Soil carbon dioxide venting through rice roots

Quantifying the direct and indirect impacts of urban waterlogging using input‒output analysis

Increasingly frequent urban waterlogging disasters are having profound social and economic consequences. An appropriate and integrated evaluation of the total economic impacts of such disasters is crucial for achieving effective urban disaster risk management and sustainable development. However, existing metrics are inadequate for measuring the economic impacts of rainfall events of different intensities and their ripple effects across regions. Moreover, their ecological impacts have received insufficient attention. To address these gaps, we developed an integrated assessment framework for analyzing urban waterlogging losses and evaluating their various impacts. Taking Beijing as a case study, we used the InfoWorks ICM model to simulate urban waterlogging disaster risks, quantified direct economic losses, and assessed their environmental impacts. Additionally, we estimated indirect economic losses using input-output analysis and explored spillover effects. The results revealed increasing trends of direct economic losses and environmental losses corresponding to a longer return period. We observed synergies between these losses and their spatial heterogeneity. However, indirect impacts far outweighed direct impacts, with the former being 2.43 times larger than the latter. The cascading effect resulting from damage to infrastructure was also particularly pronounced. The industrial and spatial heterogeneity of interregional impacts was striking, with eastern provinces evidencing the most significant effects. By mapping the transmission paths of disaster losses along industrial chains and across regions, this study provides inputs that could assist policymakers in developing more effective measures for preventing and mitigating urban waterlogging disasters.

Mitigation of Greenhouse Gas Emissions from Rice via Manipulation of Key Root Traits

Rice production worldwide represents a major anthropogenic source of greenhouse gas emissions. Nitrogen fertilization and irrigation practices have been fundamental to achieve optimal rice yields, but these agricultural practices together with by-products from plants and microorganisms, facilitate the production, accumulation and venting of vast amounts of CO₂, CH₄ and N₂O. We propose that the development of elite rice varieties should target root traits enabling an effective internal O₂ diffusion, via enlarged aerenchyma channels. Moreover, gas tight barriers impeding radial O₂ loss in basal parts of the roots will increase O₂ diffusion to the root apex where molecular O₂ diffuses into the rhizosphere. These developments result in plants with roots penetrating deeper into the flooded anoxic soils, producing higher volumes of oxic conditions in the interface between roots and rhizosphere. Molecular O₂ in these zones promotes CH₄ oxidation into CO₂ by methanotrophs and nitrification (conversion of NH₄⁺ into NO₃^-), reducing greenhouse gas production and at the same time improving plant nutrition. Moreover, roots with tight barriers to radial O₂ loss will have restricted diffusional entry of CH₄ produced in the anoxic parts of the rhizosphere and therefore plant-mediated diffusion will be reduced. In this review, we describe how the exploitation of these key root traits in rice can potentially reduce greenhouse gas emissions from paddy fields.

Root phenotypes as modulators of microbial microhabitats

Plant roots are colonized by a multitude of microbial taxa that dynamically influence plant health. Plant-microbe interactions at the root-soil interface occur at the micro-scale and are affected by variation in root phenotypes. Different root phenotypes can have distinct impacts on physical and chemical gradients at the root-soil interface, leading to heterogeneous microhabitats for microbial colonization. Microbes that influence plant physiology will establish across these heterogeneous microhabitats, and, therefore, exploiting variation in root phenotypes can allow for targeted manipulation of plant-associated microbes. In this mini-review, we discuss how changes in root anatomy and architecture can influence resource availability and the spatial configuration of microbial microhabitats. We then propose research priorities that integrate root phenotypes and microbial microhabitats for advancing the manipulation of root-associated microbiomes. We foresee the yet-unexplored potential to harness diverse root phenotypes as a new level of precision in microbiome management in plant-root systems.

Synergistic use of siderophores and weak organic ligands during zinc transport in the rhizosphere controlled by pH and ion strength gradients

Citrate (Cit) and Deferoxamine B (DFOB) are two important organic ligands coexisting in soils with distinct different affinities for metal ions. It has been theorized that siderophores and weak organic ligands play a synergistic role during the transport of micronutrients in the rhizosphere, but the geochemical controls of this process remain unknown. Here we test the hypothesis that gradients in pH and ion strength regulate and enable the cooperation. To this end, first we use potentiometric titrations to identify the dominant Zn(II)–Cit and Zn(II)–DFOB complexes and to determine their ionic strength dependent stability constants between 0 and 1 mol dm⁻³. We parametrise the Extended Debye-Hückel (EDH) equation and determine accurate intrinsic association constants (logβ⁰) for the formation of the complexes present. The speciation model developed confirms the presence of [Zn(Cit)]⁻, [Zn(HCit)], [Zn₂(Cit)₂(OH)₂]⁴⁻, and [Zn(Cit)₂]⁴⁻, with [Zn(Cit)]⁻ and [Zn₂(Cit)₂(OH)₂]⁴⁻ the dominant species in the pH range relevant to rhizosphere. We propose the existence of a new [Zn(Cit)(OH)₃]⁴⁻ complex above pH 10. We also verify the existence of two hexadentate Zn(II)–DFOB species, i.e., [Zn(DFOB)]⁻ and [Zn(HDFOB)], and of one tetradentate species [Zn(H₂DFOB)]⁺. Second, we identify the pH and ionic strength dependent ligand exchange points (LEP) of Zn with citrate and DFOB and the stability windows for Zn(II)–Cit and Zn(II)–DFOB complexes in NaCl and rice soil solutions. We find that the LEPs fall within the pH and ionic strength gradients expected in rhizospheres and that the stability windows for Zn(II)–citrate and Zn(II)–DFOB, i.e., low and high affinity ligands, can be distinctly set off. This suggests that pH and ion strength gradients allow for Zn(II) complexes with citrate and DFOB to dominate in different parts of the rhizosphere and this explains why mixtures of low and high affinity ligands increase leaching of micronutrients in soils. Speciation models of soil solutions using newly determined association constants demonstrate that the presence of dissolved organic matter and inorganic ligands (i.e., bicarbonate, phosphate, sulphate, or chlorides) do neither affect the position of the LEP nor the width of the stability windows significantly. In conclusion, we demonstrate that cooperative and synergistic ligand interaction between low and high affinity ligands is a valid mechanism for controlling zinc transport in the rhizosphere and possibly in other environmental reservoirs such as in the phycosphere. Multiple production of weak and strong ligands is therefore a valid strategy of plants and other soil organisms to improve access to micronutrients.

Below-ground plant-soil interactions affecting adaptations of rice to iron toxicity

Iron toxicity is a major constraint to rice production, particularly in highly weathered soils of inland valleys in sub-Saharan Africa where the rice growing area is rapidly expanding. There is a wide variation in tolerance of iron toxicity in the rice germplasm. However, the introgression of tolerance traits into high-yielding germplasm has been slow owing to the complexity of the tolerance mechanisms and large genotype-by-environment effects. We review current understanding of tolerance mechanisms, particularly those involving below-ground plant-soil interactions. Until now these have been less studied than above-ground mechanisms. We cover processes in the rhizosphere linked to exclusion of toxic ferrous iron by oxidation, and resulting effects on the mobility of nutrient ions. We also cover the molecular physiology of below-ground processes controlling iron retention in roots and root-shoot transport, and also plant iron sensing. We conclude that future breeding programmes should be based on well-characterized molecular markers for iron toxicity tolerance traits. To successfully identify such markers, the complex tolerance response should be broken down into its components based on understanding of tolerance mechanisms, and tailored screening methods should be developed for individual mechanisms.

Radial Oxygen Loss from Plant Roots—Methods

In flooded soils, an efficient internal aeration system is essential for root growth and plant survival. Roots of many wetland species form barriers to restrict radial O2 loss (ROL) to the rhizosphere. The formation of such barriers greatly enhances longitudinal O2 diffusion from basal parts towards the root tip, and the barrier also impedes the entry of phytotoxic compounds produced in flooded soils into the root. Nevertheless, ROL from roots is an important source of O2 for rhizosphere oxygenation and the oxidation of toxic compounds. In this paper, we review the methodological aspects for the most widely used techniques for the qualitative visualization and quantitative determination of ROL from roots. Detailed methodological approaches, practical set-ups and examples of ROL from roots with or without barriers to ROL are included. This paper provides practical knowledge relevant to several disciplines, including plant–soil interactions, biogeochemistry and eco-physiological aspects of roots and soil biota.

Biological soil crusts determine soil properties and salt dynamics under arid climatic condition in Qara Qir, Iran

Biological soil crusts are a thin layer within the soil system but strongly determine the infiltration, runoff and water and solute movement. Little is known about the role of biological soil crusts on soil solute dynamics in arid ecosystems and the objective of this paper is to determine in Qara Qir rangeland how biological soil crusts control the water and salt distribution along the soil profile. Rainfall simulation experiments were carried out at five locations, and measurements of the soil at 0-5, 5-10, 10-20, 20-30, 30-50 and 50-80 cm depth were done before, 48 h and 21 days after the rainfall simulations. Soil particle size distribution, bulk density, water content, organic carbon and electrical conductivity were measured at each of the 270 samples (3 seasons × 3 times × 5 sites × 6 depths). Biological soil crusts increased soil organic carbon, soil water content, and infiltration rate; and biological soil crusts decreased soil bulk density, clay fraction, electrical conductivity, and other saline-sodic properties, especially in the upper layers (0-10 cm). Large pores in soils covered by biological soil crusts enhanced the preferential flows, infiltration and solute transport. Biological soil crusts not only directly affected the soil surface, but also influenced soil properties, and consequently determined spatio-temporal soil salinity distribution. Biological soil crusts act as a soil salinity reducing agent and contribute to the soil quality improvement under arid climatic conditions. Biological soil crusts can be considered as a soil conservation strategy and actively used in soil rehabilitation and ecosystems restoration.

Root O2 consumption, CO2 production and tissue concentration profiles in chickpea, as influenced by environmental hypoxia

Roots in flooded soils experience hypoxia, with the least O₂ in the vascular cylinder. Gradients in CO₂ across roots had not previously been measured. The respiratory quotient (RQ; CO₂ produced : O₂ consumed) is expected to increase as O₂ availability declines. A new CO₂ microsensor and an O₂ microsensor were used to measure profiles across roots of chickpea seedlings in aerated or hypoxic conditions. Simultaneous, nondestructive flux measurements of O₂ consumption, CO₂ production, and thus RQ, were taken for roots with declining O₂ . Radial profiling revealed severe hypoxia and c. 0.8 kPa CO₂ within the root vascular cylinder. The distance penetrated by O₂ into the roots was shorter at lower O₂ . The gradient in CO₂ was in the opposite direction to that of O₂ , across the roots and diffusive boundary layer. RQ increased as external O₂ was lowered. For chickpea roots in solution at air equilibrium, O₂ was very low and CO₂ was elevated within the vascular cylinder; the extent of the severely hypoxic core increased as external O₂ was reduced. The increased RQ in roots in response to declining external O₂ highlighted the shift from respiration to ethanolic fermentation as the severely hypoxic/anoxic core became a progressively greater proportion of the root tissues.

High-throughput three-dimensional visualization of root system architecture of rice using X-ray computed tomography

BACKGROUND

X-ray computed tomography (CT) allows us to visualize root system architecture (RSA) beneath the soil, non-destructively and in a three-dimensional (3-D) form. However, CT scanning, reconstruction processes, and root isolation from X-ray CT volumes, take considerable time. For genetic analyses, such as quantitative trait locus mapping, which require a large population size, a high-throughput RSA visualization method is required.

RESULTS

We have developed a high-throughput process flow for the 3-D visualization of rice (Oryza sativa) RSA (consisting of radicle and crown roots), using X-ray CT. The process flow includes use of a uniform particle size, calcined clay to reduce the possibility of visualizing non-root segments, use of a higher tube voltage and current in the X-ray CT scanning to increase root-to-soil contrast, and use of a 3-D median filter and edge detection algorithm to isolate root segments. Using high-performance computing technology, this analysis flow requires only 10 min (33 s, if a rough image is acceptable) for CT scanning and reconstruction, and 2 min for image processing, to visualize rice RSA. This reduced time allowed us to conduct the genetic analysis associated with 3-D RSA phenotyping. In 2-week-old seedlings, 85% and 100% of radicle and crown roots were detected, when 16 cm and 20 cm diameter pots were used, respectively. The X-ray dose per scan was estimated at < 0.09 Gy, which did not impede rice growth. Using the developed process flow, we were able to follow daily RSA development, i.e., 4-D RSA development, of an upland rice variety, over 3 weeks.

CONCLUSIONS

We developed a high-throughput process flow for 3-D rice RSA visualization by X-ray CT. The X-ray dose assay on plant growth has shown that this methodology could be applicable for 4-D RSA phenotyping. We named the RSA visualization method 'RSAvis3D' and are confident that it represents a potentially efficient application for 3-D RSA phenotyping of various plant species.