Search Results (157)

In this study, we report bioinformatics analysis of the endoglucanase GH9 gene family in tomato (Solanum lycopersicum L.) using the SL5.0 genome, confirming the presence of 19 members that clustered into classes A, B, and C. To explore their potential role in plant–microbe interactions, we determined the transcriptional regulation of 10 SlGH9 gene members in tomato leaves and roots during interactions with the mutualistic root mycorrhizal fungus Rhizophagus irregularis and the foliar pathogen Sclerotinia sclerotiorum. The upregulation of several SlGH9 genes in the leaves of mycorrhizal plants suggests that they are involved in cellulose remodeling and biosynthesis rather than its degradation. This would be consistent with the observed increase in foliar area. On the other hand, downregulation of some SlGH9 genes in leaves of pathogen-infected mycorrhizal plants suggests that these genes may play a role in the enhanced resistance observed by reducing cellulose degradation, thereby maintaining cell wall integrity. The potential involvement of endoglucanase genes in expansive growth (foliar area) and in defense in mycorrhizal and pathogen-infected plants may reflect a growth–defense trade-off. Full article

The kidney’s intricate physiology relies on finely tuned gene regulatory networks that coordinate cellular responses to metabolic, inflammatory, and fibrotic stress. Beyond protein-coding transcripts, non-coding RNAs (ncRNAs), including microRNAs (miRNAs), long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs), have emerged as pivotal regulators of renal biology. By modulating transcriptional, post-transcriptional, and epigenetic pathways, ncRNAs govern podocyte integrity, tubular adaptation, intercellular signaling, and immune activation. Dysregulation of these networks is now recognized as a hallmark of major kidney diseases, ranging from diabetic nephropathy and acute kidney injury to chronic kidney disease, glomerulopathies, and polycystic kidney disease. Mechanistic studies have revealed how pathogenic ncRNAs drive apoptosis, inflammation, fibrosis, and cystic remodeling, while protective ncRNAs mitigate these processes, highlighting their dual roles as both disease mediators and therapeutic targets. The exceptional stability of ncRNAs in urine, plasma, and exosomes further positions them as minimally invasive biomarkers with diagnostic and prognostic value. Translational advances include anti-miR and mimic-based therapies (e.g., lademirsen targeting miR-21, miR-29 mimics, anti-miR-17 oligonucleotides), alongside lncRNA silencing strategies, although challenges in delivery, safety, and redundancy remain significant. This review integrates molecular mechanisms with translational perspectives, providing a comprehensive synthesis of how ncRNAs shape renal pathophysiology. By bridging mechanistic insights with emerging diagnostic and therapeutic applications, we highlight the potential of ncRNAs to transform nephrology, paving the way for biomarker-driven precision medicine and novel interventions aimed at intercepting kidney injury at its regulatory roots. In clinical terms, ncRNA-based biomarkers and therapeutics promise earlier detection, more precise risk stratification, and individualized treatment selection within precision nephrology. Full article

Pinus massoniana, a critically important afforestation species in subtropical China, shows severe adventitious rooting recalcitrance linked to endogenous gibberellin (GA) dysregulation. Our study reveals a GA₄-mediated regulatory network that coordinates hormonal crosstalk, redox homeostasis, and cell wall remodeling. Treatment with the GA biosynthesis inhibitor paclobutrazol (PBZ, 100 mg·L⁻¹) shortened rooting time by 32.5% and increased rooting success by 79.5%. We found that PBZ redirected GA flux by upregulating GA₃-oxidase (GA₃OX), leading to GA₄ accumulation. However, elevated GA₄ levels impaired root development by triggering suberization through ferulic acid (FA)-mediated redox imbalance. Application of GA₄ (100 mg·L⁻¹) reduced caffeoyl alcohol content by 54.4% but increased FA and caffeic acid levels 2.4–3.9-fold, shifting lignin precursors toward suberin biosynthesis. FA modulated H₂O₂ flux in a dose-dependent manner: 200 mg·L⁻¹ optimized redox homeostasis (93.7% lower H₂O₂ influx), whereas 1000 mg·L⁻¹ suppressed mitosis. The combination of PBZ (100 mg·L⁻¹) and FA (200 mg·L⁻¹) synergistically enhanced rooting success by 34.4% and achieved 95.8% field survival after two years (vs. 68.5% in controls), challenging the traditional view that lignification alone limits rooting in woody plants. This work provides the first evidence that the GA₄-FA axis controls adventitious root formation in conifers via a Reactive oxygen species (ROS)-dependent switch between suberin and lignin metabolism, offering new strategies to overcome rooting barriers. The PBZ + FA protocol enables scalable clonal propagation of recalcitrant conifers, with potential applications in molecular breeding and forest restoration. Full article

On acid soils, aluminum (Al³⁺) is typically toxic to plants, though certain species like Pogostemon cablin (patchouli) show growth stimulation. This study reveals that Al functions as a root development stimulant in patchouli under acidic conditions. Treatment with 1.0 mM AlCl₃ for 34 days significantly enhanced root architecture, increasing total root length by 172.12% and root dry weight by 161.75%, without affecting shoot biomass. Structural analysis showed Al accumulation in root tip meristems and lateral root primordia, triggering a 103.77% increase in meristem activity and a 111.9% promotion of cell elongation. Physiological assays showed that Al treatment reduced H₂O₂ and malondialdehyde (MDA) levels by 49.2% and 67.6%, respectively, while boosting glutathione (GSH) content by 187.5%, thereby mitigating oxidative membrane damage mainly through the non-enzymatic antioxidant system. Moreover, Al deprivation impaired lateral root elongation, highlighting its functional importance. Gene expression profiling further indicated that Al regulated pathways related to cell proliferation, cell wall remodeling, and lateral root development. Taken together, our findings uncover a novel mechanism by which Al, traditionally regarded as toxic, acts as a stimulator of root development in patchouli, providing new insights into the molecular networks underlying plant abiotic stress responses. Full article

Halophytes such as Salicornia europaea rely on biochemical and structural mechanisms to survive in saline environments. This study aimed to evaluate oxidative stress and structural defense responses in four inland populations—Poland (Inowrocław, Ciechocinek), Germany (Salzgraben-Salzdahlum, Salz), and Soltauquelle (Soltq)—subjected to 0, 200, 400, and 1000 mM NaCl, using non-destructive, image-based approaches. Lipid peroxidation was assessed via malondialdehyde (MDA) detected with Schiff’s reagent, and hydrogen peroxide (H₂O₂) accumulation was visualized with 3,3′-diaminobenzidine (DAB). Roots and shoots were analyzed through colour image analysis and quantified using a computer vision system (CVS). MDA accumulation revealed population-specific differences, with Salz tending to exhibit lower peroxidation, characterized by lower L* ≈ 42–43 and higher b* ≈ 37–18 in shoots at 200–400 mM, which may reflect a potentially more effective salt-management strategy. Although H₂O₂ responses deviated from a direct salinity-dependent trend, particularly in the tolerant Salz and Soltq populations, both approaches effectively tracked population-specific adaptation, with German populations displaying detectable basal H₂O₂ levels, consistent with its multifunctional signalling role in salt management and growth regulation. Structural defences were further explored through histochemical mapping and image analysis of pectin and lignin distribution, which revealed population-specific patterns consistent with cell wall remodelling under stress. Non-destructive, image-based methods proved effective for detecting oxidative and structural responses in halophytes. Such a non-destructive, cost-efficient, and reproducible approach can accelerate the identification of salt-tolerant ecotypes for saline agriculture and reinforce S. europaea as a model species for elucidating salt-tolerance mechanisms. Full article

Ozone (O₃) has re-emerged in periodontology for its antimicrobial, oxygenating, and immunomodulatory actions, yet its role in regeneration remains contentious. This narrative review synthesizes current evidence on adjunctive ozone use in periodontal therapy, delineates cellular constraints—especially in periodontal ligament fibroblasts (PDLFs)—and explores mitigation strategies using bioactive compounds and advanced delivery platforms. Two recent meta-analyses indicate that adjunctive ozone with scaling and root planing yields statistically significant reductions in probing depth and gingival inflammation, with no significant effects on bleeding on probing, plaque control, or clinical attachment level; interpretation is limited by heterogeneity of formulations, concentrations, and delivery methods. Mechanistically, ozone imposes a dose-dependent oxidative burden that depletes glutathione and inhibits glutathione peroxidase and superoxide dismutase, precipitating lipid peroxidation, mitochondrial dysfunction, ATP depletion, and PDLF apoptosis. Concurrent activation of NF-κB and upregulation of IL-6/TNF-α, together with matrix metalloproteinase-mediated extracellular matrix degradation and tissue dehydration (notably with gaseous applications), further impairs fibroblast migration, adhesion, and ECM remodeling, constraining regenerative potential. Emerging countermeasures include co-administration of polyphenols (epigallocatechin-3-gallate, resveratrol, curcumin, quercetin), coenzyme Q10, vitamin C, and hyaluronic acid to restore redox balance, stabilize mitochondria, down-modulate inflammatory cascades, and preserve ECM integrity. Nanocarrier-based platforms (nanoemulsions, polymeric nanoparticles, liposomes, hydrogels, bioadhesive films) offer controlled ozone release and co-delivery of protectants, potentially widening the therapeutic window while minimizing cytotoxicity. Overall, current evidence supports ozone as an experimental adjunct rather than a routine regenerative modality. Priority research needs include protocol standardization, dose–response definition, long-term safety, and rigorously powered randomized trials evaluating bioactive-ozone combinations and nanocarrier systems in clinically relevant periodontal endpoints. Full article

Root rot diseases caused by Ganoderma pseudoferreum and Pyrrhoderma noxium inflict substantial economic losses in rubber tree (Hevea brasiliensis) cultivation, while conventional control methods face environmental and resistance challenges. This study aimed to specifically investigate the molecular mechanisms by which ammonium sulfate enhances the biocontrol efficacy of Bacillus subtilis Czk1. Using label-free quantitative proteomics (LC-MS/MS), we characterized ammonium sulfate-induced alterations in the secretory proteome of Czk1. A total of 351 differentially expressed proteins (DEPs) were identified, with 329 significantly up-regulated and 22 down-regulated. GO functional enrichment analysis indicated that up-regulated DEPs were associated with metabolic pathways (glyoxylate/dicarboxylate, arginine/proline, cofactor biosynthesis) and extracellular localization (13 proteins), while down-regulated DEPs were linked to small molecule catabolism. KEGG pathway annotation identified DEP involvement in 124 pathways, including secondary metabolite biosynthesis and membrane transport. These findings demonstrate that ammonium sulfate remodels the Czk1 secretome to enhance the expression of key antagonistic proteins, thereby providing crucial molecular targets and a scientific foundation for developing effective biofungicides against rubber root rot, with clear practical implications for sustainable disease management. Full article

While root exudates play a crucial role in maintaining ecosystem balance and promoting plant growth, existing research primarily focuses on single ecosystems (e.g., field crops), with systematic investigations of their ecological functions in compound cropping systems, particularly nitrogen (N) cycling mechanisms in orchard multi-cropping systems, remaining limited. This review focuses on the N impact mechanisms mediated by plant root exudates in orchard ecosystems, emphasizing how root exudates optimize soil N activation, absorption, and utilization efficiency by modulating rhizosphere processes (e.g., nitrogen mineralization, root architecture remodeling). Studies indicate that the changes in orchard ecosystem function mediated by organic acids and flavonoids root exudates can significantly reduce nitrogen loss risks and increase the soil nitrogen turnover rate by lowering pH-activated nutrients, balancing the C:N ratio, and immobilizing microbial communities. This process also involves the coordinated regulation of nitrification, denitrification, and microbial fixation. Future research should prioritize investigating the interaction networks and regulatory mechanisms between root exudates of associated orchard crops and N-fixing microorganisms. This research direction will provide a scientific basis for improving the N use efficiency in orchard crops, optimizing fertilizer reduction techniques, and reducing chemical fertilizer usage, providing significant implications for achieving sustainable agricultural development. The theoretical support offers important scientific and practical value for advancing green and sustainable agriculture. Full article

Long noncoding RNAs (lncRNAs) have emerged as key regulators of gene expression during seed development and physiology. This review examines the diverse roles of lncRNAs in key stages of seed development, including embryogenesis, maturation, dormancy, germination, and aging. It integrates the current understanding of the biogenesis and classification of lncRNAs, emphasizing their functional mechanisms in seeds, particularly those acting in cis and trans. These mechanisms include the scaffolding of polycomb and SWI/SNF chromatin remodeling complexes, the guidance of RNA-directed DNA methylation, the ability to function as molecular decoys, and the modulation of small RNA pathways via competitive endogenous RNA activity. This review highlights the regulatory influence of lncRNAs on abscisic acid (ABA) and gibberellin (GA) signaling pathways, as well as light-responsive circuits that control dormancy and embryonic root formation. Endosperm imprinting processes that link parental origin to seed size and storage are also discussed. Emerging evidence for epitranscriptomic modifications, such as m6A methylation, and the formation of LncRNA–RNA-binding protein condensates that maintain resting states and coordinate reserve biosynthesis are also reviewed. Advances in methodologies, including single-cell and spatial transcriptomics, nascent transcription, direct RNA sequencing, and RNA–chromatin interaction mapping, are expanding the comprehensive lncRNA landscape during seed development and germination. These advances facilitate functional annotation. Finally, possible translational research applications are explored, with a focus on developing lncRNA-based biomarkers for seed vigor and longevity. Full article

Alkaline stress, driven by high pH and carbonate accumulation, results in severe physiological damage in plants. While the molecular mechanisms underlying alkaline tolerance have been partially elucidated in many crops, they remain largely unexplored in wheat. We hypothesize that alkaline stress tolerance in wheat is genotype-dependent. This study employed an integrated multi-omics approach to assess alkaline stress responses, combining genome-wide association study (GWAS) and RNA-seq analyses. Systematic phenotyping revealed severe alkaline stress-induced root architecture remodeling—with 57% and 73% length reductions after 1- and 3-day treatments, respectively—across 258 accessions. Analysis of the GWAS results identified nine significant alkaline tolerance QTLs on chromosomes 1A, 3B, 3D, 4A, and 5B, along with 285 associated candidate genes. Using contrasting genotypes—Dingxi 38 (tolerant) and TDP.D-27 (sensitive)—as experimental materials, physiological analyses demonstrated that root elongation was less inhibited in Dingxi 38 under alkaline stress compared to TDP.D-27, with superior root integrity observed in the tolerant genotype. Concurrently, Dingxi 38 exhibited enhanced reactive oxygen species (ROS) scavenging capacity. Subsequent RNA-seq analysis identified differentially expressed genes (DEGs) involved in ion homeostasis, oxidative defense, and cell wall remodeling. Integrated GWAS and RNA-seq analyses allowed for the identification of seven high-confidence candidate genes, including transcription factors (MYB38, bHLH148), metabolic regulators (ATP-PFK3), and transporters (OCT7), elucidating a mechanistic basis for adaptation to alkaline conditions. These findings advance our understanding of alkaline tolerance in wheat and provide candidate targets for molecular breeding of saline- and alkaline-tolerant crops. Full article

Background/Objectives: Tooth autotransplantation is a natural tooth replacement method that preserves the periodontal ligament, supporting root development and alveolar bone remodeling. Unlike dental implants, autotransplanted teeth maintain sensory function and adapt better to the mouth. Although once overlooked, new surgical, imaging, and regenerative advances have revived interest in this technique. This narrative review explores the renewed interest in tooth autotransplantation by assessing its benefits, success rates, technological advancements, and role in modern dentistry while evaluating its advantages, limitations, and potential impact on dental care. Methods: A narrative approach was used to provide a comprehensive and descriptive overview of current knowledge on tooth autotransplantation. A literature search was conducted in PubMed, Scopus, and Google Scholar using keywords such as “tooth autotransplantation”, “biological tooth replacement”, “periodontal ligament”, and “dental implants alternative”. English-language articles published between 2000 and 2025 were included, covering clinical trials, reviews, and relevant case reports. Selection focused on studies discussing biological mechanisms, clinical techniques, technological advances, and treatment outcomes. Results: Success rates range from 80% to 95%, with better predictability in younger patients with immature donor teeth. Long-term viability depends on preserving the PDL and performing atraumatic extractions. However, challenges such as root resorption, ankylosis, and appropriate case selection remain significant considerations. Technological advancements, including CBCT, 3D-printed surgical guides, and biomimetic storage media, have improved surgical precision and clinical outcomes. Conclusions: Tooth autotransplantation is an effective and cost-effective alternative to dental implants, particularly for growing patients or when implants are not suitable. While success depends on surgical skill and proper case selection, improvements in imaging and regenerative techniques have made outcomes more predictable. Future advances in bioengineering, AI-based planning, and regenerative therapies are likely to expand their use in modern dentistry. Full article

Background. Orthodontic extrusion (OE), or forced eruption, is a conservative technique used to recover teeth affected by coronal fractures, traumatic intrusions, or severe caries. It involves applying light, continuous forces to induce vertical tooth movement, promoting tissue remodeling through periodontal ligament stimulation. Materials and Methods. This narrative review included studies investigating OE as a therapeutic approach for the management of deep or subgingival carious lesions, traumatic dental injuries (such as intrusion or fracture), or for alveolar ridge augmentation in implant site development. OE is typically performed using fixed appliances such as the straight-wire system or, in selected cases, clear aligners. Forces between 30 and 100 g per tooth are applied, depending on the clinical situation. In some protocols, OE is combined with fiberotomy to minimize gingival and bone migration. Results. Studies show that OE leads to significant vertical movement and increases in buccal bone height and interproximal septa. It enhances bone volume in targeted sites, making it valuable in implant site development. Compared to surgical crown lengthening, OE better preserves periodontal tissues and improves esthetics. Conclusions. In this narrative review is analized how OE is effective for managing traumatic intrusions and compromised periodontal sites, particularly when paired with early endodontic treatment. It reduces the risks of ankylosis and root resorption while avoiding invasive procedures like grafting. Although clear aligners may limit axial tooth movement, OE remains a minimally invasive, cost-effective alternative in both restorative and implant dentistry. Full article

As a crucial aspect of epigenetic research, DNA methylation is fundamental to genomic stability, gene transcription regulation, and chromatin remodeling. Rice is a staple food source for roughly half of the world’s population. Therefore, optimizing rice yield and stress tolerance is vital for global food security. With the continuous advancement of DNA methylation detection technologies, studies have shown that DNA methylation regulates various rice growth and development processes, including root differentiation and grain development, through the dynamic equilibrium of de novo methylation, maintenance methylation, and demethylation. Furthermore, DNA methylation is crucial in the plant’s response to environmental stressors like high or low temperature, drought and salinity. The patterns of DNA methylation modifications are also closely linked to rice domestication and heterosis formation. Therefore, a comprehensive investigation of the DNA methylation regulatory network holds significant theoretical value for rice genetic improvement and molecular breeding. This review offers a systematic analysis of the molecular mechanisms and detection technologies of DNA methylation, as well as its regulatory roles in rice growth and development, stress responses, and other biological processes, aiming to provide a theoretical foundation for rice genetic improvement research. Full article

Sulfate availability critically influences plant growth, yet the role of small RNAs, particularly microRNAs (miRNAs), in regulating responses to sulfate deficiency remains poorly understood. Here, we conducted a temporal analysis of sulfate deficiency-responsive miRNAs in the roots and leaves of Solanum lycopersicum (tomato), using an updated miRNA annotation in the SL4.0 genome. We found 40 differentially expressed miRNAs, including 2 novel, tomato-specific miRNAs. Tomato miRNAs showed an important time- and organ-specific regulation, similar to the described response of the mRNA transcriptome. Integration with transcriptomic data and Degradome-seq analysis highlighted both canonical and non-canonical targets for sulfate-responsive miRNAs. miR395, the most extensively studied miRNA, was found to control not only its conserved targets involved in sulfate transport and assimilation, but also genes involved in redox homeostasis, photosynthesis and chloride transport. Notably, most targets were repressed in leaves, suggesting miRNA-mediated downregulation of energy-intensive processes, while root targets were predominantly upregulated, including genes related to protein remodeling and antioxidant defense. Comparative analysis with Arabidopsis thaliana revealed a broader functional repertoire in tomato, suggesting species-specific adaptations to sulfate deficiency. Overall, our results underscore the critical role of miRNAs in fine-tuning organ-specific metabolic reprogramming during nutrient stress, expanding the current understanding of the regulatory landscape underlying sulfate deficiency in plants. Full article

Singlet oxygen (¹O₂), a reactive oxygen species, can oxidize lipids, proteins, and DNA at high concentrations, leading to cell death. Despite its extremely short half-life (10⁻⁵ s), ¹O₂ acts as a critical signaling molecule, triggering a retrograde pathway from chloroplasts to the nucleus to regulate nuclear gene expression. In this study, rice seeds were treated with 0, 5, 20 and 80 μM Rose Bengal (RB, a photosensitizer) under moderate light for 3 days to induce ¹O₂ generation. Treatment with 20 μM RB reduced stomatal density by approximately 25% in three-leaf-stage rice seedlings, while increasing the contents of pectin, hemicellulose, and cellulose in root cell walls by 30–40%. Under drought, salinity, or shading stress, 20 μM RB treatment significantly improved rice tolerance, as evidenced by higher relative water contents (49–58%) and chlorophyll contents (60–76%) and lower malondialdehyde (37–43%) and electrolyte leakage (29–37%) compared to the control. Moreover, RT-qPCR analysis revealed that the significant up-regulation of stomatal development genes (OsTMM and OsβCA1) and cell wall biosynthesis genes (OsF8H and OsLRX2) was associated with RB-induced ¹O₂ production. Thus, under controlled environmental conditions, ¹O₂ may regulate stomatal development and cell wall remodeling to enhance rice tolerance to multiple abiotic stresses. These results provide new perspectives for the improvement of rice stress tolerance. Full article