Metal ions and phosphatidylinositol 4,5-bisphosphate as interacting effectors of α-type plant phospholipase D

Rare earth elements in seagrass beds: Contamination, bioaccumulation, and biomonitoring

Coastal environments are increasingly vulnerable to contamination from rare earth elements (REE) due to expanding anthropogenic activities, yet the fate and ecological risks of REE in ecologically critical seagrass ecosystems remain poorly understood. This study deciphered the behavior, fractionation, and compartmentalization of REE in both seagrass sediments and tissues. Total REE concentrations in sediments ranged from 70.5 to 258.8 mg kg-1, with Ce emerging as the most enriched REE in both matrices. Pollution Load Index varied from 0.7 to 3.0, indicating slight to moderate REE pollution, with localized enrichment of some REE (e.g., Tb, Lu) pointing to anthropogenic influences such as industrial effluents and marine traffic. Principal component and enrichment factor analyses attribute approximately 66 % of REE patterns to geogenic weathering, while 22.6 % reflect anthropogenic contributions. Geochemical partitioning revealed that Fe-Mn oxides serve as major REE sinks, while organic matter plays a dual role-enhancing total REE retention through complexation yet reducing mobility by stabilizing labile fractions. Correlations between REE concentrations in seagrass tissues and sediments suggest species-specific uptake and limited translocation. These findings underscore the capacity of seagrasses to serve as sensitive bioindicators for REE pollution and highlight the importance of organic matter and rhizosphere processes in modulating REE bioavailability.

The Soil-Plant Continuity of Rare Earth Elements: Insights into an Enigmatic Class of Xenobiotics and Their Interactions with Plant Structures and Processes

Rare earth elements (REEs) are increasingly present in the environment owing to their extensive use in modern industries, yet their interactions with plants remain poorly understood. This review explores the soil-plant continuum of REEs, focusing on their geochemical behavior in soil, the mechanisms of plant uptake, and fractionation processes. While REEs are not essential for plant metabolism, they interact with plant structures and interfere with the normal functioning of biological macromolecules. Accordingly, the influence of REEs on the fundamental physiological functions of plants is reviewed, including calcium-mediated signalling and plant morphogenesis. Special attention is paid to the interaction of REEs with photosynthetic machinery and, particularly, the thylakoid membrane. By examining both the beneficial effects at low concentrations and toxicity at higher levels, this review provides some mechanistic insights into the hormetic action of REEs. It is recommended that future research should address knowledge gaps related to the bioavailability of REEs to plants, as well as the short- and long-range transport mechanisms responsible for REE fractionation. A better understanding of REE-plant interactions will be critical in regard to assessing their ecological impact and the potential risks in terms of agricultural and natural ecosystems, to ensure that the benefits of using REEs are not at the expense of environmental integrity or human health.

Rare earth metallic elements in plants: assessing benefits, risks and mitigating strategies

Rare earth elements (REEs) comprises of a uniform group of lanthanides and scandium (Sc) and yttrium (Y) finding their key importance in agriculture sectors, electronic and defense industries, and renewable energy production. The immense application of REEs as plant growth promoters has led to their undesirable accumulation in the soil system raising concerns for REE pollution as upcoming stresses. This review mainly addresses the chemistry of REEs, uptake and distribution and their biphasic responses in plant systems and possible plausible techniques that could mitigate/alleviate REE contamination. It extends beyond the present understanding of the biphasic impacts of rare earth elements (REEs) on physio-biochemical attributes. It not only provides landmarks for further exploration of the interrelated phytohormonal and molecular biphasic nature but also introduces novel approaches aimed at mitigating their toxicities. By delving into innovative strategies such as recycling, substitution, and phytohormone-assisted mitigation, the review expands upon existing knowledge of REEs whilst also offering pathways to tackle the challenges associated with REE utilization.

Plant phospholipase D: novel structure, regulatory mechanism, and multifaceted functions with biotechnological application

Phospholipases D (PLDs) are important membrane lipid-modifying enzymes in eukaryotes. Phosphatidic acid, the product of PLD activity, is a vital signaling molecule. PLD-mediated lipid signaling has been the subject of extensive research leading to discovery of its crystal structure. PLDs are involved in the pathophysiology of several human diseases, therefore, viewed as promising targets for drug design. The availability of a eukaryotic PLD crystal structure will encourage PLD targeted drug designing. PLDs have been implicated in plants response to biotic and abiotic stresses. However, the molecular mechanism of response is not clear. Recently, several novel findings have shown that PLD mediated modulation of structural and developmental processes, such as: stomata movement, root growth and microtubule organization are crucial for plants adaptation to environmental stresses. Involvement of PLDs in regulating membrane remodeling, auxin mediated alteration of root system architecture and nutrient uptake to combat nitrogen and phosphorus deficiencies and magnesium toxicity is established. PLDs via vesicle trafficking modulate cytoskeleton and exocytosis to regulate self-incompatibility (SI) signaling in flowering plants, thereby contributes to plants hybrid vigor and diversity. In addition, the important role of PLDs has been recognized in biotechnologically important functions, including oil/TAG synthesis and maintenance of seed quality. In this review, we describe the crystal structure of a plant PLD and discuss the molecular mechanism of catalysis and activity regulation. Further, the role of PLDs in regulating plant development under biotic and abiotic stresses, nitrogen and phosphorus deficiency, magnesium ion toxicity, SI signaling and pollen tube growth and in important biotechnological applications has been discussed.

Crystal structure of plant PLDα1 reveals catalytic and regulatory mechanisms of eukaryotic phospholipase D

Phospholipase D (PLD) hydrolyzes the phosphodiester bond of glycerophospholipids and produces phosphatidic acid (PA), which acts as a second messenger in many living organisms. A large number of PLDs have been identified in eukaryotes, and are viewed as promising targets for drug design because these enzymes are known to be tightly regulated and to function in the pathophysiology of many human diseases. However, the underlying molecular mechanisms of catalysis and regulation of eukaryotic PLD remain elusive. Here, we determined the crystal structure of full-length plant PLDα1 in the apo state and in complex with PA. The structure shows that the N-terminal C2 domain hydrophobically interacts with the C-terminal catalytic domain that features two HKD motifs. Our analysis reveals the catalytic site, substrate-binding mechanism, and a new Ca²⁺-binding site that is required for the activation of PLD. In addition, we tested several efficient small-molecule inhibitors against PLDα1, and suggested a possible competitive inhibition mechanism according to structure-based docking analysis. This study explains many long-standing questions about PLDs and provides structural insights into PLD-targeted inhibitor/drug design.

Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation

The cellular membrane constitutes one of the most fundamental compartments of a living cell, where key processes such as selective transport of material and exchange of information between the cell and its environment are mediated by proteins that are closely associated with the membrane. The heterogeneity of lipid composition of biological membranes and the effect of lipid molecules on the structure, dynamics, and function of membrane proteins are now widely recognized. Characterization of these functionally important lipid-protein interactions with experimental techniques is however still prohibitively challenging. Molecular dynamics (MD) simulations offer a powerful complementary approach with sufficient temporal and spatial resolutions to gain atomic-level structural information and energetics on lipid-protein interactions. In this review, we aim to provide a broad survey of MD simulations focusing on exploring lipid-protein interactions and characterizing lipid-modulated protein structure and dynamics that have been successful in providing novel insight into the mechanism of membrane protein function.