Search Results (405)

Dedifferentiation—the acquisition of an early developmental state—is a hallmark of cancer. However, the underlying mechanisms that lead to cancer-associated dedifferentiation are not fully understood. Transposable elements (TEs) are becoming increasingly recognised as important regulators of development and disease. The recruitment of TE sequences has played an important role in placental evolution, and TE-derived genes play critical roles in placental development. Although important biological differences exist between tumours and the placenta, the placenta shares certain features with tumours, including the capacity to invade surrounding tissue and modulate the maternal immune response. In this regard, TEs have been implicated in cancer development, and are documented to contribute to oncogenesis through multiple different mechanisms. Moreover, cancers reacquire an epigenetic landscape, which is reflective of early development, and which corresponds to increased phenotypic plasticity, including facilitating the activation of early developmental genes. Many cancers can repurpose developmental genes, including TE-associated genes, which may contribute to pathways involved in invasion and metastasis. Determining whether TE activation is a consequence of broader epigenetic reprogramming or actively contributes to dedifferentiation will be important for understanding cancer biology and may facilitate improvements in cancer diagnosis and treatment. Full article

Aux/IAA proteins function as central transcriptional repressors in auxin signaling and have been implicated in coordinating developmental responses to environmental stress, particularly through modulation of root system architecture. However, the contribution of auxin signaling components to drought-associated root plasticity in improving drought resilience in potato (Solanum tuberosum L.) remains unclear. In this study, we profiled Aux/IAA responses to water deficit across underground tissues by RNA sequencing of root tips, stolon tips, and tubers from two cultivars (Qingshu 9 and Atlantic) with contrasting drought tolerance. Drought treatment induced broad transcriptional changes in the Aux/IAA family, with the majority of members showing increased expression in at least one tissue. qRT-PCR across tissues and developmental stages validated distinct spatiotemporal patterns for selected candidates. Among these, the StIAA3, StIAA6, StIAA22, and StIAA25 genes displayed drought-inducible expression, whereas StIAA24 showed an opposite trend. To probe functional relevance, we generated overexpression and knockdown lines for StIAA3, StIAA6, StIAA22, and StIAA24. Altered expression of these genes was consistently associated with measurable changes in root architecture traits, including root length, diameter, and volume, under water-deficit conditions. These findings reveal insights into the contribution of auxin signaling components to drought-associated root plasticity in potato. The identified drought-responsive Aux/IAA candidates that link root architectural remodeling provide a foundation for mechanistic dissection and underground tissue remodeling of architecture enhancement in root crops. Full article

Embryogenesis is a critical process for which nutritional and metabolic signals act as informational cues that shape adipose tissue development and establish long-lasting metabolic health. Emerging evidence indicates that adipose tissue is not a passive energy storage but a developmentally and metabolically dynamic organ. Cellular composition, functional capacity, and plasticity of adipose are programmed early through coordinated transcriptional, epigenetics, and proteomics processes. Maternal environments in nutritional challenge, including overnutrition and malnutrition, influence adipocyte lineage commitment, depot-specific expansion, and metabolic functionality, predisposing offspring to divergent risks of obesity and metabolic disease. The future of perinatal adipose biology and genomics relies on integrating multi-omics approaches with an artificial intelligence (AI)-driven analytical perspective to resolve complex developmental processes and predict long-lasting metabolic health. Furthermore, the incorporation of sex-specific models is important, which will be essential for capturing biological heterogeneity and ensuring translational relevance. Together, these advance perspectives are predisposed to shift the field from descriptive associations toward predictive and preventive paradigms, reinterpreting metabolic disease risk as a modifiable consequence of early-life adipose programming rather than an inevitable outcome of later-life exposures. Full article

Background/Objectives: Hepatoblastoma, the most common pediatric primary liver cancer, is no longer regarded as a conventional malignancy but rather as a tumor emerging from disrupted hepatic developmental processes. Although improvements in chemotherapy, surgical techniques, and liver transplantation have markedly enhanced survival, therapeutic decision-making is still primarily guided by anatomical criteria and insufficiently reflects the biological heterogeneity that contributes to variable treatment response and disease recurrence. This narrative review integrates recent advances in molecular biology, tumor stemness, microenvironmental interactions, and translational research models in pediatric hepatoblastoma. We critically examine how developmental signaling pathways, cellular plasticity, and immune–vascular context shape tumor behavior and therapeutic vulnerability, with a focus on emerging targeted, anti-angiogenic, immune, and epigenetic strategies. Results: Hepatoblastoma is characterized by aberrant activation of key developmental pathways, including Wnt/β-catenin, Hippo–YAP, IGF, and mTOR signaling, which cooperate to sustain proliferation, stem-like phenotypes, and treatment resistance. Tumor heterogeneity is further reinforced by cancer stem cell populations and a predominantly immune-cold microenvironment. While innovative therapeutic approaches show promise, their clinical impact has been limited by biological complexity and insufficient integration into current treatment algorithms. Liquid biopsy biomarkers, advanced translational models, and multi-omics approaches offer new opportunities for biologically informed risk stratification and therapy adaptation. Conclusions: Future progress in pediatric hepatoblastoma will require a paradigm shift from purely clinicopathological management toward an integrated molecular and surgical framework. Incorporating biological stratification into therapeutic decision-making may enable personalized treatment, rational therapy de-escalation, and improved outcomes for high-risk disease. This review highlights the foundations and future directions for precision medicine in hepatoblastoma. Full article

Adult neurogenesis is a regulated form of brain plasticity shaped by interactions between hormonal systems and environmental context. Social experience has been identified as an important modulator of neuronal proliferation, differentiation, and survival across the lifespan, although effects vary across species, developmental stages, and experimental paradigms. This review synthesizes evidence indicating that diverse social behaviors—including isolation, social hierarchy, parenting, sexual interaction, social buffering, and social learning—engage neuroendocrine, neurochemical, and stress-related pathways that are associated with modulation of hippocampal and olfactory neurogenesis. Affiliative and reproductive contexts have been linked in multiple models to enhanced neurogenic indices via gonadal hormones, oxytocinergic and vasopressinergic signaling, and neurotrophic mechanisms, whereas chronic isolation or social defeat has frequently been associated with reduced neurogenic markers, particularly within stress-sensitive regions of the ventral dentate gyrus. Sex differences further shape these patterns, reflecting both biological regulation and uneven sampling across paradigms. Comparative findings in prairie voles, eusocial mole-rats, nonhuman primates, songbirds, and teleost fish indicate that social organization can be accompanied by either increased or constrained neurogenic activity, depending on ecological pressures and life-history strategies. Collectively, the available evidence suggests that adult neurogenesis represents a context-dependent plastic process embedded within vertebrate social systems, while underscoring the need for integrative and evidence-graded interpretations. Full article

Fruit ripening involves coordinated metabolic and molecular changes that shape quality traits, yet tissue-specific regulation in Selenicereus megalanthus remains unclear. Fruit development in S. megalanthus was investigated through an integrated analysis of pulp and peel across five developmental stages to elucidate tissue-specific metabolic and molecular regulatory dynamics. Proteomic profiling combined with targeted metabolomic analyses of sugars and phenolic compounds, multivariate statistics, and protein–protein interaction analysis was applied. A total of 411 proteins were identified in the pulp and 812 in the peel, of which 255 and 362 proteins, respectively, showed significant differential accumulation across development (p < 0.05), indicating higher regulatory plasticity in the peel. Multivariate analyses revealed clear stage-dependent reorganization of the proteome in both tissues. Functional annotation highlighted coordinated modulation of pathways related to cell wall remodeling, carbohydrate metabolism, antioxidant and detoxification systems, protein folding, and myo-inositol biosynthesis, directly associated with fruit texture and quality attributes. Metabolomic analyses revealed progressive sugar accumulation during ripening, with sucrose predominating at advanced stages, and pronounced tissue- and stage-dependent modulation of phenolic compounds, characterized by early enrichment in the pulp and sustained accumulation in the peel. Overall, these results demonstrate that yellow pitaya development involves tightly coordinated biochemical and regulatory mechanisms and identify the peel as a metabolically active tissue with relevance for postharvest management, fruit quality, and sustainable horticultural valorization. Full article

Seed germination and early seedling development are critical determinants of crop establishment, stress tolerance, and yield stability, yet these stages remain insufficiently integrated into contemporary crop improvement strategies. Recent advances across genome editing, microbiome-assisted seed treatments, nanotechnology-enabled priming, and artificial intelligence-guided phenotyping have generated substantial but fragmented insights into early developmental regulation. This review synthesizes recent advances across early plant development research. It demonstrates that seemingly diverse technologies converge on a limited set of regulatory control nodes, including abscisic acid–gibberellin balance, redox homeostasis, and root system architectural plasticity. By integrating evidence from molecular, microbial, physicochemical, and computational studies, early plant ontogeny is presented as a tunable regulatory state governed by quantitative thresholds rather than as a strictly predetermined genetic process. Advances in deep learning, reinforcement learning, and high-throughput phenotyping further enable the modeling and optimization of early developmental trajectories across genotype by environment contexts. Together, these insights establish early development as a programmable target for crop improvement and provide a mechanistic foundation for designing integrated interventions that enhance developmental uniformity, stress resilience, and yield stability across diverse agroecological systems. Full article

The important economic traits of ruminants result from interactions between genetic background and environmental factors, but key traits such as reproductive performance, feed efficiency, disease resistance, and livestock product quality are often not fully explained by DNA sequence variations alone. Increasing evidence suggests that epigenetic regulation serves as a crucial molecular bridge connecting environmental stimuli with changes in gene expression, allowing organisms to exhibit stable and plastic phenotypic differences without altering the DNA sequence. This review provides a structured synthesis of recent research in the field of epigenetics in ruminants, elucidating how multiple layers of epigenetic mechanisms, including DNA methylation, histone modifications, non-coding RNAs, and higher-order chromatin structures, coordinate to regulate growth, development, reproductive performance, metabolic and immune homeostasis, and livestock product traits across different tissues and developmental stages. These epigenetic marks not only demonstrate high responsiveness to nutrition, management, and environmental stressors, but can exhibit context-dependent stability within the same tissue and physiological stage when environmental conditions are comparable, thereby contributing to the regulation of phenotypic plasticity and offering potential value as predictive biomarkers. Furthermore, epigenetic information can supplement our understanding of phenotypic variation in ways that traditional genomic selection methods are unable to capture, offering new data dimensions for the prediction and improvement of low heritability, environmentally sensitive traits. Overall, integrating epigenetic information with genomic selection strategies may improve the accuracy of ruminant trait prediction and enhance environmental adaptability. This integration also offers a conceptual basis and technical pathway for developing more precise and sustainable breeding systems. Full article

In plants, the transition from heterotrophic to autotrophic growth is a critical developmental shift, tightly coupled to the establishment of photosynthesis. This process demands a precise interplay between the nucleus and chloroplasts, with communication schemes providing essential checkpoints to synchronize gene expression during seedling greening and establishment. While light response and photomorphogenesis are known to rely on transcriptional networks, recent evidence highlights a key role for alternative pre-mRNA splicing in facilitating plant adaptation to new light regimes, thereby enhancing transcriptome diversity. LEFKOTHEA, a dual-localized nuclear and chloroplast protein, has emerged as a potential integrator of these processes; it mediates the splicing of both chloroplast group II introns and nuclear introns via interactions with spliceosomal proteins. Here, we demonstrate that LEFKOTHEA is an active component of early light response signaling, regulating gene expression both transcriptionally and post-transcriptionally. Transcriptomic analysis reveals that LEFKOTHEA shapes the transcriptome both quantitatively and qualitatively by modulating alternative splicing, a mechanism essential for plant plasticity and adaptation. Furthermore, we show that the dynamic subcellular localization of LEFKOTHEA underpins its role in establishing a nucleus–chloroplast communication network that guides plant development. Full article

Background: Di(2-ethylhexyl) phthalate (DEHP) is a high-production-volume plasticizer and ubiquitous environ-mental contaminant with established endocrine-disrupting potential. While zebrafish transcriptomic studies have typically used high concentrations and long exposure windows, less is known about genome-wide responses during late embryogenesis/early larval maturation under environmentally relevant exposures. Here we profiled whole-organism transcriptomic responses to a short DEHP exposure during a developmentally sensitive transition (96–120) hours post-fertilization, hpf) and interpreted responses using differential expression, enrichment analyses, and endocrine-focused protein–protein interaction (PPI) network modeling. Methods: Wild-type AB zebrafish lar-vae (96 hpf) were exposed to DEHP at [10⁻⁹ M] or solvent control for 24 h. Larvae were pooled per replicate (25 lar-vae/pool) and processed for poly(A)-selected RNA-seq. Reads were quality-controlled, aligned to the Danio rerio reference genome, and quantified at gene- level. Differential expression was performed using DESeq2. Functional enrichment used KEGG over-representation analysis (ORA) and gene set enrichment analysis (GSEA). Zebrafish genes were mapped to human orthologs for GO/KEGG and STRING-based endocrine subnetworks, which were visualized and interrogated using STRINGdb and visNetwork. Results: Low-dose, short-term exposure does not produce large gene-level effects but induces coordinated, pathway-level transcriptional remodeling. KEGG ORA showed significant enrichment of MAPK signaling and regulation of actin cytoskeleton with additional enrichment of axon guidance and neuroactive ligand–receptor interaction. GSEA detected coordinated downregulation of KEGG neurodegeneration collections with negative normalized enrichment scores reflecting shared gene sets re-lated to mitochondrial function, proteostasis, cytoskeletal organization, and stress-response pathways. Endo-crine-focused STRING subnetworks indicated consistent downregulation of CYP19A1 within estrogen metabo-lism/biosynthesis modules and downregulation of upstream androgen biosynthetic enzymes HSD3B2 and CYP17A1, alongside upregulation of HSD17B3 and proteostasis-associated factors including DNAJA1. Endocrine network to-pology highlighted regulatory and cofactor nodes affecting receptor-linked transcription, consistent with indirect endocrine modulation rather than large receptor-transcript changes. Conclusions: In summary, this study demon-strates that exposure to low-dose DEHP during a critical period of zebrafish embryonic development is associated with modest but coordinated transcriptomic changes across multiple biological pathways. Pathway enrichment and network-based analyses highlight estrogen- and androgen-associated processes, along with broader signaling, met-abolic, and structural pathways, as transcriptionally responsive during this window. Importantly, these findings reflect molecular-level associations rather than direct evidence of functional or physiological endocrine disruption. Instead, they identify candidate pathways and regulatory networks that may be sensitive to low-level environmen-tal exposure and warrant further investigation. Collectively, this work underscores the value of systems-level tran-scriptomic approaches for detecting subtle, pathway-wide responses to environmentally relevant exposures during development. Full article

Understanding a species’ life history is essential for assessing its adaptability and resource trade-offs under environmental stress. Given their diversity and ecological significance, Lepidoptera represent an ideal model system for studying such adaptive responses. Under controlled laboratory conditions, we quantified the life history traits of Telchinia issoria and examined their associations with key abiotic factors—temperature, humidity, and light intensity—across all developmental stages. The results showed that: (1) the complete developmental duration from egg to adult was first quantified, establishing a crucial baseline for understanding its life history strategy; (2) the egg stage exhibited the highest survival rate, whereas the eighth-instar larval stage showed the lowest; and (3) correlations with abiotic factors differed markedly across stages, indicating stage-specific environmental sensitivity. Faster larval development may be associated with higher temperature, humidity, and light intensity; pupal development with high humidity and low light; and adult lifespan with low temperature, high humidity, and dim light. These findings advance our understanding of insect developmental plasticity, supporting more accurate population models and informing insect management and biodiversity conservation under climate change. Full article

Potassium (K⁺) is essential for plant growth and development, influencing numerous physiological processes and stress responses. While the importance of K⁺ in overall plant performance is well-established, its specific effects on root system architecture and the underlying molecular mechanisms in woody perennials remain poorly understood. This knowledge gap is particularly significant for citrus rootstocks like trifoliate orange (Poncirus trifoliata L.), where root system optimization directly impacts drought resistance, nutrient acquisition, and overall orchard productivity. Here, we investigated how varying K⁺ concentrations (K₀, K₂, K₆, and K₁₂) affect trifoliate orange seedling development by comprehensively analyzing root architecture parameters, root hair morphology, endogenous hormone levels, and expression patterns of cell-wall-modifying and auxin-related genes. We found that moderate K⁺ levels (K₆) optimized root architectural development while both deficiency (K₀, K₂) and excess (K₁₂) inhibited overall growth and root architecture but enhanced root hair development. This morphological dichotomy corresponded to distinct hormonal profiles, showing reduced auxin (IAA), gibberellins (GAs), and zeatin riboside (ZR) levels under K⁺ stress conditions. Gene expression analysis revealed significant upregulation of expansins (PtEXPA4, PtEXPA5, PtEXPA7) and reconfiguration of auxin biosynthesis (TAA/TAR/YUC) and transport (AUX/LAX/ABCB/PIN) machinery under non-optimal K⁺ conditions. Our findings suggest that K⁺ availability modulates trifoliate orange root development through coordinated regulation of hormone homeostasis and gene expression, particularly within the auxin signaling network. These findings elucidate K⁺-responsive root developmental plasticity as a potential adaptive strategy, providing valuable insights for optimizing fertilization strategies in citrus cultivation and identifying potential molecular targets for enhancing potassium use efficiency in woody perennials. Full article

Understanding the genetic basis of growth and moltism in silkworm (Bombyx mori) is essential for improving silk production efficiency and elucidating the mechanisms underlying developmental plasticity. Thus, this study aimed to establish a collection of 20 representative B. mori core strains and perform integrative genomic analyses combining genome-wide association studies (GWASs) and population-specific variant detection. A total of 5,293,831 high-confidence single-nucleotide variants (SNVs) were identified across the population, and GWAS revealed significant associations between specific genetic loci and four growth-related traits: larval weight at day 7 of the fifth instar, pupal weight, cocoon weight, and cocoon layer weight. Among these, two missense variants within the Cycb gene were significantly correlated with increased body weight at the late fifth instar stage, suggesting a potential role for this isoform in regulating cell-cycle-driven tissue expansion during rapid larval growth. Moreover, a population-based comparison identified 2803 trimolter-specific missense SNVs in 1440 genes, of which 109 were functionally annotated. Notably, homozygous variants were detected in key developmental regulators, such as MET1 and TOR1, implying potential alterations in juvenile hormone signaling and nutrient-dependent growth pathways that may contribute to the dominant trimolter phenotype. Although experimental validation remains necessary, these findings provide a genomic framework for understanding the molecular mechanisms underlying moltism variation and offer valuable resources for future silkworm genetic improvement. Full article

To survive in challenging environments, plants must rapidly activate immune responses while maintaining developmental plasticity and reproductive success. This requires continuous negotiation of limited energy and metabolic resources between growth, development, and defense. Ubiquitin-mediated proteolysis has emerged as a versatile regulatory mechanism that may integrate immune responses with plant developmental programs. In this review, we summarize accumulating evidence that ubiquitination shapes immune responses at multiple regulatory levels. Many of these immune-regulatory mechanisms depend on ubiquitin-dependent pathways that also govern developmental processes and cell cycle regulation. This overlap points to shared molecular nodes that integrate defense with growth. This functional overlap provides a mechanistic basis for growth–defense trade-offs and highlights how plants optimize fitness under stress conditions. Together, these findings position ubiquitin-mediated proteolysis as a unifying regulatory framework through which plants integrate immune responses with developmental programs and cell cycle control. This coordination helps maintain resilience and productivity in a fluctuating environment. Full article

Cynipid gall wasps are known for their ability to manipulate host plant development, redirecting undifferentiated tissues into complex, highly specialised structures. In this study, we investigated how Andricus quercustozae larvae manipulate axillary bud tissues of Quercus virgiliana across four key stages of gall development: initiation, differentiation and growth, maturation, and lignification. Using detailed histological analyses, we characterised progressive tissue differentiation within galls, focusing on the organisation of nutritive, protective, and vascular tissues. Gall development was marked by sustained hyperplasia and hypertrophy, extensive vascular proliferation, and progressive cell wall lignification, resulting in a complex organ optimised for larval nutrition and protection. To complement these anatomical observations, we conducted a preliminary transcriptomic comparison between gall tissue and unmodified leaf tissue. Gene expression analyses revealed suppression of photosynthesis-related functions and coordinated modulation of developmental, regulatory, and metabolic pathways, consistent with a transition from assimilatory leaf tissue to a specialised nutrient sink. Integration of anatomical and transcriptomic evidence supports a model in which cynipid gall wasps intervene at key regulatory nodes of bud development, progressively reprogramming host tissues to form a functionally autonomous gall. These findings provide new insight into the extended phenotype and highlight the plasticity of plant developmental programmes under insect control. Full article