Global profiling of protein lysine lactylation and potential target modified protein analysis in hepatocellular carcinoma

PROTEOMICS, Journal Year: 2023, Volume and Issue: 23(9)

Published: Jan. 10, 2023

Hepatocellular carcinoma (HCC), the most common type of primary liver cancer, often metastasizes to lungs. The implications lysine lactylation (Kla), a recently identified histone post-translational modification (PTM), in pathology HCC remain unclear. Here, we report first proteomic survey this specific (with no metastasis during 3 years follow-up), normal tissues, and lung samples HCC. Of 2045 sites detected on 960 proteins, 1438 772 proteins contained quantitative information. Subsequently, analyzed differentially modified among different groups. Differentially lactylated were found be involved several biological processes, including-but not limited to-amino acid metabolism, ribosomal protein synthesis, fatty metabolism. In addition, numerous highly valuable lactate-modified from literature. Among them, verified lactate levels following two tumor-related obtained similar results: USP14 ABCF1. These will further investigated our future studies. This paper is lactylome it provides reliable foundation for research Kla

Language: Английский

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Tumor cells impair immunological synapse formation via central nervous system-enriched metabolite

Cancer Cell, Journal Year: 2024, Volume and Issue: 42(6), P. 985 - 1002.e18

Published: May 30, 2024

Language: Английский

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Insights into the biochemical and biophysical mechanisms mediating the longevity of the transparent optics of the eye lens

Journal of Biological Chemistry, Journal Year: 2022, Volume and Issue: 298(11), P. 102537 - 102537

Published: Sept. 27, 2022

A summary of key factors needed in the development and maintenance transparency optical properties aging lens is seen Figure 8. Interactions at molecular cellular levels account for formation transparent symmetric optics that contribute to refractive living "refracton" eye. Their significance visual function cannot be overstated. From perspective global health, these can impact progress on novel therapeutics preserve improve vision, specifically populations. As a challenging scientific problem, biology interactions between light waves organic matter basis extracellular tissues. Systematic studies are providing new knowledge about membrane, cytoskeletal, cytoplasmic adaptations, which generate image-forming refracton how it maintained matures over lifetime. The signaling mechanisms synchronize proliferation, migration, elongation, as highly optically tissue unique lens. valuable model study both longevity. This particularly true with respect protein stabilization involving PTMs, because very long-lived proteins not replaced other nontransparent tissues.Figure 8Key systematic review recent past advances cataract research provides insight into biochemical biophysical control short-range order (SRO), transparency, symmetry during aging. Note: While image largely index, linked closely protein, structure, supported by microcirculation, metabolism, biochemistry. These regulate cell elongation differentiation prolong longevity molecules cells isolated within capsule, thickest basement membrane any mammalian (102Nielsen J. Hedeholm R.B. Heinemeier Bushnell P.G. Christiansen J.S. Olsen et al.Eye radiocarbon reveals centuries Greenland shark (Somniosus microcephalus).Science. 2016; 353: 702-704Crossref PubMed Scopus (171) Google Scholar, 104Uwineza A. Kalligeraki A.A. Hamada N. Jarrin M. Quinlan R.A. Cataractogenic load - concept contribution ionizing radiation accelerated eye lens.Mutat. Res. 2019; 779: 68-81Crossref (29) 124Song S. Landsbury Dahm R. Liu Y. Zhang Q. Functions intermediate filament cytoskeleton lens.J. Clin. Invest. 2009; 119: 1837-1848Crossref (123) 184Fujii Takemoto L.J. Momose Matsumoto Hiroki K. Akaboshi Formation four isomers asp-151 residue aged human alphaA-crystallin natural aging.Biochem. Biophys. Commun. 1999; 265: 746-751Crossref (0) 290Pierscionek B.K. Regini J.W. gradient index eye: an opto-biological synchrony.Prog. Retin. Eye 2012; 31: 332-349Crossref (47) 342Subczynski W.K. Widomska Mainali L. Factors determining oxygen permeability biological membranes: transport across fiber-cell plasma membranes.Adv. Exp. Med. Biol. 2017; 977: 27-34Crossref (8) 423Patterson Characterization equatorial current lens.Ophthalmic 1988; 20: 139-142Crossref (14) 424Wolf L.V. Yang Wang Xie Braunger B. Tamm E.R. al.Identification pax6-dependent gene regulatory networks mouse lens.PLoS One. 4: e4159Crossref Scholar). Individual panels taken or adapted from Refs. (104Uwineza 131Masters P.M. Bada J.L. Zigler Jr., Aspartic acid racemization heavy weight crystallins water insoluble normal lenses cataracts.Proc. Natl. Acad. Sci. U. 1978; 75: 1204-1208Crossref 425Braakhuis A.J. Donaldson C.I. Lim J.C. P.J. Nutritional strategies prevent cataract: status future strategies.Nutrients. 11: 1186Crossref (38) 426Maisel H.C. Harding C.V. Alcala J.R. Kuszak Bradley Morphology Lens Molecular Cellular Biology Lens..in: Bloemendal H. Wiley Sons, New York1981Google Scholar); https://commons.wikimedia.org/wiki/File:Greenland_shark_profile.jpg). DF, differentiating fiber cell; MF, differentiated mature cells.View Large Image ViewerDownload Hi-res Download (PPT)

Language: Английский

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Scaffold, mechanics and functions of nuclear lamins

FEBS Letters, Journal Year: 2023, Volume and Issue: 597(22), P. 2791 - 2805

Published: Oct. 10, 2023

Nuclear lamins are type-V intermediate filaments that involved in many nuclear processes. In mammals, A- and B-type assemble into separate physical meshwork underneath the inner membrane, lamina, with some residual fraction localized within nucleoplasm. Lamins major part of nucleoskeleton, providing mechanical strength flexibility to protect genome allow deformability, while also contributing gene regulation via interactions chromatin. While evolutionary ancestors all filament family proteins, their ultimate filamentous assembly is markedly different from cytoplasmic counterparts. Interestingly, hundreds genetic mutations lamina proteins have been causally linked a broad range human pathologies, termed laminopathies. These include muscular, neurological metabolic disorders, as well premature aging diseases. Recent technological advances contributed resolving structure corresponding organization. this review, we revisit multiscale lamin organization discuss its implications on mechanics chromatin lamina-associated domains.

Language: Английский

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Chromatin plasticity in mechanotransduction

Current Opinion in Cell Biology, Journal Year: 2024, Volume and Issue: 88, P. 102376 - 102376

Published: May 28, 2024

Living organisms can detect and respond to physical forces at the cellular level. The pathways that transmit these nucleus allow cells react quickly consistently environmental changes. Mechanobiology involves interaction between biological processes is crucial for driving embryonic development adapting cues during adulthood. Molecular studies have shown sense mechanical signals directly through membrane receptors linked cytoskeleton or indirectly biochemical cascades influence gene expression adaptation. This review will explore role of epigenetic modifications, emphasizing 3D genome architecture nuclear structures as responders stimuli, which ensure memory adaptability. Understanding how are transduced regulate cell functioning, governing such programming reprogramming, essential advancing our knowledge human diseases.

Language: Английский

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The nexus of nuclear envelope dynamics, circular economy and cancer cell pathophysiology

European Journal of Cell Biology, Journal Year: 2024, Volume and Issue: 103(2), P. 151394 - 151394

Published: Feb. 6, 2024

The nuclear envelope (NE) is a critical component in maintaining the function and structure of eukaryotic nucleus. NE lamina are disassembled during each cell cycle to enable an open mitosis. Nuclear architecture construction deconstruction prime example circular economy, as it fulfills highly efficient recycling program bound continuous assessment quality functionality building blocks. Alterations dynamics have emerged important contributors both oncogenic transformation cancer progression. However, knowledge breakdown reassembly still limited fraction participating proteins complexes. As cells contain diverse nuclei terms DNA content, but also number, size, shape, great interest understand intricate relationship between these features pathophysiology. In this review, we provide insights into how those regulated, destabilization processes may alter economy. Moreover, expand lamina-associated domain region by using strategic algorithms, including Artificial Intelligence, infer protein associations, assess their location, predict cancer-type specificity with implications for future diagnosis, prognosis treatment. Using approach identified NUP98 MECP2 potential that exhibit upregulation Acute Myeloid Leukemia (LAML) patients early diagnosis.

Language: Английский

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Nuclear lamin A/C phosphorylation by loss of androgen receptor leads to cancer-associated fibroblast activation

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: Sept. 12, 2024

Language: Английский

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Dynamic expression of lamin B1 during adult neurogenesis in the vertebrate brain

Developmental Dynamics, Journal Year: 2025, Volume and Issue: unknown

Published: April 11, 2025

Abstract Background In mammals, specific brain regions such as the dentate gyrus (DG) of hippocampus and subventricular zone (SVZ) lateral ventricles harbor adult neural stem/progenitor cells (ANSPCs) that give rise to new neurons contribute structural functional plasticity. contrast, other vertebrates salamanders zebrafish exhibit a widely distributed neurogenic niches throughout brain, suggesting greater capacity in adulthood. However, mechanisms underlying this divergence potential among remain elusive. To address this, we examined expression dynamics critical epigenetic regulator for long‐term maintenance murine ANSPCs, lamin B1, during neurogenesis across vertebrate spectrum. Results Lamin B1 patterns are conserved mammals including mouse, naked mole‐rat, ferret. these differ between anamniotes. stem neuroblasts exhibited higher levels, differentiated possessed lower levels. On hand, anamniotes showed opposite expression, with levels compared cells. Conclusions Our study shows pattern differs species, changes protein sequence may differences patterns. This highlights cell‐autonomous regulation ANSPC pools species.

Language: Английский

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Quantifying Intracellular Mechanosensitive Response upon Spatially Defined Mechano-Chemical Triggering

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: May 6, 2025

Abstract The mechanotransduction process relies on the interaction of mechanical and biochemical cues, transmitting cellular forces to intracellular organelles activate pathways elicit responses. This involves mechanoresponsive components like actin filaments, microtubules (MTs), lamin meshwork. Fluidic force microscopy (FluidFM), a force-controlled micropipette allows for manipulation intact cells mechanically chemically, providing novel approach study mechanotransmission in situ . FluidFM combined with fluorescence lifetime imaging (FLIM), enables high-resolution mapping tension dynamics. Here, we used varying nuclear lamina compositions explore lamina’s role initiating mechanoresponse external cues. We found that A-type B-type lamins trigger distinctly, contributing elasticity, whereas influence viscous response. Moreover, MTs underwent adaptation assisted releasing A/C knockout (KO) cells, contrasting healthy where aid preserve locally rather than transferring it. research provides insights into dynamic supports targeted therapies stress-related diseases.

Language: Английский

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Phase behavior and dissociation kinetics of lamins in a polymer model of progeria

The Journal of Chemical Physics, Journal Year: 2025, Volume and Issue: 162(18)

Published: May 8, 2025

One of the key structural proteins in eukaryotic cell nucleus is lamin. Lamins can assemble into a two-dimensional protein meshwork at nuclear periphery, known as lamina, which provides rigidity and shape to nucleus. Mutations lamin that alter structure lamina underlie laminopathic diseases, including Hutchinson–Gilford Progeria Syndrome (HGPS). Experiments have shown that, compared healthy cells, supramolecular structures (e.g., protofilaments) thicker HGPS, where they form highly stable nematic microdomains reminiscent liquid crystals. This significantly alters morphological mechanical properties In this study, we investigate aggregation fibrous their dissociation kinetics from periphery by modeling them coarse-grained, rod-like polymer chains confined within rigid spherical shell. Our model reproduces formation multidirectional domains surface reduced observed HGPS nuclei adjusting concentration, lamin–lamin (head–tail), lamin–shell association strengths. While phase requires relatively strong affinity under any non-vanishing inter-lamin attraction, thickness layer primarily controlled head–tail strength model. Furthermore, unbinding exhibit concentration-dependent facilitated dissociation, suppressed intra-lamin interactions, diseased nuclei. Overall, our calculations reveal physical mechanisms mutations affecting native interactions concentration could lead an abnormal diseases.

Language: Английский

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