Combining cross-section images and modeling tools to create high-resolution root system hydraulic atlases in Zea mays

Decreased root hydraulic traits in German winter wheat cultivars over 100 years of breeding

Wheat (Triticum aestivum L.) plays a vital role in global food security, and understanding its root traits is essential for improving water uptake under varying environmental conditions. This study investigated how over a century of breeding has influenced root morphological and hydraulic properties in 6 German winter wheat cultivars released between 1895 and 2002. Field and hydroponic experiments were used to measure root diameter, root number, branching density, and whole root system hydraulic conductance (Krs). The results showed a significant decline in root axes number and Krs with release year, while root diameter remained stable across cultivars. Additionally, dynamic functional-structural modeling using the whole-plant model CPlantBox was employed to simulate Krs development with root system growth, revealing that older cultivars consistently had higher hydraulic conductance than modern ones. The combined approach of field phenotyping and modeling provided a comprehensive view of the changes in root traits arising from breeding. These findings suggest that breeding may have unintentionally favored cultivars with smaller root systems and more conservative water uptake strategies under the high-input, high-density conditions of modern agriculture. The results of this study may inform future breeding efforts aimed at optimizing wheat root systems, helping to develop cultivars with water uptake strategies better tailored to locally changing environmental conditions.

Field plants strategically regulate water uptake from different soil depths by spatiotemporally adjusting their radial root hydraulic conductivity

Plants modify their root hydraulics to maintain water status and strategically use soil water, but how they achieve this in the field conditions remains elusive. We developed a method to measure and calculate daily root water uptake, root water potential, and radial root water permeability at different depths in a wheat (Triticum aestivum L.) field and a permanent grassland dominated by ryegrass (Lolium perenne L.). During the drying processes, both plant systems reduced the radial water permeability of their shallow roots to limit topsoil water uptake, while increasing the radial water permeability of their roots in the subsoil to enhance water extraction. Conversely, after the topsoil was rewetted, both plant systems increased the radial water permeability of their shallow roots to enhance water extraction, while reducing the radial water permeability of their roots in the subsoil to limit water uptake. Root water uptake in the subsoil was more influenced by the topsoil water than by the subsoil water. The topsoil water serves both as a resource and a signal, coordinating optimal water uptake from different soil depths. These findings have important implications for understanding how plants cope with periodic water stress in the field and for screening drought-tolerant crop varieties.

A Field-to-Parameter Pipeline for Analyzing and Simulating Root System Architecture of Woody Perennials: Application to Grapevine Rootstocks

Understanding root system architecture (RSA) is essential for improving crop resilience to climate change, yet assessing root systems of woody perennials under field conditions remains a challenge. This study introduces a pipeline that combines field excavation, in situ 3-dimensional digitization, and transformation of RSA data into an interoperable format to analyze and model the growth and water uptake of grapevine rootstock genotypes. Eight root systems of each of 3 grapevine rootstock genotypes ("101-14", "SO4", and "Richter 110") were excavated and digitized 3 and 6 months after planting. We validated the precision of the digitization method, compared in situ and ex situ digitization, and assessed root loss during excavation. The digitized RSA data were converted to root system markup language (RSML) format and imported into the CPlantBox modeling framework, which we adapted to include a static initial root system and a probabilistic tropism function. We then parameterized it to simulate genotype-specific growth patterns of grapevine rootstocks and integrated root hydraulic properties to derive a standard uptake fraction (SUF) for each genotype. Results demonstrated that excavation and in situ digitization accurately reflected the spatial structure of root systems, despite some underestimation of fine root length. Our experiment revealed significant genotypic variations in RSA over time and provided new insights into genotype-specific water acquisition capabilities. Simulated RSA closely resembled the specific features of the field-grown and digitized root systems. This study provides a foundational methodology for future research aimed at utilizing RSA models to improve the sustainability and productivity of woody perennials under changing climatic conditions.

Seedling root system adaptation to water availability during maize domestication and global expansion

The maize root system has been reshaped by indirect selection during global adaptation to new agricultural environments. In this study, we characterized the root systems of more than 9,000 global maize accessions and its wild relatives, defining the geographical signature and genomic basis of variation in seminal root number. We demonstrate that seminal root number has increased during maize domestication followed by a decrease in response to limited water availability in locally adapted varieties. By combining environmental and phenotypic association analyses with linkage mapping, we identified genes linking environmental variation and seminal root number. Functional characterization of the transcription factor ZmHb77 and in silico root modeling provides evidence that reshaping root system architecture by reducing the number of seminal roots and promoting lateral root density is beneficial for the resilience of maize seedlings to drought.

RootSlice-A novel functional-structural model for root anatomical phenotypes

Root anatomy is an important determinant of root metabolic costs, soil exploration, and soil resource capture. Root anatomy varies substantially within and among plant species. RootSlice is a multicellular functional-structural model of root anatomy developed to facilitate the analysis and understanding of root anatomical phenotypes. RootSlice can capture phenotypically accurate root anatomy in three dimensions of different root classes and developmental zones, of both monocotyledonous and dicotyledonous species. Several case studies are presented illustrating the capabilities of the model. For maize nodal roots, the model illustrated the role of vacuole expansion in cell elongation; and confirmed the individual and synergistic role of increasing root cortical aerenchyma and reducing the number of cortical cell files in reducing root metabolic costs. Integration of RootSlice for different root zones as the temporal properties of the nodal roots in the whole-plant and soil model OpenSimRoot/maize enabled the multiscale evaluation of root anatomical phenotypes, highlighting the role of aerenchyma formation in enhancing the utility of cortical cell files for improving plant performance over varying soil nitrogen supply. Such integrative in silico approaches present avenues for exploring the fitness landscape of root anatomical phenotypes.

A root functional-structural model allows assessment of the effects of water deficit on water and solute transport parameters

Root water uptake is driven by a combination of hydrostatic and osmotic forces. Water transport was characterized in primary roots of maize seedlings grown hydroponically under standard and water deficit (WD) conditions, as induced by addition of 150 g l-1 polyethylene glycol 8000 (water potential= -0.336 MPa). Flow measurements were performed using the pressure chamber technique in intact roots or on progressively cut root system architectures. To account for the concomitant transport of water and solutes in roots under WD, we developed within realistic root system architectures a hydraulic tree model integrating both solute pumping and leak. This model explains the high spontaneous sap exudation of roots grown in standard conditions, the non-linearity of pressure-flow relationships, and negative fluxes observed under WD conditions at low external hydrostatic pressure. The model also reveals the heterogeneity of driving forces and elementary radial flows throughout the root system architecture, and how this heterogeneity depends on both plant treatment and water transport mode. The full set of flow measurement data obtained from individual roots grown under standard or WD conditions was used in an inverse modeling approach to determine their respective radial and axial hydraulic conductivities. This approach allows resolution of the dramatic effects of WD on these two components.

Root cell types as an interface for biotic interactions

Root responses to environmental stresses show a high level of cell type and developmental stage specificity. Interactions with beneficial and pathogenic organisms - including microbes and parasites - elicit a set of transcriptional responses unique to each root cell type, often dependent on their differentiation state. Localized changes to the cell wall and to the integrity of root cell types can serve as a physical barrier for a range of pests. Conversely, certain microorganisms weaken existing barriers within root cell types. Interactions with microorganisms vary between roots of different developmental origins and cellular architectures. Here we provide an overview of the molecular, architectural, and structural properties of root cell types crucial to both maintaining beneficial interactions and protecting from pathogens.

Functional implications of multiseriate cortical sclerenchyma for soil resource capture and crop improvement

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.

Phenotyping and modeling of root hydraulic architecture reveal critical determinants of axial water transport

Water uptake by roots is a key adaptation of plants to aerial life. Water uptake depends on root system architecture (RSA) and tissue hydraulic properties that, together, shape the root hydraulic architecture. This work investigates how the interplay between conductivities along radial (e.g. aquaporins) and axial (e.g. xylem vessels) pathways determines the water transport properties of highly branched RSAs as found in adult Arabidopsis (Arabidopsis thaliana) plants. A hydraulic model named HydroRoot was developed, based on multi-scale tree graph representations of RSAs. Root water flow was measured by the pressure chamber technique after successive cuts of a same root system from the tip toward the base. HydroRoot model inversion in corresponding RSAs allowed us to concomitantly determine radial and axial conductivities, providing evidence that the latter is often overestimated by classical evaluation based on the Hagen-Poiseuille law. Organizing principles of Arabidopsis primary and lateral root growth and branching were determined and used to apply the HydroRoot model to an extended set of simulated RSAs. Sensitivity analyses revealed that water transport can be co-limited by radial and axial conductances throughout the whole RSA. The number of roots that can be sectioned (intercepted) at a given distance from the base was defined as an accessible and informative indicator of RSA. The overall set of experimental and theoretical procedures was applied to plants mutated in ESKIMO1 and previously shown to have xylem collapse. This approach will be instrumental to dissect the root water transport phenotype of plants with intricate alterations in root growth or transport functions.

Roots' Drought Adaptive Traits in Crop Improvement

Drought is one of the biggest concerns in agriculture due to the projected reduction of global freshwater supply with a concurrent increase in global food demand. Roots can significantly contribute to improving drought adaptation and productivity. Plants increase water uptake by adjusting root architecture and cooperating with symbiotic soil microbes. Thus, emphasis has been given to root architectural responses and root-microbe relationships in drought-resilient crop development. However, root responses to drought adaptation are continuous and complex processes and involve additional root traits and interactions among themselves. This review comprehensively compiles and discusses several of these root traits such as structural, physiological, molecular, hydraulic, anatomical, and plasticity, which are important to consider together, with architectural changes, when developing drought resilient crop varieties. In addition, it describes the significance of root contribution in improving soil structure and water holding capacity and its implication on long-term resilience to drought. In addition, various drought adaptive root ideotypes of monocot and dicot crops are compared and proposed for given agroclimatic conditions. Overall, this review provides a broader perspective of understanding root structural, physiological, and molecular regulators, and describes the considerations for simultaneously integrating multiple traits for drought tolerance and crop improvement, under specific growing environments.

Understanding the root xylem plasticity for designing resilient crops

Xylem is the main route for transporting water, minerals and a myriad of signalling molecules within the plant. With its onset during early embryogenesis, the development of the xylem relies on hormone gradients, the activity of unique transcription factors, the distribution of mobile microRNAs, and receptor-ligand pathways. These regulatory mechanisms are often interconnected and together contribute to the plasticity of this water-conducting tissue. Environmental stresses, such as drought and salinity, have a great impact on xylem patterning. A better understanding of how the structural properties of the xylem are regulated in normal and stress conditions will be instrumental in developing crops of the future. In addition, vascular wilt pathogens that attack the xylem are becoming increasingly problematic. Further knowledge of xylem development in response to these pathogens will bring new solutions against these diseases. In this review, we summarize recent findings on the molecular mechanisms of xylem formation that largely come from Arabidopsis research with additional insights from tomato and monocot species. We emphasize the impact of abiotic factors and pathogens on xylem plasticity and the urgent need to uncover the underlying mechanisms. Finally, we discuss the multidisciplinary approach to model xylem capacities in crops.

Experimental and conceptual approaches to root water transport

BACKGROUND

Root water transport, which critically contributes to the plant water status and thereby plant productivity, has been the object of extensive experimental and theoretical studies. However, root systems represent an intricate assembly of cells in complex architectures, including many tissues at distinct developmental stages. Our comprehension of where and how molecular actors integrate their function in order to provide the root with its hydraulic properties is therefore still limited.

SCOPE

Based on current literature and prospective discussions, this review addresses how root water transport can be experimentally measured, what is known about the underlying molecular actors, and how elementary water transport processes are scaled up in numerical/mathematical models.

CONCLUSIONS

The theoretical framework and experimental procedures on root water transport that are in use today have been established a few decades ago. However, recent years have seen the appearance of new techniques and models with enhanced resolution, down to a portion of root or to the tissue level. These advances pave the way for a better comprehension of the dynamics of water uptake by roots in the soil.

Exposure to high nitrogen triggered a genotype-dependent modulation of cell and root hydraulics, which can involve aquaporin regulation

Root nitrogen acquisition has been proposed to be regulated by mass flow, a process by which water flow brings nutrients to the root surface, depending on a concerted regulation of the root hydraulic properties and stomatal conductance. As aquaporins play an important role in regulating transcellular water flow, we aimed at evaluating the short-term effect of high nitrogen (HN) availability on the dynamics of hydraulic parameters at both the root and cell level and the regulation of aquaporins. The effect of short-term HN (8 mM NO₃ ^- ) treatment was investigated on 12 diverse 15-day-old maize genotypes. Root exposure to HN triggered a rapid (<4 h) increase in the root hydraulic conductivity (L_pr ) in seven genotypes while no L_pr variation was recorded for the others, allowing the separation of the genotypes into two groups (HN-responsive and HN-nonresponsive). A remarkable correlation between L_pr and the cortex cell hydraulic conductivity (L_pc ) was observed. However, while differences in gas exchange parameters were also observed, the variations were genotype-specific and not always correlated with the root hydraulic parameters. We then investigated whether HN-induced L_pr variations were linked to the activity and regulation of plasma membrane PIP aquaporins. While some changes in PIP mRNA levels were detected, this was not correlated with the protein levels. On the other hand, the rapid variation in L_pr observed in the B73 genotype was correlated with the PIP protein abundance in the plasma membrane, highlighting PIP posttranslational mechanisms in the short-term regulation of root hydraulic parameters in response to HN treatment.

Non-invasive hydrodynamic imaging in plant roots at cellular resolution

A key impediment to studying water-related mechanisms in plants is the inability to non-invasively image water fluxes in cells at high temporal and spatial resolution. Here, we report that Raman microspectroscopy, complemented by hydrodynamic modelling, can achieve this goal - monitoring hydrodynamics within living root tissues at cell- and sub-second-scale resolutions. Raman imaging of water-transporting xylem vessels in Arabidopsis thaliana mutant roots reveals faster xylem water transport in endodermal diffusion barrier mutants. Furthermore, transverse line scans across the root suggest water transported via the root xylem does not re-enter outer root tissues nor the surrounding soil when en-route to shoot tissues if endodermal diffusion barriers are intact, thereby separating 'two water worlds'.