect the thickness and circularity of the beam, those distortions are not inherently limiting. The ability to induce changes in root elongation or complete dissection of microscopic regions of the root is robust to substrate heterogeneity and microscopy set up and is maintained following the limited distortions induced by the transparent soil environment. CONCLUSIONS Our findings show that controlled in situ laser dissection of root tissues is possible with a simple and low-cost optical set-up. We also show that, in the absence of dissection, a reduced laser light power density can provide reversible control of root growth, achieving a precise "point and shoot" method for root manipulation.
Collapse
Affiliation(s)
- Sisi Ge
- School of Science and Engineering, University of Dundee, Nethergate, Dundee, DD1 4HN UK
| | - Lionel X. Dupuy
- Neiker, Department of Conservation of Natural Resources, Berreaga 1, 48.160, Derio, Spain
- The James Hutton Institute, Invergowrie, Dundee, DD2 5DA UK
- IKERBASQUE, Basque Foundation for Science, Plaza Euskadi 5, 48009 Bilbao, Spain
| | - Michael P. MacDonald
- School of Science and Engineering, University of Dundee, Nethergate, Dundee, DD1 4HN UK
| |
Collapse
|
23
|
Perkins AC, Lynch JP. Increased seminal root number associated with domestication improves nitrogen and phosphorus acquisition in maize seedlings. ANNALS OF BOTANY 2021; 128:453-468. [PMID: 34120166 PMCID: PMC8414917 DOI: 10.1093/aob/mcab074] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2021] [Accepted: 06/11/2021] [Indexed: 05/25/2023]
Abstract
BACKGROUND AND AIMS Domesticated maize (Zea mays ssp. mays) generally forms between two and six seminal roots, while its wild ancestor, Mexican annual teosinte (Zea mays ssp. parviglumis), typically lacks seminal roots. Maize also produces larger seeds than teosinte, and it generally has higher growth rates as a seedling. Maize was originally domesticated in the tropical soils of southern Mexico, but it was later brought to the Mexican highlands before spreading to other parts of the continent, where it experienced different soil resource constraints. The aims of this study were to understand the impacts of increased seminal root number on seedling nitrogen and phosphorus acquisition and to model how differences in maize and teosinte phenotypes might have contributed to increased seminal root number in domesticated maize. METHODS Seedling root system architectural models of a teosinte accession and a maize landrace were constructed by parameterizing the functional-structural plant model OpenSimRoot using plants grown in mesocosms. Seedling growth was simulated in a low-phosphorus environment, multiple low-nitrogen environments, and at variable planting densities. Models were also constructed to combine individual components of the maize and teosinte phenotypes. KEY RESULTS Seminal roots contributed ~35 % of the nitrogen and phosphorus acquired by maize landrace seedlings in the first 25 d after planting. Increased seminal root number improved plant nitrogen acquisition under low-nitrogen environments with varying precipitation patterns, fertilization rates, soil textures and planting densities. Models suggested that the optimal number of seminal roots for nutrient acquisition in teosinte is constrained by its limited seed carbohydrate reserves. CONCLUSIONS Seminal roots can improve the acquisition of both nitrogen and phosphorus in maize seedlings, and the increase in seed size associated with maize domestication may have facilitated increased seminal root number.
Collapse
Affiliation(s)
- Alden C Perkins
- Department of Plant Science, The Pennsylvania State University, University Park, PA, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, PA, USA
| |
Collapse
|
24
|
Heymans A, Couvreur V, Lobet G. Combining cross-section images and modeling tools to create high-resolution root system hydraulic atlases in Zea mays. PLANT DIRECT 2021; 5:e334. [PMID: 34355112 PMCID: PMC8320656 DOI: 10.1002/pld3.334] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2020] [Revised: 05/28/2021] [Accepted: 06/04/2021] [Indexed: 05/09/2023]
Abstract
Root hydraulic properties play a central role in the global water cycle, in agricultural systems productivity, and in ecosystem survival as they impact the canopy water supply. However, the existing experimental methods to quantify root hydraulic conductivities, such as the root pressure probing, are particularly challenging, and their applicability to thin roots and small root segments is limited. Therefore, there is a gap in methods enabling easy estimations of root hydraulic conductivities in diverse root types. Here, we present a new pipeline to quickly estimate root hydraulic conductivities across different root types, at high resolution along root axes. Shortly, free-hand root cross-sections were used to extract a selected number of key anatomical traits. We used these traits to parametrize the Generator of Root Anatomy in R (GRANAR) model to simulate root anatomical networks. Finally, we used these generated anatomical networks within the Model of Explicit Cross-section Hydraulic Anatomy (MECHA) to compute an estimation of the root axial and radial hydraulic conductivities (k x and k r , respectively). Using this combination of anatomical data and computational models, we were able to create a root hydraulic conductivity atlas at the root system level, for 14-day-old pot-grown Zea mays (maize) plants of the var. B73. The altas highlights the significant functional variations along and between different root types. For instance, predicted variations of radial conductivity along the root axis were strongly dependent on the maturation stage of hydrophobic barriers. The same was also true for the maturation rates of the metaxylem vessels. Differences in anatomical traits along and across root types generated substantial variations in radial and axial conductivities estimated with our novel approach. Our methodological pipeline combines anatomical data and computational models to turn root cross-section images into a detailed hydraulic atlas. It is an inexpensive, fast, and easily applicable investigation tool for root hydraulics that complements existing complex experimental methods. It opens the way to high-throughput studies on the functional importance of root types in plant hydraulics, especially if combined with novel phenotyping techniques such as laser ablation tomography.
Collapse
Affiliation(s)
- Adrien Heymans
- Earth and Life InstituteUCLouvainLouvain‐la‐NeuveBelgium
| | | | - Guillaume Lobet
- Earth and Life InstituteUCLouvainLouvain‐la‐NeuveBelgium
- Agrosphere InstituteForschungszentrum JuelichJülichGermany
| |
Collapse
|
25
|
Oosterbeek M, Lozano-Torres JL, Bakker J, Goverse A. Sedentary Plant-Parasitic Nematodes Alter Auxin Homeostasis via Multiple Strategies. FRONTIERS IN PLANT SCIENCE 2021; 12:668548. [PMID: 34122488 PMCID: PMC8193132 DOI: 10.3389/fpls.2021.668548] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Accepted: 05/03/2021] [Indexed: 06/12/2023]
Abstract
Sedentary endoparasites such as cyst and root-knot nematodes infect many important food crops and are major agro-economical pests worldwide. These plant-parasitic nematodes exploit endogenous molecular and physiological pathways in the roots of their host to establish unique feeding structures. These structures function as highly active transfer cells and metabolic sinks and are essential for the parasites' growth and reproduction. Plant hormones like indole-3-acetic acid (IAA) are a fundamental component in the formation of these feeding complexes. However, their underlying molecular and biochemical mechanisms are still elusive despite recent advances in the field. This review presents a comprehensive overview of known functions of various auxins in plant-parasitic nematode infection sites, based on a systematic analysis of current literature. We evaluate multiple aspects involved in auxin homeostasis in plants, including anabolism, catabolism, transport, and signalling. From these analyses, a picture emerges that plant-parasitic nematodes have evolved multiple strategies to manipulate auxin homeostasis to establish a successful parasitic relationship with their host. Additionally, there appears to be a potential role for auxins other than IAA in plant-parasitic nematode infections that might be of interest to be further elucidated.
Collapse
|
26
|
Schneider HM, Yang JT, Brown KM, Lynch JP. Nodal root diameter and node number in maize ( Zea mays L.) interact to influence plant growth under nitrogen stress. PLANT DIRECT 2021; 5:e00310. [PMID: 33748655 PMCID: PMC7963125 DOI: 10.1002/pld3.310] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 01/23/2021] [Accepted: 01/25/2021] [Indexed: 05/11/2023]
Abstract
Under nitrogen limitation, plants increase resource allocation to root growth relative to shoot growth. The utility of various root architectural and anatomical phenotypes for nitrogen acquisition are not well understood. Nodal root number and root cross-sectional area were evaluated in maize in field and greenhouse environments. Nodal root number and root cross-sectional area were inversely correlated under both high and low nitrogen conditions. Attenuated emergence of root nodes, as opposed to differences in the number of axial roots per node, was associated with substantially reduced root number. Greater root cross-sectional area was associated with a greater stele area and number of cortical cell files. Genotypes that produced few, thick nodal roots rather than many, thin nodal roots had deeper rooting and better shoot growth in low nitrogen environments. Fewer nodal roots offset the respiratory and nitrogen costs of thicker diameter roots, since total nodal root respiration and nitrogen content was similar for genotypes with many, thin and few, thick nodal roots. We propose that few, thick nodal roots may enable greater capture of deep soil nitrogen and improve plant performance under nitrogen stress. Synergistic interactions between an architectural and anatomical trait may be an important strategy for nitrogen acquisition. Understanding trait interactions among different root nodes has important implications in for improving crop nutrient uptake and stress tolerance.
Collapse
Affiliation(s)
- Hannah M. Schneider
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPAUSA
| | - Jennifer T. Yang
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPAUSA
- Present address:
Wellesley CollegeWellesleyMAUSA
| | - Kathleen M. Brown
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPAUSA
| | - Jonathan P. Lynch
- Department of Plant ScienceThe Pennsylvania State UniversityUniversity ParkPAUSA
| |
Collapse
|
27
|
Schneider HM, Strock CF, Hanlon MT, Vanhees DJ, Perkins AC, Ajmera IB, Sidhu JS, Mooney SJ, Brown KM, Lynch JP. Multiseriate cortical sclerenchyma enhance root penetration in compacted soils. Proc Natl Acad Sci U S A 2021; 118:e2012087118. [PMID: 33536333 PMCID: PMC8017984 DOI: 10.1073/pnas.2012087118] [Citation(s) in RCA: 45] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Mechanical impedance limits soil exploration and resource capture by plant roots. We examine the role of root anatomy in regulating plant adaptation to mechanical impedance and identify a root anatomical phene in maize (Zea mays) and wheat (Triticum aestivum) associated with penetration of hard soil: Multiseriate cortical sclerenchyma (MCS). We characterize this trait and evaluate the utility of MCS for root penetration in compacted soils. Roots with MCS had a greater cell wall-to-lumen ratio and a distinct UV emission spectrum in outer cortical cells. Genome-wide association mapping revealed that MCS is heritable and genetically controlled. We identified a candidate gene associated with MCS. Across all root classes and nodal positions, maize genotypes with MCS had 13% greater root lignin concentration compared to genotypes without MCS. Genotypes without MCS formed MCS upon exogenous ethylene exposure. Genotypes with MCS had greater lignin concentration and bending strength at the root tip. In controlled environments, MCS in maize and wheat was associated improved root tensile strength and increased penetration ability in compacted soils. Maize genotypes with MCS had root systems with 22% greater depth and 49% greater shoot biomass in compacted soils in the field compared to lines without MCS. Of the lines we assessed, MCS was present in 30 to 50% of modern maize, wheat, and barley cultivars but was absent in teosinte and wild and landrace accessions of wheat and barley. MCS merits investigation as a trait for improving plant performance in maize, wheat, and other grasses under edaphic stress.
Collapse
Affiliation(s)
- Hannah M Schneider
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Christopher F Strock
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Meredith T Hanlon
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Dorien J Vanhees
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Leicestershire LE12 5RD, United Kingdom
- The James Hutton Institute, Invergowrie DD2 5DA, United Kingdom
| | - Alden C Perkins
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Ishan B Ajmera
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Jagdeep Singh Sidhu
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Sacha J Mooney
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Leicestershire LE12 5RD, United Kingdom
- Centre for Plant Integrative Biology, University of Nottingham, Leicestershire LE12 5RD, United Kingdom
| | - Kathleen M Brown
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802
| | - Jonathan P Lynch
- Department of Plant Science, Pennsylvania State University, University Park, PA 16802;
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Leicestershire LE12 5RD, United Kingdom
- Centre for Plant Integrative Biology, University of Nottingham, Leicestershire LE12 5RD, United Kingdom
| |
Collapse
|
28
|
Levin KA, Tucker MR, Strock CF, Lynch JP, Mather DE. Three-dimensional imaging reveals that positions of cyst nematode feeding sites relative to xylem vessels differ between susceptible and resistant wheat. PLANT CELL REPORTS 2021; 40:393-403. [PMID: 33388893 DOI: 10.1007/s00299-020-02641-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 11/21/2020] [Indexed: 06/12/2023]
Abstract
Resistance conferred by the Cre8 locus of wheat prevents cereal cyst nematode feeding sites from reaching and invading root metaxylem vessels. Cyst nematodes develop syncytial feeding sites within plant roots. The success of these sites is affected by host plant resistance. In wheat (Triticum aestivum L.), 'Cre' loci affect resistance against the cereal cyst nematode (CCN) Heterodera avenae. To investigate how one of these loci (Cre8, on chromosome 6B) confers resistance, CCN-infected root tissue from susceptible (-Cre8) and resistant (+Cre8) wheat plants was examined using confocal microscopy and laser ablation tomography. Confocal analysis of transverse sections showed that feeding sites in the roots of -Cre8 plants were always adjacent to metaxylem vessels, contained many intricate 'web-like' cell walls, and sometimes 'invaded' metaxylem vessels. In contrast, feeding sites in the roots of +Cre8 plants were usually not directly adjacent to metaxylem vessels, had few inner cell walls and did not 'invade' metaxylem vessels. Models based on data from laser ablation tomography confirmed these observations. Confocal analysis of longitudinal sections revealed that CCN-induced xylem modification that had previously been reported for susceptible (-Cre8) wheat plants is less extreme in resistant (+Cre8) plants. Application of a lignin-specific stain revealed that secondary thickening around xylem vessels in CCN-infected roots was greater in +Cre8 plants than in -Cre8 plants. Collectively, these results indicate that Cre8 resistance in wheat acts by preventing cyst nematode feeding sites from reaching and invading root metaxylem vessels.
Collapse
Affiliation(s)
- Kara A Levin
- School of Agriculture, Food and Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Matthew R Tucker
- School of Agriculture, Food and Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia
| | - Christopher F Strock
- Department of Plant Science, Pennsylvania State University, University Park, PA, USA
| | - Jonathan P Lynch
- Department of Plant Science, Pennsylvania State University, University Park, PA, USA
| | - Diane E Mather
- School of Agriculture, Food and Wine, Waite Research Institute, The University of Adelaide, Adelaide, SA, Australia.
| |
Collapse
|
29
|
Strock CF, Burridge JD, Niemiec MD, Brown KM, Lynch JP. Root metaxylem and architecture phenotypes integrate to regulate water use under drought stress. PLANT, CELL & ENVIRONMENT 2021; 44:49-67. [PMID: 32839986 DOI: 10.1111/pce.13875] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2020] [Revised: 07/30/2020] [Accepted: 08/16/2020] [Indexed: 05/06/2023]
Abstract
At the genus and species level, variation in root anatomy and architecture may interact to affect strategies of drought avoidance. To investigate this idea, root anatomy and architecture of the drought-sensitive common bean (Phaseolus vulgaris) and drought-adapted tepary bean (Phaseolus acutifolius) were analyzed in relation to water use under terminal drought. Intraspecific variation for metaxylem anatomy and axial conductance was found in the roots of both species. Genotypes with high-conductance root metaxylem phenotypes acquired and transpired more water per unit leaf area, shoot mass, and root mass than genotypes with low-conductance metaxylem phenotypes. Interspecific variation in root architecture and root depth was observed where P. acutifolius has a deeper distribution of root length than P. vulgaris. In the deeper-rooted P. acutifolius, genotypes with high root conductance were better able to exploit deep soil water than genotypes with low root axial conductance. Contrastingly, in the shallower-rooted P. vulgaris, genotypes with low root axial conductance had improved water status through conservation of soil moisture for sustained water capture later in the season. These results indicate that metaxylem morphology interacts with root system depth to determine a strategy of drought avoidance and illustrate synergism among architectural and anatomical phenotypes for root function.
Collapse
Affiliation(s)
- Christopher F Strock
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - James D Burridge
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - Miranda D Niemiec
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - Kathleen M Brown
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania, USA
| |
Collapse
|
30
|
Ramírez-Flores MR, Perez-Limon S, Li M, Barrales-Gamez B, Albinsky D, Paszkowski U, Olalde-Portugal V, Sawers RJH. The genetic architecture of host response reveals the importance of arbuscular mycorrhizae to maize cultivation. eLife 2020; 9:e61701. [PMID: 33211006 PMCID: PMC7676867 DOI: 10.7554/elife.61701] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2020] [Accepted: 10/30/2020] [Indexed: 12/15/2022] Open
Abstract
Arbuscular mycorrhizal fungi (AMF) are ubiquitous in cultivated soils, forming symbiotic relationships with the roots of major crop species. Studies in controlled conditions have demonstrated the potential of AMF to enhance the growth of host plants. However, it is difficult to estimate the actual benefit in the field, not least because of the lack of suitable AMF-free controls. Here we implement a novel strategy using the selective incorporation of AMF-resistance into a genetic mapping population to evaluate maize response to AMF. We found AMF to account for about one-third of the grain production in a medium input field, as well as to affect the relative performance of different plant genotypes. Characterization of the genetic architecture of the host response indicated a trade-off between mycorrhizal dependence and benefit. We identified several QTL linked to host benefit, supporting the feasibility of breeding crops to maximize profit from symbiosis with AMF.
Collapse
Affiliation(s)
- M Rosario Ramírez-Flores
- Departamento de Biotecnología y Bioquímica, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV-IPN)IrapuatoMexico
| | - Sergio Perez-Limon
- Laboratorio Nacional de Genómica para la Biodiversidad/Unidad de Genómica Avanzada, Centro de Investigación y de Estudios Avanzados, Instituto Politécnico Nacional (CINVESTAV-IPN)IrapuatoMexico
| | - Meng Li
- Department of Plant Science, The Pennsylvania State UniversityState CollegeUnited States
| | - Benjamín Barrales-Gamez
- Laboratorio Nacional de Genómica para la Biodiversidad/Unidad de Genómica Avanzada, Centro de Investigación y de Estudios Avanzados, Instituto Politécnico Nacional (CINVESTAV-IPN)IrapuatoMexico
| | - Doris Albinsky
- Crop Science Centre and Department of Plant Sciences, University of CambridgeCambridgeUnited Kingdom
| | - Uta Paszkowski
- Crop Science Centre and Department of Plant Sciences, University of CambridgeCambridgeUnited Kingdom
| | - Víctor Olalde-Portugal
- Departamento de Biotecnología y Bioquímica, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional (CINVESTAV-IPN)IrapuatoMexico
| | - Ruairidh JH Sawers
- Department of Plant Science, The Pennsylvania State UniversityState CollegeUnited States
| |
Collapse
|
31
|
Strock CF, Lynch JP. Root secondary growth: an unexplored component of soil resource acquisition. ANNALS OF BOTANY 2020; 126:205-218. [PMID: 32588876 PMCID: PMC7523590 DOI: 10.1093/aob/mcaa068] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2020] [Indexed: 05/06/2023]
Abstract
BACKGROUND AND AIMS Despite recent progress in elucidating the molecular basis of secondary growth (cambial growth), the functional implications of this developmental process remain poorly understood. Targeted studies exploring how abiotic and biotic factors affect this process, as well as the relevance of secondary growth to fitness of annual dicotyledonous crop species under stress, are almost entirely absent from the literature. Specifically, the physiological role of secondary growth in roots has been completely neglected yet entails a unique array of implications for plant performance that are distinct from secondary growth in shoot tissue. SCOPE Since roots are directly responsible for soil resource capture, understanding of the fitness landscape of root phenotypes is important in both basic and applied plant biology. Interactions between root secondary growth, edaphic conditions and soil resource acquisition may have significant effects on plant fitness. Our intention here is not to provide a comprehensive review of a sparse and disparate literature, but rather to highlight knowledge gaps, propose hypotheses and identify opportunities for novel and agriculturally relevant research pertaining to secondary growth of roots. This viewpoint: (1) summarizes evidence from our own studies and other published work; (2) proposes hypotheses regarding the fitness landscape of secondary growth of roots in annual dicotyledonous species for abiotic and biotic stress; and (3) highlights the importance of directing research efforts to this topic within an agricultural context. CONCLUSIONS Secondary growth of the roots of annual dicots has functional significance with regards to soil resource acquisition and transport, interactions with soil organisms and carbon sequestration. Research on these topics would contribute significantly toward understanding the agronomic value of secondary growth of roots for crop improvement.
Collapse
Affiliation(s)
- Christopher F Strock
- Department of Plant Science, The Pennsylvania State University, University Park, PA, USA
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, PA, USA
| |
Collapse
|
32
|
Vanhees DJ, Loades KW, Bengough AG, Mooney SJ, Lynch JP. Root anatomical traits contribute to deeper rooting of maize under compacted field conditions. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:4243-4257. [PMID: 32420593 PMCID: PMC7337194 DOI: 10.1093/jxb/eraa165] [Citation(s) in RCA: 28] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2019] [Accepted: 04/30/2020] [Indexed: 05/21/2023]
Abstract
To better understand the role of root anatomy in regulating plant adaptation to soil mechanical impedance, 12 maize lines were evaluated in two soils with and without compaction treatments under field conditions. Penetrometer resistance was 1-2 MPa greater in the surface 30 cm of the compacted plots at a water content of 17-20% (v/v). Root thickening in response to compaction varied among genotypes and was negatively associated with rooting depth at one field site under non-compacted plots. Thickening was not associated with rooting depth on compacted plots. Genotypic variation in root anatomy was related to rooting depth. Deeper-rooting plants were associated with reduced cortical cell file number in combination with greater mid cortical cell area for node 3 roots. For node 4, roots with increased aerenchyma were deeper roots. A greater influence of anatomy on rooting depth was observed for the thinner root classes. We found no evidence that root thickening is related to deeper rooting in compacted soil; however, anatomical traits are important, especially for thinner root classes.
Collapse
Affiliation(s)
- Dorien J Vanhees
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Leicestershire, UK
- The James Hutton Institute, Invergowrie, UK
| | | | - A Glyn Bengough
- The James Hutton Institute, Invergowrie, UK
- School of Science and Engineering, The University of Dundee, Dundee, UK
| | - Sacha J Mooney
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Leicestershire, UK
| | - Jonathan P Lynch
- Division of Agricultural and Environment Sciences, School of Biosciences, University of Nottingham, Sutton Bonington Campus, Leicestershire, UK
| |
Collapse
|
33
|
Klein SP, Schneider HM, Perkins AC, Brown KM, Lynch JP. Multiple Integrated Root Phenotypes Are Associated with Improved Drought Tolerance. PLANT PHYSIOLOGY 2020; 183:1011-1025. [PMID: 32332090 PMCID: PMC7333687 DOI: 10.1104/pp.20.00211] [Citation(s) in RCA: 46] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2020] [Accepted: 04/02/2020] [Indexed: 05/18/2023]
Abstract
To test the hypothesis that multiple integrated root phenotypes would co-optimize drought tolerance, we phenotyped the root anatomy and architecture of 400 mature maize (Zea mays) genotypes under well-watered and water-stressed conditions in the field. We found substantial variation in all 23 root phenes measured. A phenotypic bulked segregant analysis revealed that bulks representing the best and worst performers in the field displayed distinct root phenotypes. In contrast to the worst bulk, the root phenotype of the best bulk under drought consisted of greater cortical aerenchyma formation, more numerous and narrower metaxylem vessels, and thicker nodal roots. Partition-against-medians clustering revealed several clusters of unique root phenotypes related to plant performance under water stress. Clusters associated with improved drought tolerance consisted of phene states that likely enable greater soil exploration by reallocating internal resources to greater root construction (increased aerenchyma content, larger cortical cells, fewer cortical cell files), restrict uptake of water to conserve soil moisture (reduced hydraulic conductance, narrow metaxylem vessels), and improve penetrability of hard, dry soils (thick roots with a larger proportion of stele, and smaller distal cortical cells). We propose that the most drought-tolerant-integrated phenotypes merit consideration as breeding ideotypes.
Collapse
Affiliation(s)
- Stephanie P Klein
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania 16802
| | - Hannah M Schneider
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania 16802
| | - Alden C Perkins
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania 16802
| | - Kathleen M Brown
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania 16802
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State University, University Park, Pennsylvania 16802
| |
Collapse
|
34
|
Levin KA, Tucker MR, Bird DM, Mather DE. Infection by cyst nematodes induces rapid remodelling of developing xylem vessels in wheat roots. Sci Rep 2020; 10:9025. [PMID: 32493993 PMCID: PMC7270153 DOI: 10.1038/s41598-020-66080-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2019] [Accepted: 03/18/2020] [Indexed: 11/09/2022] Open
Abstract
Cyst nematodes induce host-plant root cells to form syncytia from which the nematodes feed. Comprehensive histological investigation of these feeding sites is complicated by their variable shape and their positions deep within root tissue. Using tissue clearing and confocal microscopy, we examined thick (up to 150 μm) sections of wheat roots infected by cereal cyst nematodes (Heterodera avenae). This approach provided clear views of feeding sites and surrounding tissues, with resolution sufficient to reveal spatial relationships among nematodes, syncytia and host vascular tissues at the cellular level. Regions of metaxylem vessels near syncytia were found to have deviated from classical developmental patterns. Xylem vessel elements in these regions had failed to elongate but had undergone radial expansion, becoming short and plump rather than long and cylindrical. Further investigation revealed that vessel elements cease to elongate shortly after infection and that they later experience delays in secondary thickening (lignification) of their outer cell walls. Some of these elements were eventually incorporated into syncytial feeding sites. By interfering with a developmental program that normally leads to programmed cell death, H. avenae may permit xylem vessel elements to remain alive for later exploitation by the parasite.
Collapse
Affiliation(s)
- Kara A Levin
- School of Agriculture, Food and Wine, Waite Research Institute, University of Adelaide, PMB 1, Glen Osmond, 5064, South Australia, Australia
| | - Matthew R Tucker
- School of Agriculture, Food and Wine, Waite Research Institute, University of Adelaide, PMB 1, Glen Osmond, 5064, South Australia, Australia
| | - David McK Bird
- Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, North Carolina 27695, USA
| | - Diane E Mather
- School of Agriculture, Food and Wine, Waite Research Institute, University of Adelaide, PMB 1, Glen Osmond, 5064, South Australia, Australia.
| |
Collapse
|
35
|
Miki Y, Saito S, Niki T, Gladish DK. Three-dimensional digital image construction of metaxylem vessels in root tips of Zea mays subsp. mexicana from thin transverse sections. APPLICATIONS IN PLANT SCIENCES 2020; 8:e11347. [PMID: 32477843 PMCID: PMC7249274 DOI: 10.1002/aps3.11347] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Accepted: 12/27/2019] [Indexed: 05/12/2023]
Abstract
PREMISE Young plant roots share a common architecture: a central vascular cylinder surrounded by enveloping cylinders of ground and dermal tissue produced by an apical promeristem. Roots with closed apical organization can be studied to explore how ontogeny is managed. The analysis of transverse and longitudinal sections has been the most useful approach for this, but suffers from limitations. We developed a new method that utilizes digital photography of transverse sections and three-dimensional (3D) computer virtual reconstructions to overcome the limitations of other techniques. METHODS Serial transverse sections of teosinte root tips (Zea mays subsp. mexicana) were used to construct longitudinal images, 3D images, and an animated 3D model. The high-resolution, high-contrast, and low-distortion sectioning method developed previously by the authors enabled high-quality virtual image construction with the aid of a standard laptop computer. RESULTS The resulting 3D images allowed greater insight into root tissue ontogeny and organization, especially specific cellular structures such as histogen layers, xylem vessels, pericycle, and meristematic initials. DISCUSSION This new method has advantages over confocal laser scanning microscopy and magnetic resonance imaging for visualizing anatomy, and includes a procedure to correct for sectioning distortion. An additional advantage of this method, developed to produce better knowledge about the developmental anatomy of procambium in roots, is its applicability to a wide range of anatomical subjects.
Collapse
Affiliation(s)
- Yasushi Miki
- Image Processing SectionMikiOn LLC103 Ishikawa Heights, 1737 Hazama‐machiHachiojiTokyo193‐0941Japan
| | - Susumu Saito
- Image Processing SectionMikiOn LLC103 Ishikawa Heights, 1737 Hazama‐machiHachiojiTokyo193‐0941Japan
| | - Teruo Niki
- Image Processing SectionMikiOn LLC103 Ishikawa Heights, 1737 Hazama‐machiHachiojiTokyo193‐0941Japan
| | - Daniel K. Gladish
- Department of BiologyMiami University1601 University BoulevardHamiltonOhio45011USA
| |
Collapse
|
36
|
Oyiga BC, Palczak J, Wojciechowski T, Lynch JP, Naz AA, Léon J, Ballvora A. Genetic components of root architecture and anatomy adjustments to water-deficit stress in spring barley. PLANT, CELL & ENVIRONMENT 2020; 43:692-711. [PMID: 31734943 DOI: 10.1111/pce.13683] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Revised: 11/06/2019] [Accepted: 11/13/2019] [Indexed: 05/26/2023]
Abstract
Roots perform vital roles for adaptation and productivity under water-deficit stress, even though their specific functions are poorly understood. In this study, the genetic control of the nodal-root architectural and anatomical response to water deficit were investigated among diverse spring barley accessions. Water deficit induced substantial variations in the nodal root traits. The cortical, stele, and total root cross-sectional areas of the main-shoot nodal roots decreased under water deficit, but increased in the tiller nodal roots. Root xylem density and arrested nodal roots increased under water deficit, with the formation of root suberization/lignification and large cortical aerenchyma. Genome-wide association study implicated 11 QTL intervals in the architectural and anatomical nodal root response to water deficit. Among them, three and four QTL intervals had strong effects across seasons and on both root architectural and anatomical traits, respectively. Genome-wide epistasis analysis revealed 44 epistatically interacting SNP loci. Further analyses showed that these QTL intervals contain important candidate genes, including ZIFL2, MATE, and PPIB, whose functions are shown to be related to the root adaptive response to water deprivation in plants. These results give novel insight into the genetic architectures of barley nodal root response to soil water deficit stress in the fields, and thus offer useful resources for root-targeted marker-assisted selection.
Collapse
Affiliation(s)
| | | | - Tobias Wojciechowski
- Forschungszentrum Jülich, Institute for Bio- and Geosciences (Plant Sciences), Bonn, Germany
| | - Jonathan P Lynch
- Department of Plant Science, The Pennsylvania State, State College, Pennsylvania
| | - Ali A Naz
- INRES-Plant Breeding, University of Bonn, Bonn, Germany
| | - Jens Léon
- INRES-Plant Breeding, University of Bonn, Bonn, Germany
| | - Agim Ballvora
- INRES-Plant Breeding, University of Bonn, Bonn, Germany
| |
Collapse
|