Ufuk Ersoy, Malcolm J Jackson
· Experimental physiology
· Department of Musculoskeletal and Ageing Sciences, Institute of Life Course and Medical Sciences, University of Liverpool, Liverpool, UK.
· pubmed
Ageing is associated with loss of skeletal muscle mass and strength (sarcopenia) and disrupted redox homeostasis. Redox signalling is essential for muscle adaptation, yet the mechanisms by which ageing disrupts cysteine-based regulation are poorly defined. The drivers of site-spe...
Ageing is associated with loss of skeletal muscle mass and strength (sarcopenia) and disrupted redox homeostasis. Redox signalling is essential for muscle adaptation, yet the mechanisms by which ageing disrupts cysteine-based regulation are poorly defined. The drivers of site-specific reactivity and signalling specificity in aged muscle remain unknown. Here, we interrogated the OxiMouse dataset to map age-related cysteine oxidation in skeletal muscle and, using AI, simulate oxidative modifications at key cysteine residues to predict structural and functional consequences for specific proteins. Ageing was found to remodel the redox landscape through selective oxidation of discrete cysteine residues, in a site-specific manner, even within the same protein. These findings support that ageing drives pathway-targeted modulation of protein function rather than a uniform, global oxidative shift. Moreover, age-related cysteine oxidation is not randomly distributed but appears to target interconnected protein networks involved in mitochondrial metabolic pathways, muscle function and proteostasis, indicating a coordinated remodelling in redox signalling as a hallmark of skeletal muscle ageing. To connect proteomic signatures to mechanisms, AlphaFold3 was used to simulate progressive cysteine oxidation and predict structural outcomes. Protein docking simulations were then performed using HADDOCK. This approach was applied to prioritise functionally important cysteines identified in the dataset. These results suggest that skeletal muscle ageing drives selective rewiring of physiologically relevant cysteine-based redox signalling networks. By integrating redox proteomics with AI-based structural simulation, this study provides a framework to prioritise key oxidation-sensitive cysteines, including within the 26S proteasome, as potential mechanistic nodes and intervention targets for sarcopenia.
Longevity Relevance Analysis
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Ageing drives selective, site-specific oxidation of cysteine residues in interconnected protein networks, which can be predicted using AI-based structural simulations to identify mechanistic nodes for sarcopenia. This paper is relevant because it investigates the mechanistic root causes of sarcopenia (a hallmark of aging) by mapping specific molecular alterations in redox signaling, rather than merely correlating age with disease symptoms, and proposes a framework for identifying intervention targets.
Jeong Hee Kim, Lina R Nih, Seungman Park
· Ageing research reviews
· Department of Mechanical Engineering, Iowa State University, Ames, IA 50011, USA.
· pubmed
Cellular mechanical properties are key regulators of diverse cellular functions. In particular, cellular senescence, a state of permanent cell cycle arrest, is closely associated with mechanical alterations. While extensive efforts have characterized changes in cells' elastic pro...
Cellular mechanical properties are key regulators of diverse cellular functions. In particular, cellular senescence, a state of permanent cell cycle arrest, is closely associated with mechanical alterations. While extensive efforts have characterized changes in cells' elastic properties such as stiffness and elasticity during senescence, the viscous component of cellular mechanics, governing molecular transport, organelle mobility, and intracellular force dissipation, remains largely unexplored. Emerging evidence suggests that changes in cells' viscous properties, despite receiving limited attention to date, may provide critical insights into cellular state, particularly in the context of senescence and aging. In this review, we define key viscous properties relevant to cellular mechanics and function, summarize experimental approaches for measuring and quantifying these properties, and review existing studies examining viscous properties in aging and senescent cells. We further discuss potential mechanistic origins of alterations in viscous properties during senescence, including cytoskeletal remodeling, macromolecular crowding, and intracellular phase separation. Finally, we evaluate the potential of cellular viscous properties as biomarkers of senescence, promising advances in applications including senescence detection, assessment of aging progression, and administration of senolytic therapies, while also addressing key limitations.
Longevity Relevance Analysis
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This review proposes that cellular viscous properties serve as a mechanistic biomarker for senescence, offering a biophysical perspective on aging hallars rather than addressing root causes directly. The paper is relevant because it connects intracellular mechanics to the fundamental biological process of cellular senescence, a key driver of aging, but as a review of emerging, unproven biomarkers, its immediate scientific impact is minor and incremental.
Ando, Y., Yada, Y., Kashima, M. ...
· systems biology
· Nara Institute of Science and Technology
· biorxiv
Quantifying differences in aging among individuals of the same chronological age could provide a direct measure of biological aging. However, existing methods often estimate biological age by predicting chronological age and treat such individual differences as prediction errors....
Quantifying differences in aging among individuals of the same chronological age could provide a direct measure of biological aging. However, existing methods often estimate biological age by predicting chronological age and treat such individual differences as prediction errors. We developed InferAging, a framework that estimates biological age by explicitly modeling individual deviations from chronological age. In progeroid zebrafish (klotho mutant; kl-/-), InferAging identified accelerated and delayed agers within the same chronological age group. A non-invasive variant using behavioral and morphological snapshots reproduced the transcriptome-integrated estimates without molecular input or lifelong tracking. The inferred aging state was associated with metabolic decline, intestinal barrier dysfunction, inflammation, and mucosal immune abnormalities beyond chronological age. These results demonstrate that non-invasive phenotypes can reveal molecularly supported individual aging states.
Longevity Relevance Analysis
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InferAging is a computational framework that explicitly models individual deviations from chronological age to estimate biological age, demonstrating its utility in identifying accelerated aging in progeroid zebrafish and correlating non-invasive phenotypes with molecular aging markers. This paper represents an incremental methodological advance in biomarker development rather than a breakthrough in understanding or intervening in the root causes of aging.
Onur Deniz, Ying Liu, Tuuli Kirkinen ...
· The EMBO journal
· Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland.
· pubmed
Anabolic and catabolic processes are coordinated by a conserved regulatory network, which includes the nutrient-sensing protein kinase mTOR complex 1 (mTORC1) and the insulin- and stress-responsive transcription factor FoxO. In a physiological setting, these regulators align grow...
Anabolic and catabolic processes are coordinated by a conserved regulatory network, which includes the nutrient-sensing protein kinase mTOR complex 1 (mTORC1) and the insulin- and stress-responsive transcription factor FoxO. In a physiological setting, these regulators align growth, storage, reproduction, and aging with nutrient availability. Here, we identify transcription factor Spalt-related (Salr), previously implicated in organogenesis, as a negative regulator of growth and lipid storage in Drosophila melanogaster. Salr activates catabolic gene expression and restricts mTORC1-mediated cell growth in the Drosophila fat body. The genomic binding of Salr overlaps extensively with that of FoxO, and a similar convergence is observed for their mammalian homologs, SALL1 and FOXO1. Both Salr and FoxO are activated upon fasting, but respond to distinct cues: while FoxO displays transient activation and is responsive to AKT inhibition, Salr is activated in a slow and sustained manner through the integrated stress response. Once activated, Salr counters nuclear localization of FoxO. Taken together, we show that Salr and FoxO are growth-inhibitory transcription factors that act in a convergent manner to respond to nutrient stress through distinct cues.
Longevity Relevance Analysis
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The study identifies Spalt-related (Salr) as a novel negative regulator of mTORC1-mediated growth that acts in parallel to FoxO to restrict cell growth and lipid storage during nutrient stress. This work is relevant because it elucidates a specific molecular mechanism linking the integrated stress response to the inhibition of anabolic growth pathways, which are central drivers of aging, although the findings represent an incremental identification of a regulatory node rather than a transformative breakthrough.
David Soriano-Castell, Marie Goujon, Nawab John Dar ...
· Cell death & disease
· Cellular Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA. dsorianocastell@salk.edu.
· pubmed
Cellular senescence, a complex biological process characterized by irreversible cell cycle arrest and the senescence-associated secretory phenotype, has emerged as a critical target for therapeutic development for age-related diseases. Ferroptosis, an iron-dependent regulated cel...
Cellular senescence, a complex biological process characterized by irreversible cell cycle arrest and the senescence-associated secretory phenotype, has emerged as a critical target for therapeutic development for age-related diseases. Ferroptosis, an iron-dependent regulated cell death pathway driven by the accumulation of lipid peroxidation in cell membranes, has been implicated in age-related disorders. This study investigated the relationship between cellular senescence and ferroptosis. Using human fetal lung WI-38 fibroblasts induced to senesce via replicative exhaustion, we report a novel role for acid ceramidase (ACase), which breaks down ceramides into sphingosine and free fatty acids, in regulating the sensitivity of senescent cells to RSL3-induced lipid peroxidation and ferroptosis through the modulation of polyunsaturated fatty acid composition of membrane phospholipids. Furthermore, we demonstrate a cell non-autonomous paracrine sensitization of non-senescent cells to ferroptosis by senescent cells. Together, these findings unveil ACase as a novel regulator of the ferroptosis pathway and open promising therapeutic avenues for targeting senescence-linked disorders and advancing healthy aging strategies.
Longevity Relevance Analysis
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Acid ceramidase modulates membrane lipid profiles to exacerbate ferroptosis sensitivity in replicative senescent cells. This study provides a mechanistic link between senescence and ferroptosis, offering a potential target for clearing senescent cells, but represents an incremental finding in a well-established pathway with limited immediate translational impact on lifespan extension.
Zhen Tian, Yuhua Song, Xinyue Ao ...
· Free radical biology & medicine
· National Key Discipline, Department of Nutrition and Food Hygiene, School of Public Health, Harbin Medical University, 157 Baojian Road, Harbin, P. R. China 150081; Department of Nutrition and Food Hygiene, School of Public Health, Key Laboratory of Precision nutrition and health, Ministry of Education, Harbin Medical University, Heilongjiang, China 150081; NHC Specialty Laboratory Coperation Unit of Food Safety Risk Assessment and Standard Development, Heilongjiang, China 150081. Electronic address: tianzhen19951111@163.com.
· pubmed
The aging liver not only declines in function but also accelerates systemic aging and shortens lifespan. Identifying key molecular targets to delay liver aging is important for promoting health and longevity. ASAP3 is involved in cytoskeletal remodeling, but its role in aging rem...
The aging liver not only declines in function but also accelerates systemic aging and shortens lifespan. Identifying key molecular targets to delay liver aging is important for promoting health and longevity. ASAP3 is involved in cytoskeletal remodeling, but its role in aging remains unexplored. Here, we found that ASAP3 expression was upregulated in aged mouse livers and H
Longevity Relevance Analysis
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ASAP3 deficiency reduces hepatic senescence and extends healthspan in mice, suggesting a potential molecular target for delaying liver aging. The study identifies a specific protein linked to age-related liver decline and demonstrates functional benefits in a mouse model, contributing incremental evidence to the field of geroscience.
Oluwafemi G Oluwole, Okubena Olajuwon
· Open medicine (Warsaw, Poland)
· Department of Pharmacology and Therapeutics, Olabisi Onabanjo University, Sagamu, Nigeria.
· pubmed
Chronic inflammation, oxidative stress, and metabolic dysfunction are central drivers of biological aging. Polyphenolics from
Chronic inflammation, oxidative stress, and metabolic dysfunction are central drivers of biological aging. Polyphenolics from
Longevity Relevance Analysis
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The study demonstrates that sorghum-derived 3-deoxyanthocyanidins modulate pathways associated with inflammaging in computational and experimental models. This represents an incremental advance in the field of nutraceuticals and aging research, as it identifies a specific dietary compound's effect on known aging hallmarks without providing evidence of significant lifespan extension or mechanistic breakthroughs.
Takayoshi Otsuka, Hideaki Matsui
· Inflammation and regeneration
· Department of Neuroscience of Disease, Brain Research Institute, Niigata University, 1-757, Asahimachidori, Niigata, 951-8585, Japan. totsuka@bri.niigata-u.ac.jp.
· pubmed
Tissue regeneration depends on the activation of resident stem and progenitor cells, dynamic interactions with the extracellular matrix (ECM), and tightly regulated growth factor signaling, including fibroblast growth factors (FGFs) and transforming growth factor-β (TGF-β). Numer...
Tissue regeneration depends on the activation of resident stem and progenitor cells, dynamic interactions with the extracellular matrix (ECM), and tightly regulated growth factor signaling, including fibroblast growth factors (FGFs) and transforming growth factor-β (TGF-β). Numerous therapeutic strategies have aimed to enhance repair through exogenous growth factor delivery or stem cell transplantation. However, despite the presence of abundant regenerative signals, including those derived from the senescence-associated secretory phenotype (SASP), regenerative capacity declines with age across multiple organs. This discrepancy suggests that age-related regenerative decline reflects not a reduction in signal availability, but a profound alteration in how tissues interpret and respond to those signals. Here, we propose a conceptual framework centered on the concept of "tissue state"-a metastable, tissue-wide organizational mode that determines how incoming signals are interpreted and executed. Tissue state is shaped by the integration of cellular composition, ECM properties, inflammatory context, and intracellular stress responses. Within this framework, exogenous signals are interpreted as context-dependent inputs, and their biological outcomes are determined by the pre-existing tissue state. We further discuss how this perspective reshapes our understanding of regenerative medicine, suggesting that restoring tissue-state flexibility may be a more effective therapeutic goal than simply augmenting signal availability.
Longevity Relevance Analysis
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The paper proposes a conceptual framework suggesting that age-related regenerative failure is caused by a loss of "tissue-state plasticity" rather than a lack of regenerative signals. This work is relevant because it addresses the root cause of functional decline in aging tissues by redefining the mechanistic basis of regenerative failure, although as a conceptual review it offers limited immediate experimental validation or novel therapeutic targets compared to primary research.
Anemia, the most prevalent hematologic disorder in older adults, imposes a significant burden of cardiovascular events, cognitive decline, and mortality. However, the mechanisms underlying aging-related anemia, especially epigenetic dysregulation in hematopoietic stem and progeni...
Anemia, the most prevalent hematologic disorder in older adults, imposes a significant burden of cardiovascular events, cognitive decline, and mortality. However, the mechanisms underlying aging-related anemia, especially epigenetic dysregulation in hematopoietic stem and progenitor cells (HSPCs), remain incompletely understood. Although the gut microbiota is critical for hematopoiesis, its specific contribution to aging-related erythropoiesis impairment remains unclear. Here, we reveal that aging markedly activates phenylalanine metabolism and elevates plasma phenylacetic acid (PAA) levels in both humans and mice. We identify Odoribacter splanchnicus (O.splanchnicus) as a key gut symbiont whose abundance is significantly increased in aged mice and which directly drives PAA production from phenylalanine via the oxoacid:ferredoxin oxidoreductase (OFOR) superfamily encoded by porA,nifJ, and iorA/iorB. Rifaximin treatment selectively reduces O.splanchnicus and plasma PAA, thereby alleviating aging-related anemia. Mechanistically, PAA promotes a novel post-translational modification (PTMs) termed histone lysine phenylacetylation (Kpa) through the acetyltransferases HBO1. Elevated histone Kpa increases chromatin accessibility at the GATA2 promoter, disrupts the GATA switch, and blocks erythroid differentiation of HSPCs. In vivo, supplementation with sodium phenylacetate (NaPA) exacerbates anemia in microbiota-depleted mice, whereas the HBO1 inhibitor WM-3835 restores erythropoiesis by reversing histone Kpa and normalizing the GATA switch. Furthermore, dietary phenylalanine restriction lowers circulating PAA and effectively ameliorates aging-related anemia in both naturally aged mice and O.splanchnicus-colonized mice. These findings provide the first evidence that gut microbiota-derived PAA plays a critical role in the development of aging-related erythropoiesis impairment and offer multiple translatable strategies for treating this condition.
Longevity Relevance Analysis
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The study identifies gut microbiota-derived phenylacetic acid as a mechanistic driver of aging-related erythropoiesis impairment via histone phenylacetylation, offering a potential therapeutic target for age-associated anemia. This work is relevant because it elucidates a specific molecular pathway linking microbial metabolism to epigenetic dysregulation in hematopoietic stem cells, a fundamental process in aging, although the direct impact on overall lifespan extension remains unproven and the condition (anemia) is often viewed as a symptom rather than a root cause of aging itself.
Ma, G., Chen, Y., Cheng, S. ...
· physiology
· Southern university of science and technology
· biorxiv
Skeletal muscle can release endocrine stress signals during aging and wasting, but the upstream mechanisms that restrain this response remain incompletely defined. Here we identify March5 as a muscle proteostatic checkpoint that limits ATF4-dependent GDF15 production. March5 expr...
Skeletal muscle can release endocrine stress signals during aging and wasting, but the upstream mechanisms that restrain this response remain incompletely defined. Here we identify March5 as a muscle proteostatic checkpoint that limits ATF4-dependent GDF15 production. March5 expression declined in aged and atrophic muscle, whereas muscle-specific March5 deletion induced ATF4 accumulation, marked GDF15 elevation, reduced food intake and progressive loss of body, muscle and bone mass. Restoration of feeding, GDF15 neutralization or muscle Atf4 deletion substantially attenuated the wasting phenotype. Mechanistically, March5 interacted with ATF4 and promoted its ubiquitination at K92, thereby limiting ATF4 stability and Gdf15 expression. Conversely, muscle March5 gain-of-function or pharmacological attenuation of ATF4 signaling improved feeding, body composition and physical performance in aged mice. These findings define a March5-ATF4-GDF15 endocrine stress axis linking muscle proteostatic control to feeding suppression and systemic body-composition remodeling.
Longevity Relevance Analysis
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Muscle-specific deletion of the E3 ligase March5 activates an ATF4-GDF15 endocrine axis that suppresses feeding and causes systemic wasting, while enhancing March5 or inhibiting this axis improves body composition in aged mice. This paper is relevant because it identifies a specific molecular mechanism linking muscle proteostasis to systemic metabolic regulation and aging phenotypes, offering a potential target for mitigating age-related sarcopenia and cachexia.
Yang, J.-H., Izydore, E. K., Mazan-Mamczarz, K. ...
· molecular biology
· NIA IRP, NIH
· biorxiv
Regeneration of skeletal muscle preserves muscle mass and function, which decline with age. Here, we sought to identify long noncoding (lnc)RNAs involved in skeletal muscle myogenesis and potentially relevant to muscle aging. Cross-sectional analysis of skeletal muscle transcript...
Regeneration of skeletal muscle preserves muscle mass and function, which decline with age. Here, we sought to identify long noncoding (lnc)RNAs involved in skeletal muscle myogenesis and potentially relevant to muscle aging. Cross-sectional analysis of skeletal muscle transcriptomes from healthy 22-through 89-year-old individuals revealed lncRNA LANCL1-AS1 among the top declining transcripts. Conversely, LANCL1-AS1 increased robustly during skeletal myogenesis and promoted myogenic differentiation in culture. Affinity pulldown by ChIRP followed by mass spectrometry revealed that LANCL1-AS1 associated with the mitochondrial protein LRPPRC, enhancing the formation of the chaperone complex LRPPRC-SLIRP, which maintains longer poly(A) tails of mitochondrial (mt-)mRNAs and stabilizes mt-mRNAs. Importantly, while myoblasts from old rhesus monkey muscle expressed lower levels of LANCL1-AS1 and mt-mRNAs, and displayed lower mitochondrial activity than young monkey myoblasts, overexpressing LANCL1-AS1 in old myoblasts restored mitochondrial activity and myogenesis. We propose that the age-associated reduction in LANCL1-AS1 contributes to impaired mitochondrial function and reduced myogenic capacity in aging skeletal muscle.
Longevity Relevance Analysis
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The study identifies the lncRNA LANCL1-AS1 as a regulator of mitochondrial mRNA stability and myogenesis that declines with age, demonstrating that its restoration can rescue mitochondrial function and differentiation in aged muscle cells. This work is relevant because it targets fundamental hallmarks of aging (mitochondrial dysfunction and stem cell exhaustion) rather than just treating symptoms, offering a mechanistic insight into muscle aging, though the direct translation to lifespan extension remains unproven.
Nasrashvili, T., Emini, B., Cirri, E. ...
· cell biology
· Leibniz Institute on Aging - Fritz Lipmann Institute
· biorxiv
Cellular senescence is characterized by stable cell cycle arrest and the senescence-associated secretory phenotype (SASP), which drives tissue remodeling and inflammation. Underlying SASP with its increased secretion of cytokines and other secreted proteins is a massive reorganiz...
Cellular senescence is characterized by stable cell cycle arrest and the senescence-associated secretory phenotype (SASP), which drives tissue remodeling and inflammation. Underlying SASP with its increased secretion of cytokines and other secreted proteins is a massive reorganization of the secretory pathway. While transcriptional regulation of senescence has been extensively studied, the contribution of post-translational modifications (PTM) to secretory pathway regulation remains poorly understood. Here, we combined quantitative proteomics with multi-layered PTM profiling of phosphorylation, ubiquitination and acetylation to investigate how intracellular trafficking and secretion are regulated in senescence. Using doxorubicin-induced senescence as the primary model, we identified extensive proteome remodeling, with pronounced changes in ER-Golgi-associated pathways and secretory machinery. Acetylation emerged as the most prominently regulated PTM, particularly affecting proteins involved in vesicle trafficking and ER proteostasis. Comparable proteome and PTM remodeling were also observed in replicative senescence, indicating that these changes are not restricted to a single senescence model. Functional analyses revealed activation signatures of the acetyltransferases p300/CBP, linking global acetylation changes to enzymatic activity. Pharmacological inhibition of p300/CBP using A485 selectively modulated senescence-associated features without reversing growth arrest, consistent with a senomorphic-like effect during senescence establishment. Secretome profiling further demonstrated changes in the composition of secreted factors, consistent with modulation of the senescence-associated secretory phenotype. Together, these findings indicate that acetylation-dependent regulation of the secretory pathway shapes the senescence-associated secretome, revealing a mechanistic link between post-translational regulation, intracellular trafficking, and extracellular signaling in senescence.
Longevity Relevance Analysis
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Acetylation of secretory pathway proteins regulates the composition of the senescence-associated secretome, linking post-translational modifications to extracellular signaling in aging cells. This work provides mechanistic insight into the SASP, a key hallmark of aging, but represents an incremental advance in understanding cellular senescence rather than offering a novel strategy for lifespan extension or solving root causes of aging.
Huang, X., Bard, J. E., Tumenbayar, B.-I. ...
· cell biology
· University at Buffalo
· biorxiv
Proteostasis declines with lung aging, while the role of the Unfolded Protein Response (UPR) in lung aging and age-associated pulmonary diseases remains understudied. We investigated how deficiency in the UPR sensor ATF6 affects physiological and smoke exposure-accelerated lung a...
Proteostasis declines with lung aging, while the role of the Unfolded Protein Response (UPR) in lung aging and age-associated pulmonary diseases remains understudied. We investigated how deficiency in the UPR sensor ATF6 affects physiological and smoke exposure-accelerated lung aging. ATF6 -deficient mice exhibited accelerated alveolar simplification, a sign of lung parenchymal aging, which was exacerbated by smoking. Nevertheless, small airway vascular fibrotic remodeling, a prominent smoking induced pathology, was not evident in smoke-exposed ATF6 -deficient mice. Mechanistically, these divergent phenotypes arose from cell-type-specific ATF6 programs. In alveolar epithelial type 2 cells (AEC2s), the facultative progenitors of the lung parenchyma, ATF6 maintained mitochondrial bioenergetics and sustained efficient re-differentiation into alveolar epithelial type 1 cells (AEC1s). In lung pericytes, ATF6 promoted extravasation, re-differentiation into myofibroblast-like cells, and production of collagens 1 and 3. These findings identify ATF6 as a cell-type-specific regulator of differentiation programs during lung aging and highlight the need to study ATF6 under defined physiological and pathological contexts before therapeutically targeting this pathway.
Longevity Relevance Analysis
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ATF6α acts as a cell-type-specific regulator that maintains mitochondrial homeostasis in alveolar epithelial cells while promoting fibrotic remodeling in pericytes during lung aging. This study provides mechanistic insight into the cellular drivers of lung parenchymal aging and the complex, context-dependent roles of the Unfolded Protein Response, offering foundational knowledge for understanding tissue-specific aging mechanisms rather than proposing a direct longevity intervention.
Tsantilas, K. A., Riffle, M., Merrihew, G. E. ...
· molecular biology
· Department of Genome Sciences, University of Washington, 1705 NE Pacific Street, Seattle, Washington 98195, United States
· biorxiv
Cells release membrane-bound extracellular vesicles into the bloodstream laden with proteins that may reflect their physiological state. How this circulating EV proteome changes across life remains poorly understood. Identifying molecular signatures of aging in accessible bioflui...
Cells release membrane-bound extracellular vesicles into the bloodstream laden with proteins that may reflect their physiological state. How this circulating EV proteome changes across life remains poorly understood. Identifying molecular signatures of aging in accessible biofluids could facilitate earlier intervention and monitoring of age-related disease. Many circulating aging proteome studies rely on affinity-based platforms which suffer from poor cross-species translation, ambiguous signal attribution, and inconsistent agreement between platforms. Here, we present a characterization of the aging plasma EV proteome from a cross-sectional cohort of 86 male and female C57BL/6J mice (5-31 months). We leveraged a species-agnostic EV enrichment (Mag-Net) and mass spectrometry to detect 2,575 protein groups from 15,969 peptides. Protein abundance heterogeneity increased with age and the abundance of 272 proteins were significantly correlated with chronological age including established senescence and frailty markers. Proteins increasing with age were enriched in genome maintenance pathways, while those decreasing were associated with the extracellular matrix organization and lipid metabolism. Notably, several of the strongest age-increased proteins converged on Alzheimer's and Parkinson's disease pathology. We observed sexual divergence in the aging EV proteome not previously characterized at this resolution. A proteomic clock built from this data accurately predicts chronological age, and peptide-level analysis reveals aging signals invisible at protein-level. These findings demonstrate that EV-enriched plasma proteomics can identify known aging markers, reveal novel sex-specific age-related changes, and generate predictive models of chronological age. This study provides a species-agnostic foundation for proteomic clocks that complement epigenetic approaches to monitor aging and evaluate healthspan.
Longevity Relevance Analysis
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This study characterizes the aging plasma extracellular vesicle proteome in mice to identify age-correlated markers and develop a proteomic clock, providing a methodological foundation for monitoring aging rather than intervening in its root causes. The research is relevant as it addresses the monitoring of biological age through accessible biofluids, a key component of longevity research, but it is an observational characterization study that describes existing phenomena rather than proposing a novel mechanism for lifespan extension or solving a root cause of aging.
Marella, W. T., Ryan, C. P., Corcoran, D. ...
· health informatics
· Robert N Butler Columbia Aging Center, Columbia University Mailman School of Public Health
· medrxiv
Geroscience clinical trials need biomarker surrogate endpoints for healthspan. Leading candidates are omics-based composites developed from machine learning analysis of aging phenotypes including calendar age, survival, functional capacity, and Pace of Aging. Existing Pace of Agi...
Geroscience clinical trials need biomarker surrogate endpoints for healthspan. Leading candidates are omics-based composites developed from machine learning analysis of aging phenotypes including calendar age, survival, functional capacity, and Pace of Aging. Existing Pace of Aging biomarkers were developed in the Dunedin Longitudinal Study, limiting inference about strengths/weaknesses of the method as distinct from the Study, a unique single-year birth cohort followed through midlife with near-perfect retention and uniform measurement of multi-organ-system function across two decades of follow-up. We adapted our Pace of Aging method for mixed-age cohorts with variable follow-up of organ-function measures and applied it to develop a novel DNA methylation biomarker of Pace of Aging in data from the Framingham Heart Study Offspring Cohort, FraminghamPACE. Validation analyses across four independent cohorts and one clinical trial establish advantages for the Pace of Aging method in developing biomarkers that are both predictive of healthspan and responsive to geroprotective intervention.
Longevity Relevance Analysis
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The authors developed and validated a novel DNA methylation biomarker, FraminghamPACE, to measure the pace of aging in mixed-age cohorts, providing a potentially more generalizable surrogate endpoint for geroscience clinical trials than previous methods. This work is relevant because it addresses the critical need for robust, scalable biomarkers to accelerate the testing of geroprotective interventions, which is essential for advancing the field of lifespan extension beyond single-cohort limitations.
Zhang, W., Pan, Y., Xie, X. ...
· immunology
· Guangdong Provincial Key Laboratory of Bone and Joint Degeneration Diseases, The Third Affiliated Hospital of Southern Medical University, Guangzhou, China.
· biorxiv
The vertebrate water-to-land transition was accompanied by a six-fold increase in gravitational force, followed by the migration of hematopoietic stem cells (HSCs) from kidney or liver to the bone marrow, and the acquisition of enhanced immune functions to cope with novel environ...
The vertebrate water-to-land transition was accompanied by a six-fold increase in gravitational force, followed by the migration of hematopoietic stem cells (HSCs) from kidney or liver to the bone marrow, and the acquisition of enhanced immune functions to cope with novel environmental pressures. Bone senses mechanical loading and provides a microenvironment for HSC development, yet whether bone mechanosensation affects immune cell development and immune homeostasis remains unclear. Here, we unveil bone as a mechanosensory organ that translates mechanical force into hematopoietic instructions. Mechanical loading of bone directs HSCs toward lymphoid lineages in mice and non-human primates, whereas unloading favors myeloid commitment. This process requires osteocyte mechanosensor Piezo1, which induces loading-responsive bone-derived factors such as IL1R2, SERPINC1 and INMT, thereby restraining inflammatory signaling and guiding HSC differentiation. Osteocyte Piezo1 deficiency recapitulates the hematopoietic and immune alterations observed during unloading. Functionally, this pathway enhances acute infection resistance and suppresses immunosenescence in mice and in aged long-tailed macaques. Notably, skeletal mechanoregulation of immune homeostasis is conserved across vertebrate species. Our research defines the mechano-bone-immune axis (mechano-osteoimmunology), offering a novel evolutionary perspective on the interconnected development of the skeletal and immune systems and presenting a promising non-pharmacological target to address immune dysfunction.
Longevity Relevance Analysis
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Mechanical loading of bone activates osteocyte Piezo1 to secrete factors that direct hematopoietic stem cells toward lymphoid lineages and suppress inflammation, thereby enhancing infection resistance and delaying immunosenescence. This paper is relevant because it identifies a mechanistic pathway linking skeletal mechanosensation to the suppression of immunosenescence, a fundamental hallmark of aging, suggesting that mechanical interventions could mitigate age-related immune decline.
Suzuki, H., Miyachi, H., Yamada, N. ...
· immunology
· Kobe University Graduate School of Medicine
· biorxiv
compromises hematopoietic stem cell (HSC) maintenance, contributing to an extrinsic HSC aging phenotype. Although niche-derived Notch signaling is essential for hematopoietic regeneration following myelosuppressive injury, the upstream epigenetic mechanisms that regulate this str...
compromises hematopoietic stem cell (HSC) maintenance, contributing to an extrinsic HSC aging phenotype. Although niche-derived Notch signaling is essential for hematopoietic regeneration following myelosuppressive injury, the upstream epigenetic mechanisms that regulate this stress-responsive signaling remain poorly understood. Here, we identify the chromatin remodeler BRM (SMARCA2) as a critical regulator of the BM sinusoidal niche that preserves vascular integrity and hematopoietic regeneration. Using reciprocal BM transplantation, we demonstrate that a Brm-deficient microenvironment impairs HSC repopulating capacity and imposes an aging-like myeloid bias characterized by expansion of granulocyte-monocyte progenitors. Following 5-fluorouracil (5-FU)-induced myelosuppression, BrmKO mice exhibit defective sinusoidal regeneration accompanied by endothelial degeneration. Mechanistically, BRM deficiency attenuates endothelial Notch signaling by impairing stress-induced Notch2 expression in sinusoidal endothelial cells (SECs), while simultaneously reducing Jag2 ligand pool through persistent depletion of SECs and impaired stress-induced expansion of Jag2-producing LepR-positive stromal cells. These alterations attenuate endothelial Notch signaling, resulting in defective sinusoidal regeneration, loss of mesenchymal niche support, and progressive displacement of HSCs from the sinusoidal vasculature. Notably, Brm expression is physiologically reduced in aged wild-type SECs and LepR-positive stromal cells. Collectively, our findings identify BRM as a key epigenetic regulator of bone marrow niche integrity and suggest that age-associated BRM decline contributes to niche dysfunction and hematopoietic aging.
Longevity Relevance Analysis
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BRM (SMARCA2) is identified as a critical epigenetic regulator that preserves bone marrow sinusoidal niche integrity and prevents microenvironmental senescence, thereby sustaining hematopoietic stem cell function during aging. This work is relevant because it addresses the root cause of hematopoietic aging by elucidating the epigenetic mechanisms maintaining the stem cell niche, rather than merely treating symptoms.
Best, G., Mohan, S., Purvine, S. ...
· molecular biology
· Texas A and M University
· biorxiv
Translation fidelity is generally viewed as a constitutive process that deteriorates under stress and aging. Here we show that the fidelity of amino acid incorporation is instead dynamically regulated by the circadian clock. In Neurospora crassa, methionine (Met) misincorporation...
Translation fidelity is generally viewed as a constitutive process that deteriorates under stress and aging. Here we show that the fidelity of amino acid incorporation is instead dynamically regulated by the circadian clock. In Neurospora crassa, methionine (Met) misincorporation into proteins exhibits robust daily rhythms, peaking at night coincident with elevated reactive oxygen species (ROS). Rhythmic Met misincorporation requires the circadian clock, the ERK-family MAPK MAK1, and MAK1-dependent phosphorylation of methionyl-tRNA synthetase (MetRS), linking circadian signaling to regulated mistranslation associated with oxidative stress resistance. Preventing MetRS phosphorylation abolishes rhythmic Met misincorporation, impairs growth, and increases sensitivity to oxidative stress, whereas a phosphomimetic MetRS mutant enhances oxidative stress survival. Proteome-wide analyses identified thousands of Met misincorporation events, including a rhythmic subset that oscillates independently of corresponding protein abundance, suggesting that mistranslation dynamically remodels proteome composition across the day. Together, these findings establish translation fidelity as a regulated circadian output and support a model in which the circadian clock temporally regulates mistranslation to enhance oxidative stress resilience.
Significance StatementBiological clocks regulate translation termination fidelity, but whether they also control the accuracy of amino acid incorporation during protein synthesis was unknown. We show that the circadian clock drives rhythmic methionine misincorporation into proteins through ERK-family MAPK signaling and phosphorylation of methionyl-tRNA synthetase. Methionine misincorporation peaks during periods of elevated oxidative stress, and disrupting this regulation compromises oxidative stress survival, whereas constitutive activation enhances resistance. Together with previous work on translation termination fidelity, these findings reveal that biological clocks regulate multiple layers of translation fidelity and identify adaptive mistranslation as a mechanism that promotes cellular resilience.
Longevity Relevance Analysis
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The circadian clock dynamically regulates translation fidelity via MetRS phosphorylation to enhance oxidative stress resilience. This paper is relevant because it identifies a mechanistic link between circadian biology, proteostasis, and stress resistance, which are fundamental hallmarks of aging, although the findings in a model fungus represent an incremental advance rather than a direct intervention for human longevity.
Saba Khatatneh, Csaba Sőti, Milán Somogyvári
· Mechanisms of ageing and development
· Department of Molecular Biology, Semmelweis University, Budapest, Hungary. Electronic address: khatatneh.saba@phd.semmelweis.hu.
· pubmed
Heat shock transcription factor HSF1 maintains proteome integrity via the induction of heat shock proteins. Here, we provide a comprehensive overview on the structure, function and regulation of HSF1 in multiple organisms. We summarize the aging-associated changes of HSF1 functio...
Heat shock transcription factor HSF1 maintains proteome integrity via the induction of heat shock proteins. Here, we provide a comprehensive overview on the structure, function and regulation of HSF1 in multiple organisms. We summarize the aging-associated changes of HSF1 function, the reduced inducibility of the heat shock response, leading to a model of age-related stochastic HSF1 activity decline. Besides, we review basal, non-canonic HSF1 functions through regulating distinct transcriptional outputs which support development, reproduction, tissue proteostasis maintenance, growth- and cancer-related anabolic processes. Based on major observations in the nematode C. elegans demonstrating differential regulation of these outputs, we propose a novel mechanistic framework that draws on the life history-coupled programmed remodeling of its transcriptional function at the onset of reproduction. The HSF1 output selection model accounts for the coexistence of diminished stress inducibility with sustained or increased basal HSF1 activity and explains why broad HSF1 activation may benefit proteotoxic diseases but pose risks in cancer-prone conditions. Experimental approaches leveraging age- and tissue-specific transcriptomic, chromatin, and post-translational analyses are outlined, emphasizing selective restoration of protective HSF1 outputs over indiscriminate activation.
Longevity Relevance Analysis
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The paper proposes a mechanistic "Output Selection Model" suggesting that aging results from a stochastic decline in HSF1 inducibility while basal activity is maintained, implying that longevity interventions should target selective restoration of protective HSF1 outputs rather than broad activation. This review synthesizes existing data to propose a nuanced framework for HSF1 regulation in aging, offering a solid but incremental conceptual advance for the field of proteostasis and longevity research.
David Toppe, Sheng Huang, Janine Lützkendorf ...
· The EMBO journal
· Department of Biology, Chemistry, Pharmacy, Institute for Biology/Genetics, Freie Universität Berlin, 14195, Berlin, Germany.
· pubmed
Neural circuits must remain functionally stable while adapting to changing demands and levels of stress. While this balance is thought to rely on plasticity programs integrating molecular and activity-dependent signals, mechanistic models of how such adaptations are orchestrated ...
Neural circuits must remain functionally stable while adapting to changing demands and levels of stress. While this balance is thought to rely on plasticity programs integrating molecular and activity-dependent signals, mechanistic models of how such adaptations are orchestrated remain limited. Here, we show that impairment of autophagy in the Drosophila mushroom body (MB) induces brain-wide, post-transcriptional remodeling of presynaptic active zones, characterized by increased expression levels of active zone scaffold proteins, reduced abundance of calcium channel subunits, and elevated levels of Shaker-type potassium channels. This remodeling promotes organismal resilience, as reflected by increased sleep and extended lifespan. Mechanistically, early-life activation of this program is sufficient to extend lifespan, identifying synaptic remodeling as a causal driver of adaptive responses. MB-specific autophagy disruption further leads to non-cell autonomous accumulation of autophagic substrates across the brain, consistent with a system-level proteostatic imbalance in which degradative pathways remain active, but appear insufficient to match cargo load. Our findings identify autophagy in the mushroom body as a key regulator of brain-wide synaptic architecture and resilience, and establish a genetically tractable model for how local proteostatic impairment can trigger adaptive, system-level circuit remodeling.
Longevity Relevance Analysis
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Local impairment of autophagy in the Drosophila mushroom body triggers brain-wide presynaptic remodeling that causally extends lifespan and promotes resilience. The paper directly addresses a root mechanism of aging (proteostasis and synaptic maintenance) and demonstrates a causal link to lifespan extension, although the findings are based on a specific invertebrate model and represent a mechanistic insight rather than a transformative therapeutic breakthrough.
Badenoch, B., Fiehn, O., Rappaport, N. ...
· molecular biology
· Department of Molecular and Cellular Pathology, University of Michigan, Ann Arbor, MI, 48103, USA
· biorxiv
The pace of aging can be delayed by mutations, dietary manipulations, and drugs, yet the metabolic mechanisms underlying longevity interventions remain poorly understood. Here we present a multi-tissue metabolomic analysis of male UM-HET3 mice treated from 4 to 12 months of age w...
The pace of aging can be delayed by mutations, dietary manipulations, and drugs, yet the metabolic mechanisms underlying longevity interventions remain poorly understood. Here we present a multi-tissue metabolomic analysis of male UM-HET3 mice treated from 4 to 12 months of age with five validated longevity interventions: rapamycin, acarbose, 17-estradiol, canagliflozin, or caloric restriction. Using a feature-stabilized XGBoost pipeline applied to seven tissues, we show that metabolomic profiles can identify treated mice as likely recipients of a lifespan-extending intervention well before survival differences emerge. A leave-one-intervention-out procedure confirmed that models trained on any four interventions successfully classified mice from a fifth, unseen intervention, implying shared metabolic alterations across mechanistically distinct treatments. The most influential metabolites -- defined as the minimum set explaining 50% of cumulative model gain -- differed substantially across tissues. Only ergothioneine, a dietary antioxidant, ranked highly in more than two tissues: it was elevated by all five interventions in plasma and brain, and by four of five in muscle. Enrichment analyses further identified coordinated remodeling of lipid classes in plasma, perigonadal fat, and kidney. These findings reveal tissue-specific metabolic reprogramming shared across mechanistically distinct longevity interventions and, pending validation against interventions that do not extend lifespan, suggest a path toward metabolomic screening of candidate anti-aging drugs.
Longevity Relevance Analysis
(3)
The study identifies shared metabolic signatures, particularly involving ergothioneine and lipid remodeling, across five distinct longevity interventions in mice, suggesting potential universal biomarkers for lifespan extension. This work is relevant as it directly addresses the metabolic mechanisms underlying validated lifespan-extending interventions, moving beyond symptom treatment to understand fundamental aging processes, although the findings are currently correlative and require further validation to establish causal links or clinical applicability.
Yokoyama, M., Nakayama, A., Taki, Y. ...
· cell biology
· Chiba University Graduate School of Medicine
· biorxiv
Systemic aging and metabolic overload remodel the vasculature; however, how endothelial cells integrate these stresses across organs remains unclear. Using multi-organ single-cell and spatial transcriptomics with functional validation, we mapped endothelial and hematopoietic resp...
Systemic aging and metabolic overload remodel the vasculature; however, how endothelial cells integrate these stresses across organs remains unclear. Using multi-organ single-cell and spatial transcriptomics with functional validation, we mapped endothelial and hematopoietic responses in adipose tissue, skeletal muscle, liver, and heart. Organ-specific endothelial transcriptional features were relatively preserved, whereas chronic stress selectively reconfigured regulatory programs: aging induced a conserved Irf/Stat-centered endothelial program, while high-fat diet engaged organ-biased lipid and remodeling programs. Spatial analysis revealed perivascular niches centered on aging-associated interferon-stimulated endothelial activation, with neighboring immune and stromal cells expressing C3 and LRP1-associated signals. Rather than simply amplifying inflammation, these niches contained mechanisms that restrained IFN activation, as C3 depletion upregulated vascular IRF7 expression. In parallel, the IFN downstream effector BST2 promoted anti-inflammatory macrophage differentiation and suppressed atherosclerosis. These findings define vascular inflammaging as an organ-resolved niche process in which endothelial IFN activation is coupled to local inflammatory restraint.
HighlightsO_LIAging induces a shared endothelial type I IFN program across organs.
C_LIO_LIA high-fat diet triggers organ-biased endothelial remodeling programs.
C_LIO_LIPerivascular interferon niches couple inflammation with local restraint.
C_LIO_LIIFN-induced endothelial BST2 promotes CD200R-associated macrophage regulatory features.
C_LI
Longevity Relevance Analysis
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The paper identifies organ-specific endothelial regulatory programs linking aging and metabolic stress to vascular immune remodeling, specifically revealing how perivascular niches couple interferon activation with local inflammatory restraint via BST2. This work provides mechanistic insight into "inflammaging" and vascular health, which are fundamental drivers of age-related physiological decline, although it focuses on mapping mechanisms rather than proposing a direct intervention to extend lifespan.
Lu, T.-C., Liang, C.-Y., Park, Y.-J. ...
· developmental biology
· Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, USA
· biorxiv
Rapamycin extends lifespan across species, yet its cell-type-specific benefits and vulnerabilities remain unclear at whole-organism scale. Here, we present the Rapamycin Fly Cell Atlas (Rapa-FCA), a whole-organism single-nucleus transcriptomic atlas of Drosophila spanning both se...
Rapamycin extends lifespan across species, yet its cell-type-specific benefits and vulnerabilities remain unclear at whole-organism scale. Here, we present the Rapamycin Fly Cell Atlas (Rapa-FCA), a whole-organism single-nucleus transcriptomic atlas of Drosophila spanning both sexes, multiple ages, 18 cell classes, and 181 cell types. Rapamycin elicited a highly heterogeneous response, with prominent effects in reproductive, digestive, and neuromuscular systems and modest responses in most neuronal populations. Across diverse tissues, we identified a rapamycin-sensitive Convergent Aging Trajectory (CAT), marked by Fkbp12 enrichment and mTORC1-linked metabolic programs, including glycolysis and lipid synthesis. CAT-high nuclei accumulated with age and were preferentially reduced by rapamycin, especially in females, consistent with stronger female lifespan extension. By integrating CAT abundance, aging-clock predictions, and nucleus-ratio changes, we mapped sex- and cell-type-specific geroprotection effects of rapamycin. Together, the Rapa-FCA provides an organism-wide framework for resolving how rapamycin reshapes cellular aging across sex, tissue, and cellular state.
Longevity Relevance Analysis
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The study utilizes a comprehensive single-nucleus transcriptomic atlas to demonstrate that rapamycin mitigates a specific, sex-biased cellular aging trajectory driven by mTORC1 activity, thereby providing a mechanistic explanation for differential lifespan extension between sexes. This work is relevant because it moves beyond simple lifespan counts to identify specific cellular states and molecular pathways (Fkbp12/mTORC1) that constitute the root causes of aging vulnerability, offering a framework for targeted geroprotection rather than just symptom management.
Nouhaud, A., Diaz, A., Bouttier, M. ...
· cell biology
· INSERM/CNRS/Universite de Toulouse
· biorxiv
Hematopoietic stem cell (HSC) longevity critically depends on maintaining a deep dormant state, yet the molecular mechanisms that preserve this rare and functionally essential population remain poorly understood. Here, we identify the deubiquitinase USP7 as a key regulator of lon...
Hematopoietic stem cell (HSC) longevity critically depends on maintaining a deep dormant state, yet the molecular mechanisms that preserve this rare and functionally essential population remain poorly understood. Here, we identify the deubiquitinase USP7 as a key regulator of long-term HSC dormancy.
Using a Usp7+/- mouse model, we uncover selective depletion of hematopoietic stem and progenitor cells (HSPCs), which is associated with impaired long-term repopulation capacity. Strikingly, H2B-GFP label-retention assays reveal a profound loss of dormant HSCs in Usp7+/- mice, demonstrating a failure to maintain the most quiescent stem cell fraction in vivo. Consistently, single-cell RNA sequencing shows erosion of the transcriptional dormancy program, linking USP7 activity to the preservation of stem cell identity at both functional and molecular levels. Mechanistically, ultra-low-input proteomic profiling and biochemical approaches identify HMGA2 as a novel USP7 substrate, suggesting that ubiquitin-dependent regulation of chromatin architecture contributes to the control of HSC dormancy.
Together, our findings establish USP7 as a critical regulator of HSC dormancy, revealing a previously unrecognized post-translational mechanism controlling stem cell longevity, with implications for aging, regeneration, and hematopoietic disorders.
Longevity Relevance Analysis
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USP7 stabilizes HMGA2 to maintain hematopoietic stem cell dormancy and prevent their depletion, thereby preserving stem cell function and longevity. The paper identifies a specific molecular mechanism (USP7-HMGA2 axis) governing stem cell quiescence, which is a fundamental pillar of biological aging and tissue regeneration, offering a potential target for mitigating age-related stem cell exhaustion.
Tanigawa, M., Iwaki, T.
· geriatric medicine
· Oita University
· medrxiv
A central challenge in computational geroscience is to distinguish molecular quantities that predict mortality from those that causally drive it. Epigenetic clocks and aging biomarkers are increasingly used as if they were that mechanism, yet this is rarely tested directly. This ...
A central challenge in computational geroscience is to distinguish molecular quantities that predict mortality from those that causally drive it. Epigenetic clocks and aging biomarkers are increasingly used as if they were that mechanism, yet this is rarely tested directly. This distinction also bears on competing theories of aging: damage/reliability (A), hyperfunction/mTOR-IIS (B-1), and information loss (B-2). Although individual aging proteins have been tested piecemeal, no study has asked, in one framework, what fraction of mortality is measurable, whether it is causal, and whether it is reversible. Using only public, de-identified data, we evaluate this three ways. First, a Markov generator-matrix model of hallmark-load dynamics with death as an absorbing state, fitted by Bayesian inference through a joint biomarker-and-mortality likelihood to NHANES with linked mortality (n=23,844) and replicated in the Health and Retirement Study (HRS), decomposes Gompertz acceleration into visible (measured-biomarker-driven) and latent components. Second, a positive-control-calibrated, two-platform cis-pQTL Mendelian-randomization and colocalization design (UKB-PPP, deCODE) against parental-lifespan GWAS tests whether the latent's measurable components are causal. Third, a clock battery (Horvath, chronological; DamAge, causality-enriched damage) tests reversibility in cellular reprogramming. Within the model, ~92% of Gompertz acceleration is assigned to a latent component not captured by measured blood-biomarker axes (NHANES 92.5%, HRS 91.6%); the latent is partly encoded in DNA-methylation signatures but not transcription. The known causal proteins are detected (LPA p=9x10-12; IL6R p=2.8x10-5), yet the latent's components, across inflammatory, renal and growth-signalling (IGFBP3, IGF-1) axes, are null and do not colocalize on either platform. Reprogramming reverses the chronological clock (-11 to -22 yr) but not the causality-enriched damage clock. The model-inferred mortality-driving component is largely latent to accessible biomarkers; its measurable molecular proxies show no supported causal effect where the design detects known causes; and the causality-enriched damage-clock signal is resistant to partial reprogramming.
Longevity Relevance Analysis
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This paper utilizes a novel statistical framework to demonstrate that most mortality-driving dynamics are latent and not captured by current blood biomarkers, while showing that causality-enriched damage signals are resistant to reprogramming. The study is relevant because it critically evaluates the validity of current aging biomarkers and interventions, but its impact is limited as it primarily characterizes the limitations of existing tools rather than proposing a new mechanism for lifespan extension or a breakthrough therapeutic target.
Jiwon Shin, Seungmin Song, Yerim Han ...
· GeroScience
· Department of Nutritional Science and Food Management, Ewha Womans University, Seoul, 03760, Republic of Korea.
· pubmed
Aging is accompanied by widespread remodeling of DNA methylation (DNAm), which can be leveraged to build epigenetic clocks. In mice, most DNAm clocks rely on internal organs or terminal tissues, limiting longitudinal studies. Here, we compared age-associated DNAm patterns in matc...
Aging is accompanied by widespread remodeling of DNA methylation (DNAm), which can be leveraged to build epigenetic clocks. In mice, most DNAm clocks rely on internal organs or terminal tissues, limiting longitudinal studies. Here, we compared age-associated DNAm patterns in matched blood and tail-an easily accessible but underexplored tissue-and evaluated both as substrates for tissue-specific DNAm age prediction. Matched blood and tail were collected from male C57BL/6N Per2::Luc mice aged 7-103 weeks and profiled using the Infinium Mouse Methylation BeadChip. After SeSAMe preprocessing, probe-wise regression (β ~ Age, BH-FDR < 0.05) identified 78,111 age-associated CpGs in blood and 38,348 in tail. Blood showed predominantly hypomethylating changes and a later, more abrupt age shift, whereas tail exhibited a near-balanced hyper/hypomethylation pattern with smoother transitions. Segment-level analysis (BH-FDR < 0.05, ≥ 2 CpGs) identified 31,322 age-related differentially methylated regions (DMRs) in blood and 21,883 in tail. Direction-aware overlap yielded 6229 shared age-related DMRs, characterized by CpG island-enriched hypermethylation and Open Sea-enriched hypomethylation and linked to genes enriched for developmental, neuronal, immune, and signaling pathways. Elastic-net clocks achieved high accuracy in the training cohort (blood: α = 0.8, 72 CpGs, MAE = 2.30 weeks, R
Longevity Relevance Analysis
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This study demonstrates the feasibility of developing tissue-specific epigenetic clocks using accessible mouse tissues (blood and tail), providing a methodological tool for longitudinal aging research. The work is a technical validation of assay utility rather than a discovery of novel aging mechanisms or interventions, representing a minor incremental advance in the field of biogerontology.
Willicott, C. W., Altman, T. J., Kimble, L. C. ...
· neuroscience
· The University of Alabama
· biorxiv
The neuropathology of Parkinsons disease is characterized by -synuclein (-syn) aggregation and dopaminergic (DAergic) neurodegeneration. While neuronal loss in C. elegans -syn-induced neurodegeneration models is temporally age-dependent, prior research indicates it is uncoupled f...
The neuropathology of Parkinsons disease is characterized by -synuclein (-syn) aggregation and dopaminergic (DAergic) neurodegeneration. While neuronal loss in C. elegans -syn-induced neurodegeneration models is temporally age-dependent, prior research indicates it is uncoupled from the organismal aging process. Here we examined transgenic C. elegans expressing human A53T -syn in DAergic neurons to determine the impact of localized DA metabolism on both neurodegeneration and organismal lifespan. Increasing endogenous DA levels through overexpression of tyrosine hydroxylase (CAT-2) exacerbated A53T-induced DAergic degeneration, whereas DA depletion via {Delta}cat-2 mutation rescued neuronal survival. By mutating a DA-interaction motif within -syn, neurodegeneration was rendered insensitive to DA manipulation, thus confirming a structural basis for in vivo toxicity. We identified a DA--syn interaction that acts as a common upstream bridge whereby localized stress induces physiological responses in C. elegans. Genetically, this biochemical interaction acts as a pleiotropic trigger driving two compartmentalized responses: localized DAergic neurodegeneration via oxidative stress, and organism-wide, TFEB/hlh-30-dependent proteostatic remodeling that extends lifespan. Modulating autophagy, without exacerbating DA-mediated oxidative stress, represents a promising strategy to preserve adaptive systemic remodeling while limiting targeted neuronal damage.
Longevity Relevance Analysis
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The study demonstrates that dopamine-mediated oxidative stress drives localized neurodegeneration while simultaneously triggering a systemic, TFEB/hlh-30-dependent proteostatic response that extends lifespan in C. elegans. This is relevant because it identifies a specific biochemical mechanism (dopamine-alpha-synuclein interaction) that uncouples cellular damage from organismal aging, offering a potential target for interventions that preserve systemic health without exacerbating neuronal loss.
Haiyang Wu, Xiaoyu Yin, Min Zhang ...
· Journal of ovarian research
· GMU-GIBH Joint School of Life Sciences, Guangzhou Women and Children's Medical Center, Guangzhou Medical University, Guangzhou, Guangdong, 511436, China.
· pubmed
Ovarian aging, marked by a progressive diminution of oocyte quality and quantity, is a major contributor to declining female fertility and age-related reproductive disorders. However, transcript-level changes underlying this process remain incompletely understood. In this study, ...
Ovarian aging, marked by a progressive diminution of oocyte quality and quantity, is a major contributor to declining female fertility and age-related reproductive disorders. However, transcript-level changes underlying this process remain incompletely understood. In this study, we applied Oxford Nanopore long-read RNA sequencing to profile full-length transcripts from granulosa cells and oocytes of young (6-8 weeks) and aged (10 months) mice, complemented by Illumina short-read sequencing for orthogonal support. We performed transcript annotation, differential expression analysis, alternative polyadenylation (APA) analysis, and weighted gene co-expression network analysis (WGCNA) to investigate age-associated transcriptomic changes. Comprehensive annotation classified 130,730 high-confidence transcripts, including over 100,000 putative novel isoforms, and revealed that aging was associated with a shift toward isoforms with lower predicted coding potential. Exploratory enrichment analysis suggested that transcripts with lower predicted coding potential were associated with biological processes such as protein synthesis and chromosome segregation. APA analysis identified age-associated 3'UTR shortening. Transcript-level differential expression and isoform-switching analysis uncovered 795 significant switching events across both cell types, frequently associated with predicted open reading frame changes and potential protein-domain loss. Exploratory WGCNA highlighted modules associated with aging and cell-type specificity, including an Esr1-derived hub transcript, TALONT000180938, from a gene previously linked to ovarian function and disease. Many disease-associated genes exhibited cell-type-specific isoform usage, with several novel isoforms undetectable at the gene level. Our results indicate that long-read sequencing improves isoform-level resolution of ovarian transcriptomic diversity and identifies candidate aging-associated transcript alterations that may be relevant to reproductive decline.
Longevity Relevance Analysis
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Long-read transcriptomic profiling reveals age-associated isoform remodeling and altered coding potential in the mouse ovary, providing a detailed mechanistic map of transcript-level changes underlying ovarian aging. This study is relevant as it investigates fundamental molecular mechanisms of reproductive aging, a key aspect of organismal senescence, though its impact is limited by its descriptive nature and lack of intervention or direct lifespan extension data.
Liu, Y., Thiriveedi, V., Khumukcham, S. S. ...
· cancer biology
· NIH
· biorxiv
The incidence of early-onset colorectal cancer (CRC) has risen sharply in recent decades1, yet the biological basis underlying the distinct behavior of tumors arising in young versus aged tissues remains poorly understood. Here we show that aging reprograms the epigenetic landsca...
The incidence of early-onset colorectal cancer (CRC) has risen sharply in recent decades1, yet the biological basis underlying the distinct behavior of tumors arising in young versus aged tissues remains poorly understood. Here we show that aging reprograms the epigenetic landscape of the colon, restricting colon tumor growth through stable silencing of developmental and fetal gene programs. We find that colon tumors arising in aged mice are intrinsically less proliferative than those arising in young animals. Multi-omic profiling of normal colon and colon tumors reveals that aging drives DNA hypermethylation, loss of Polycomb-associated chromatin states, and reduced chromatin accessibility at a defined set of developmental genes that are bivalent (marked by both H3K27me3 and H3K4 methylation), transcriptionally active in colon tumors from young animals and repressed in both tumors and normal tissue from old animals. Among the genes most strongly repressed in old animals is Tacstd2 (Trop2), a regulator of fetal intestinal programs and epithelial stemness. Pharmacologic inhibition of DNA methylation reactivates the aging-silenced gene network in organoids from old animals, whereas genetic disruption of Tacstd2 suppresses growth and developmental transcriptional programs in young tumor organoids. TACSTD2, fetal gene signatures, and the aging-associated bivalent gene program are likewise repressed in late-onset vs. early-onset human colorectal cancers. Collectively, these findings identify age-associated epigenetic silencing of developmental gene programs as a causal mechanism that constrains colorectal tumor growth and provide a mechanistic framework for understanding the distinct biology of early-onset colorectal cancer.
Longevity Relevance Analysis
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Aging restricts colorectal tumor growth by epigenetically silencing developmental gene programs, specifically through DNA hypermethylation and loss of Polycomb-associated chromatin states at bivalent genes like Tacstd2. This paper is relevant because it elucidates a fundamental mechanism of how aging alters cellular epigenetic landscapes to suppress specific proliferative programs, offering insights into the root causes of age-related changes in tissue homeostasis and cancer biology rather than merely treating symptoms.
Sarah Hatem, András K Ponti, Christopher Hine
· Fibroblast Growth Factors
· Cleveland Clinic Research, Cleveland, OH 44195, USA.
· pubmed
Fibroblast growth factor 21 (FGF21) is a stress-induced endocrine hormone that regulates metabolism. Grandl et al. show that FGF21, through its receptor β-klotho (KLB), enhances sulfide signaling and hydrogen sulfide production, strengthening the unfolded protein response and int...
Fibroblast growth factor 21 (FGF21) is a stress-induced endocrine hormone that regulates metabolism. Grandl et al. show that FGF21, through its receptor β-klotho (KLB), enhances sulfide signaling and hydrogen sulfide production, strengthening the unfolded protein response and integrated stress response to promote stress resilience, metabolic adaptation, and potentially healthy aging.
Longevity Relevance Analysis
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FGF21 enhances cellular resilience and stress adaptation by linking ER stress to sulfide signaling through the KLB receptor. This work is relevant as it elucidates a specific molecular mechanism for stress resilience and metabolic adaptation, which are hallmarks of aging, though the direct translation to lifespan extension remains to be fully established.
Patrick E Sewell, Christopher Jensen
· Immunity & ageing : I & A
· Triple Helix Science Inc., Santa Ana, USA. patrick@triplehelixscience.com.
· pubmed
Age-related thymic involution is a central feature of immunosenescence and intersects with multiple "hallmarks of aging", including genomic instability, telomere attrition, mitochondrial dysfunction, and chronic inflammation. The decline in thymic epithelial integrity and FOXN1-d...
Age-related thymic involution is a central feature of immunosenescence and intersects with multiple "hallmarks of aging", including genomic instability, telomere attrition, mitochondrial dysfunction, and chronic inflammation. The decline in thymic epithelial integrity and FOXN1-driven thymopoiesis reduces naïve T-cell output, contracts TCR repertoire diversity, and perturbs central tolerance, contributing to increased susceptibility to infection, cancer, and autoimmunity. These changes occur alongside broader immune-aging phenomena such as inflammaging and frailty and are reflected in poorer vaccine responses and altered outcomes to novel pathogens such as SARS-CoV‑2. This review integrates mechanistic, preclinical, and human data to reassess the adult thymus as a therapeutic target. Higher-confidence domains for thymic restoration include cancer immunosurveillance, infectious disease vulnerability, vaccine responsiveness, and post-treatment immune reconstitution, supported by modeling of age-related disease incidence, transplant and HIV cohorts, and new observational links between radiographic thymic health, mortality, and immunotherapy outcomes. High-plausibility but less directly validated domains include autoimmunity, chronic herpesvirus control, HIV immunological non-responders, and post-acute infection syndromes such as long COVID, which share convergent patterns of T-cell dysfunction and persistent immune activation. The translational landscape spans hormonal and somatotropic modulation (sex steroid ablation, growth hormone/ghrelin), cytokine and growth-factor strategies (IL‑7, IL‑22, KGF/BMP4, FGF21), cell- and tissue-engineering approaches leveraging thymic epithelial stem cells and FOXN1-reprogrammed stromal cells, and gene-therapy concepts such as intrathymic AAV delivery of FOXN1, AIRE, chemokines, and stromal-support pathways. Collectively, these data support the biological plausibility of adult thymus restoration but highlight that robust, domain-specific clinical benefits have not yet been demonstrated in controlled trials. Future work should prioritize harmonized structural and functional biomarkers, domain-focused interventional studies in high-risk populations, and combined strategies that situate thymus-directed interventions within broader efforts to modify immune and organismal aging.
Longevity Relevance Analysis
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This review argues that restoring adult thymic function can mitigate immunosenescence and improve healthspan by addressing a root cause of immune aging, though it currently lacks clinical trial validation for specific interventions. The paper is relevant because it targets immunosenescence, a fundamental hallmark of aging, rather than merely treating age-related symptoms, positioning thymic restoration as a potential upstream intervention for broader age-related decline.
Jonathan Gigas, Michael E Meadow, Jing Guo ...
· GeroScience
· Department of Biology, University of Rochester, Rochester, NY, 14627, USA.
· pubmed
Sirtuin 6 (SIRT6) is a protein deacetylase and ribosyltransferase that is a vital hub for maintaining epigenetic homeostasis, regulating the transcriptome, and repairing DNA double stranded breaks (DSBs). Comprehensive proteomic profiling of the SIRT6 posttranslational landscape,...
Sirtuin 6 (SIRT6) is a protein deacetylase and ribosyltransferase that is a vital hub for maintaining epigenetic homeostasis, regulating the transcriptome, and repairing DNA double stranded breaks (DSBs). Comprehensive proteomic profiling of the SIRT6 posttranslational landscape, however, remains elusive. The SIRT6 C-terminal domain contains multiple phosphorylation sites. We find that the presence and the use of these sites are strongly correlated with maximum lifespan across mammals. Subsequent biochemical and in silico analyses revealed that SIRT6 hyperphosphorylation enhances its interaction with PARP1. Mutating the T294 phosphorylation site in human fibroblasts led to decreased survival after oxidative stress in the phospho-null T294A and improved oxidative stress resistance in the phospho-mimetic T294E. Together, these results suggest SIRT6 C-terminal phosphorylation increases stress resistance and interaction with PARP1 and that this phosphorylation is more abundant in long-lived mammalian species.
Longevity Relevance Analysis
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The study identifies a correlation between SIRT6 C-terminal phosphorylation, PARP1 interaction, and maximum lifespan across mammals, suggesting a mechanistic link between post-translational modifications and stress resistance. This work is relevant as it explores a fundamental molecular mechanism (SIRT6 regulation) associated with aging and longevity, though the findings are primarily correlative and incremental, lacking direct evidence of lifespan extension through intervention.
Diala Haykal, Frederic Flament, Lilit Garibyan ...
· GeroScience
· Centre Laser Palaiseau, 49 Ter Rue de Paris, 91120, Palaiseau, France. docteur.haykal@gmail.com.
· pubmed
Cellular senescence has emerged as a central mechanism driving cutaneous aging, impaired regeneration, and numerous dermatologic pathologies. Initially evolved as a protective mechanism to prevent malignant transformation and facilitate wound repair, senescence becomes maladaptiv...
Cellular senescence has emerged as a central mechanism driving cutaneous aging, impaired regeneration, and numerous dermatologic pathologies. Initially evolved as a protective mechanism to prevent malignant transformation and facilitate wound repair, senescence becomes maladaptive when senescent cells persist. Senescent keratinocytes, fibroblasts, and melanocytes can secrete pro-inflammatory mediators and other factors, collectively termed the senescence-associated secretory phenotype (SASP), which may degrade extracellular matrix components, disrupt pigmentary balance, and impair barrier function. Senescent cells are resistant to conditions that cause death of non-senescent cells and are generally removed by the immune system. Persisting senescent cells can become increasingly pro-inflammatory and fibrotic, perhaps due to accumulating DNA damage within these cells. Two primary geroscience-based therapeutic paradigms (gerotherapeutics) have been proposed: senolytics, which selectively eliminate senescent cells, and senomorphics, which modulate or suppress SASP activity without inducing senescent cell death. In dermatology, these approaches are particularly relevant given skin's accessibility, visible aging markers, and ability to serve as a translational platform for systemic gerotherapeutic interventions. Interfering with the development of senescent cells, for example by interfering with such regulators of senescent cell formation as p16, retinoblastoma protein (pRB), p53, or p21, can be detrimental due to the protective roles of transient senescence in wound healing and cancer suppression. However, senolytics, which do not prevent senescent cells from developing but rather act by clearing already formed persisting and tissue-damaging senescent cells, offer the potential to delay, prevent, alleviate, or treat aged or fibrotic skin. Because of the days to weeks for senescent cells to form fully and their inability to divide, senolytics can be administered intermittently, for example for brief intervals every 2 weeks or once a month. Senomorphics, conversely, can modulate the detrimental effects of the SASP and generally need to be administered continuously or more frequently than senolytics. Some agents are both senolytic and senomorphic. This review considers the mechanistic underpinnings of senescence in skin, the evidence for both therapeutic approaches, and the future directions for integrating senotherapeutics into regenerative and aesthetic dermatology. Advances in cutaneous biomarkers, topical delivery systems, and AI-assisted patient stratification are expected to accelerate translation into clinical practice.
Longevity Relevance Analysis
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This review outlines the mechanistic rationale and therapeutic potential of senolytics and senomorphics for treating cutaneous aging, serving as a foundational summary rather than presenting novel experimental data or breakthroughs. The paper is relevant because it addresses cellular senescence, a recognized root cause of aging, by evaluating strategies to clear senescent cells or modulate their secretory phenotype to delay tissue aging.
Hao Cui, Sin Man Lam, Yiqi Zhao ...
· Cell reports
· State Key Laboratory of Cardiovascular Disease, Fuwai Hospital, National Center for Cardiovascular Diseases, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100037, China.
· pubmed
An established vascular network is a prerequisite to ensuring an optimal supply of oxygen and nutrients for sustaining developmental events and systemic function. Herein, we construct a time-resolved proteolipidomic atlas of the aorta across the human life cycle. trans-omics inte...
An established vascular network is a prerequisite to ensuring an optimal supply of oxygen and nutrients for sustaining developmental events and systemic function. Herein, we construct a time-resolved proteolipidomic atlas of the aorta across the human life cycle. trans-omics integration reveals that postnatal ganglioside GM3 accumulation is functionally coregulated with calcium homeostasis mediated by plasma membrane calcium-transporting ATPases (PMCAs). We then verify mechanistically in senescence-induced primary vascular smooth muscle cells (VSMCs) that knockdown of GM3 synthase leads to diminished expressions of both PMCA1 and contractile phenotype marker protein. In aged aortas, defects in branched-chain amino acid catabolism emerge as key adult-to-fetal metabolic reversion, with synchronous reductions in serine-derived lipids, including GM3 and phosphatidylserines. Our work suggests that postnatal increases in aortic GM3s maintain PMCA-regulated calcium homeostasis that delays pathological phenotypic transitions of VSMCs. Reductions in aortic GM3s at old age might cause such adaptations to disintegrate and increase disease susceptibility.
Longevity Relevance Analysis
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The study identifies a correlation between postnatal GM3 accumulation and calcium homeostasis in the aorta, suggesting that GM3 depletion in aging contributes to vascular dysfunction, but it represents an observational mechanistic insight rather than a transformative longevity intervention. This work maps specific lipid-protein modules across the human life cycle, providing foundational data on vascular aging mechanisms that may inform future therapeutic targets for age-related cardiovascular decline.
Guanqin Ma, Erlin Wang, Xiaoxu Yan ...
· Neuroscience bulletin
· Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650201, China.
· pubmed
Mitochondrial dysfunction induces metabolic dysregulation in immune cells that is etiologically associated with age-related brain disorders. However, how dysfunctional mitochondria in microglia-the brain-resident immune cells-initially affect neurological function remains incompl...
Mitochondrial dysfunction induces metabolic dysregulation in immune cells that is etiologically associated with age-related brain disorders. However, how dysfunctional mitochondria in microglia-the brain-resident immune cells-initially affect neurological function remains incompletely understood. Here, we demonstrate that dysfunctional mitochondria in microglia, induced by the conditional knockout of mitochondrial transcription factor A, act as triggers of metabolic dysregulation, cognitive aging, and neurodegeneration in adult mice. Notably, this metabolic disturbance induces a microglial transition to states associated with neuroinflammatory activation and neurodegenerative disease, thereby triggering multiple layers of pathological cascade reactions among other brain cell types and shaping a neuroinflammaging state at single-cell resolution. Mechanistically, mitochondrial dysfunction activates the innate immune cyclic GMP-AMP synthase-stimulator of interferon genes (cGAS-STING) pathway, which mediates immune sensing of cytosolic DNA in microglia and contributes to inflammaging. We further present evidence that combined treatment aimed at restoring metabolic homeostasis and inhibiting neuroinflammatory cGAS-STING partially rescues age-related neurological dysfunction in mice. Collectively, our findings reveal a link between mitochondrial dysfunction in microglia and cognitive aging, underscoring the significance of tightly regulated metabolism in age-associated neurological diseases.
Longevity Relevance Analysis
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Mitochondrial dysfunction in microglia drives cognitive aging and neurodegeneration via the cGAS-STING pathway, which can be partially rescued by restoring metabolic homeostasis and inhibiting this inflammatory pathway. This paper is relevant because it identifies a specific mechanistic root cause (mitochondrial-metabolic-immune axis) of aging phenotypes rather than just treating symptoms, although the findings represent a solid incremental advance in understanding inflammaging mechanisms rather than a transformative breakthrough.
Jing Sun, Mingchen Yan, Jiang Dan ...
· Journal of advanced research
· State Key Laboratory of Quantitative Synthetic Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China.
· pubmed
Sarcopenia, the age-related loss of muscle mass and function, is a major barrier to healthy aging. However, its molecular origins remain obscure, and current clinical tools lack the sensitivity needed to detect risk before significant decline occurs.
Sarcopenia, the age-related loss of muscle mass and function, is a major barrier to healthy aging. However, its molecular origins remain obscure, and current clinical tools lack the sensitivity needed to detect risk before significant decline occurs.
Longevity Relevance Analysis
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The study identifies a specific leptin-driven inflammatory-mitochondrial axis as a causal driver of sarcopenia, offering a mechanistic target for early intervention in age-related muscle decline. This work is relevant because it moves beyond correlational biomarkers to propose a root-cause mechanism linking metabolic signaling (leptin) and cellular health (mitochondria) to a fundamental aging phenotype, suggesting that modulating this axis could preserve muscle function and potentially extend healthspan.
Stefano Bettinazzi, Avishikta Chakraborty, Finley Grover-Thomas ...
· Mitochondria
· Department of Genetics, Evolution and Environment, University College London, London WC1E 6BT, United Kingdom.
· pubmed
Mitochondrial decline is a hallmark of ageing, yet the role of intergenomic compatibility in shaping ageing trajectories remains poorly understood, particularly in an ecologically relevant framework. Hormetic interventions have been proposed as strategies to modulate metabolism a...
Mitochondrial decline is a hallmark of ageing, yet the role of intergenomic compatibility in shaping ageing trajectories remains poorly understood, particularly in an ecologically relevant framework. Hormetic interventions have been proposed as strategies to modulate metabolism and lifespan, but it is unknown how this operates in the context of mitonuclear discordance. Here, we demonstrate that mitonuclear mismatch accelerates age-related mitochondrial decline, elevates reactive oxygen species production, and shortens lifespan. Strikingly, early-life mitochondrial stress induced by dietary modulation counteracts these effects, promoting mitochondrial homeostasis and longevity. Our findings reveal mitonuclear interactions shaping ageing trajectories in natural populations and provide unique evidence that targeted interventions can act as a buffer against the detrimental impact of genetic discordance.
Longevity Relevance Analysis
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Mitonuclear mismatch accelerates mitochondrial decline and shortens lifespan, but early-life dietary stress can buffer these effects to promote longevity. This study provides ecologically relevant evidence that intergenomic compatibility influences aging trajectories and that hormetic interventions can mitigate genetic disadvantages, offering a nuanced understanding of how genetic background modulates the efficacy of longevity interventions.
Abdullah Altulea, Sebastian Mackedenski, Jamil Nehme ...
· The EMBO journal
· European Research Institute for the Biology of Ageing (ERIBA), University Medical Center Groningen (UMCG), University of Groningen (RUG), Groningen, The Netherlands.
· pubmed
Identifying senescent cells via single-cell transcriptome profiling data remains challenging due to cellular heterogeneity and overlap with other cellular states. Here, we present SenFlag, a streamlined gene signature for enhanced identification of senescent cells based on integr...
Identifying senescent cells via single-cell transcriptome profiling data remains challenging due to cellular heterogeneity and overlap with other cellular states. Here, we present SenFlag, a streamlined gene signature for enhanced identification of senescent cells based on integration of core gene expression features. SenFlag was derived through systematic assessment of bulk and single-cell RNA-sequencing datasets across multiple senescence models. It captures a conserved transcriptional program characterized by reduced expression of proliferation-associated genes and chromatin-associated genes (HMGB1/2, HMGN2), combined with upregulation of cell-cycle inhibitors (CDKN1A/CDKN2A) and of CCND1. Additionally, SenFlag incorporates lysosomal features, including increased expression of V-ATPase subunits and cathepsins. SenFlag identifies a rare but progressively accumulating population of senescent cells across tissues in both mice and humans in vivo, with enrichment in epithelial and endothelial compartments. SenFlag-positive cells increase with age and following tissue injury, and are reduced in datasets involving senescence-targeting interventions, supporting its specificity in vivo. Together, SenFlag provides a robust and interpretable signature for identifying senescent cells in single-cell datasets and facilitates the study of senescence across physiological and pathological contexts.
Longevity Relevance Analysis
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SenFlag provides a robust, conserved gene signature for identifying senescent cells in single-cell transcriptomic data, facilitating the study of cellular senescence across physiological and pathological contexts. This tool is relevant to longevity research as it enables more precise quantification of senescent burden, a key driver of aging, thereby supporting the development and evaluation of senolytic interventions.
Antero Salminen, Kai Kaarniranta, Anu Kauppinen
· Aging
· Department of Neurology, Institute of Clinical Medicine, University of Eastern Finland, P.O. Box 1627, 70211, Kuopio, Finland. antero.salminen@uef.fi.
· pubmed
About 1.5-2 billion years ago, an endosymbiosis between aerobic α-proteobacteria and anaerobic archaeal cells generated mitochondria, i.e., organelles capable of producing oxidative energy. The bacterial genome was fundamentally reduced and a circular mitochondrial genome evolved...
About 1.5-2 billion years ago, an endosymbiosis between aerobic α-proteobacteria and anaerobic archaeal cells generated mitochondria, i.e., organelles capable of producing oxidative energy. The bacterial genome was fundamentally reduced and a circular mitochondrial genome evolved containing mainly the genes coding for the subunits of the electron transport chain. Before the symbiotic event, there existed a virus-host co-evolution which involved the development of sensors for detecting dangerous viral DNA/RNA molecules. Endosymbiosis supplied eukaryotic cells not only with an oxidative powerhouse to allow the evolution of more complex multicellular organisms but it also meant that cells now housed an organelle which was able to generate reactive oxygen species (ROS) and to leak mitochondrial DNA (mtDNA) and double-stranded RNA (dsRNA) into the cytoplasm. There is now abundant evidence that during aging and age-related diseases mitochondria are prone to release both mtDNA and dsRNA. In the cytoplasm, mtDNA/dsRNA molecules activate a number of cytosolic nucleic acid sensors leading to the secretion of type-1 interferons (IFN) and many other cytokines which promote an age-related proinflammatory state. Currently, it is known that mtDNA can activate the cGAS-STING pathway, AIM2 inflammasomes, IFI16 receptors, and ZBP1 sensors and in addition mitochondrial dsRNA stimulates RIG-1/MDA5 signaling. Interestingly, there is abundant evidence that all these receptors are drivers of cellular senescence and inflammaging. For decades, there has been mounting evidence that mitochondria have a crucial role in the aging process. We will examine this question from the perspective of evolution and propose that mitochondrial evolution created an endogenic source for the leakage of dangerous mtDNA/dsRNA which subsequently stimulated cytosolic DNA/RNA sensors, an evolutionarily conserved viral defence mechanism. It seems that these two evolutionary events provided not only the basis for the inevitable process of aging but also ensuring the death of parental organisms.
Longevity Relevance Analysis
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The paper proposes that the evolutionary origin of mitochondria created an inherent vulnerability where the leakage of mitochondrial nucleic acids triggers innate immune sensors, thereby driving inflammaging and senescence. This hypothesis is relevant because it identifies a specific mechanistic root cause of aging (chronic immune activation due to endogenous damage) rather than merely correlating with age-related diseases, although the argument is largely a theoretical synthesis of existing pathways rather than novel experimental evidence.
Qian-Man Li, Xiao-Xuan Ge, Tian-Jiao Wen ...
· Ageing research reviews
· Department of Clinical Epidemiology, Shengjing Hospital of China Medical University, Shenyang, China.
· pubmed
Biological aging is increasingly understood as a heterogeneous, multi-system process marked by organ-level vulnerability, cross-organ coordination, and variation in resilience. Advances in plasma proteomics, metabolomics, imaging, DNA methylation, digital biomarkers, and genetic ...
Biological aging is increasingly understood as a heterogeneous, multi-system process marked by organ-level vulnerability, cross-organ coordination, and variation in resilience. Advances in plasma proteomics, metabolomics, imaging, DNA methylation, digital biomarkers, and genetic epidemiology have enabled organ-level, system-level, and cross-organ age models, but these measures are often interpreted more strongly than the evidence permits. In this Review, we synthesize evidence on biological age models derived from molecular, imaging, digital, clinical, and multi-omic data and introduce ORGAN-AGE as an interpretive framework for judging what these signals can and cannot establish. We distinguish organ-derived, organ-enriched, organ-informative, system-informative, and systemic biomarkers, because circulating molecular signals rarely prove tissue origin. We critically evaluate how age gaps are constructed, bias-corrected, validated, interpreted, and linked to mortality, frailty, dementia, cardiovascular disease, diabetes complications, multimorbidity, and functional decline. A central argument is that organ age gaps can localize apparent aging burden, whereas cross-organ coupling should be treated as a graded inference rather than evidence of direct biological propagation unless longitudinal, molecular, genetic, functional, or experimental support is available. Resilience should likewise be operationalized through recovery, adaptation, and trajectory change rather than inferred from static biomarkers alone. Finally, we outline a staged translational roadmap in which organ aging models may support risk interpretation, trial enrichment, target prioritization, and future digital-twin research only after calibration, transportability, incremental utility, and clinical end-use have been demonstrated.
Longevity Relevance Analysis
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The paper proposes a conceptual framework (ORGAN-AGE) to critically evaluate and standardize the interpretation of multi-omic biological age biomarkers, arguing for stricter evidentiary standards regarding tissue origin and causal inference in aging research. This work is relevant because it addresses the fundamental methodological challenges in defining and measuring biological aging, which is a prerequisite for developing interventions that target the root causes of aging rather than just correlating with it, although it is a review and perspective piece rather than an experimental breakthrough.