技术资料

Ethanol (EtOH)-induced alterations in intestinal homeostasis lead to multi-system pathologies,including liver injury. $\omega$-6 PUFAs exert pro-inflammatory activity,while $\omega$-3 PUFAs promote anti-inflammatory activity that is mediated,in part,through specialized pro-resolving mediators [e.g.,resolvin D1 (RvD1)]. We tested the hypothesis that a decrease in the $\omega$-6:$\omega$-3 PUFA ratio would attenuate EtOH-mediated alterations in the gut-liver axis. $\omega$-3 FA desaturase-1 (fat-1) mice,which endogenously increase $\omega$-3 PUFA levels,were protected against EtOH-mediated downregulation of intestinal tight junction proteins in organoid cultures and in vivo. EtOH- and lipopolysaccharide-induced expression of INF-$\gamma$,Il-6,and Cxcl1 was attenuated in fat-1 and WT RvD1-treated mice. RNA-seq of ileum tissue revealed upregulation of several genes involved in cell proliferation,stem cell renewal,and antimicrobial defense (including Alpi and Leap2) in fat-1 versus WT mice fed EtOH. fat-1 mice were also resistant to EtOH-mediated downregulation of genes important for xenobiotic/bile acid detoxification. Further,gut microbiome and plasma metabolomics revealed several changes in fat-1 versus WT mice that may contribute to a reduced inflammatory response. Finally,these data correlated with a significant reduction in liver injury. Our study suggests that $\omega$-3 PUFA enrichment or treatment with resolvins can attenuate the disruption in intestinal homeostasis caused by EtOH consumption and systemic inflammation with a concomitant reduction in liver injury. View Publication

Shiga toxigenic Escherichia coli (STEC) are responsible for a worldwide foodborne disease,which is characterized by severe bloody diarrhea and hemolytic uremic syndrome (HUS). Subtilase cytotoxin (SubAB) is a novel AB5 toxin,which is produced by Locus for Enterocyte Effacement (LEE)-negative STEC. Cleavage of the BiP protein by SubAB induces endoplasmic reticulum (ER) stress,followed by induction of cytotoxicity in vitro or lethal severe hemorrhagic inflammation in mice. Here we found that steroids and diacylglycerol (DAG) analogues (e.g.,bryostatin 1,Ingenol-3-angelate) inhibited SubAB cytotoxicity. In addition,steroid-induced Bcl-xL expression was a key step in the inhibition of SubAB cytotoxicity. Bcl-xL knockdown increased SubAB-induced apoptosis in steroid-treated HeLa cells,whereas SubAB-induced cytotoxicity was suppressed in Bcl-xL overexpressing cells. In contrast,DAG analogues suppressed SubAB activity independent of Bcl-xL expression at early time points. Addition of Shiga toxin 2 (Stx2) with SubAB to cells enhanced cytotoxicity even in the presence of steroids. In contrast,DAG analogues suppressed cytotoxicity seen in the presence of both toxins. Here,we show the mechanism by which steroids and DAG analogues protect cells against SubAB toxin produced by LEE-negative STEC. View Publication

Neurogenin3 (NEUROG3) is required for endocrine lineage formation of the pancreas and intestine. Patients with NEUROG3 mutations are born with congenital malabsorptive diarrhea due to complete loss of enteroendocrine cells,whereas endocrine pancreas development varies in an allele-specific manner. These findings suggest a context-dependent requirement for NEUROG3 in pancreas versus intestine. We utilized human tissue differentiated from NEUROG3-/- pluripotent stem cells for functional analyses. Most disease-associated alleles had hypomorphic or null phenotype in both tissues,whereas the S171fsX68 mutation had reduced activity in the pancreas but largely null in the intestine. Biochemical studies revealed NEUROG3 variants have distinct molecular defects with altered protein stability,DNA binding,and gene transcription. Moreover,NEUROG3 was highly unstable in the intestinal epithelium,explaining the enhanced sensitivity of intestinal defects relative to the pancreas. These studies emphasize that studies of human mutations in the endogenous tissue context may be required to assess structure-function relationships. View Publication

Osteoporotic osteoarthritis (OPOA) is a common bone disease mostly in the elderly,but the relationship between Osteoporotic (OP) and osteoarthritis (OA) is complex. It has been shown that knee loading can mitigate OA symptoms. However,its effects on OPOA remain unclear. In this study,we characterized pathological linkage of OP to OA,and evaluated the effect of knee loading on OPOA. We employed two mouse models (OA and OPOA),and conducted histology,cytology,and molecular analyses. In the OA and OPOA groups,articular cartilage was degenerated and Osteoarthritis Research Society International score was increased. Subchondral bone underwent abnormal remodeling,the differentiation of bone marrow mesenchymal stem cells (BMSCs) to osteoblasts and chondrocytes was reduced,and migration and adhesion of pre-osteoclasts were enhanced. Compared to the OA group,the pathological changes of OA in the OPOA group were considerably aggravated. After knee loading,however,cartilage degradation was effectively prevented,and the abnormal remodeling of subchondral bone was significantly inhibited. The differentiation of BMSCs was also improved,and the expression of Wnt/$\beta$-catenin was elevated. Collectively,this study demonstrates that osteoporosis aggravates OA symptoms. Knee loading restores OPOA by regulating subchondral bone remodeling,and may provide an effective method for repairing OPOA. View Publication

INTRODUCTIONPolygenic risk score (PRS) identifies individuals at high genetic risk for Alzheimer's disease (AD),but its utility in predicting cognitive trajectories and AD pathologies remains unclear. We optimized PRS (optPRS) for AD,investigated its association with cognitive trajectories and AD phenotypes of cerebral organoids.METHODSUsing genome‐wide association study (GWAS) summary statistics from a European population,we developed optPRS to predict AD in Korean individuals (n = 1634). We analyzed the association between optPRS and cognitive trajectories (n = 771). We generated induced pluripotent stem cell–derived cerebral organoids from patients with high (n = 3) and low (n = 4) optPRS to evaluate amyloid beta (Aβ) and phosphorylated tau (p‐tau) levels.RESULTSOptPRS predicted AD dementia and Aβ positivity,independent of apolipoprotein E (APOE). Higher optPRSs correlated with rapid cognitive decline. Cerebral organoids from the high optPRS group exhibited increased Aβ insolubility and p‐tau levels.CONCLUSIONOptPRS predicted cognitive decline and AD phenotypes of cerebral organoids,supporting its use in risk assessments and drug‐screening platform. View Publication

Variants of phospholipase C gamma 2 (PLCG2),a key microglial immune signaling protein,are genetically linked to Alzheimer's disease (AD) risk. Understanding how PLCG2 variants alter microglial function is critical for identifying mechanisms that drive neurodegeneration or resiliency in AD. Induced pluripotent stem cell (iPSC) –derived microglia carrying the protective PLCG2 P522R or risk‐conferring PLCG2 M28L variants,or loss of PLCG2,were generated to ascertain the impact on microglial transcriptome and function. Protective PLCG2 P522R microglia showed significant transcriptomic similarity to isogenic controls. In contrast,risk‐conferring PLCG2 M28L microglia shared similarities with PLCG2 KO microglia,with functionally reduced TREM2 expression,blunted inflammatory responses,and increased proliferation and cell death. Uniquely,PLCG2 P522R microglia showed elevated cytokine secretion after lipopolysaccharide (LPS) stimulation and were protected from apoptosis. These findings demonstrate that PLCG2 variants drive distinct microglia transcriptomes that influence microglial functional responses that could contribute to AD risk and protection. Targeting PLCG2‐mediated signaling may represent a powerful therapeutic strategy to modulate neuroinflammation. The impact of Alzheimer's disease protective‐ and risk‐associated variants of phospholipase C gamma 2 (PLCG2) on the transcriptome and function of induced pluripotent stem cell (iPSC) –derived microglia was investigated. PLCG2 risk variant microglia exhibited a basal transcriptional profile similar to PLCG2‐deficient microglia but significantly different from isotype control and the transcriptionally similar PLCG2 protective variant microglia. PLCG2 risk variant and PLCG2‐deficient microglia show decreased levels of triggering receptor expressed on myeloid cells 2 (TREM2). The differential transcriptional pathways of protective and risk‐associated PLCG2 variant microglia functionally affect proliferation,apoptosis,and immune response. Protective PLCG2 microglia show resilience to apoptosis and increased cytokine/chemokine secretion upon exposure to lipopolysaccharide (LPS). View Publication

The CBFA2T3::GLIS2 (CG) fusion protein causes aggressive pediatric acute megakaryoblastic leukemia (AMKL). Although dysregulated molecular pathways in AMKL have been identified,their role in early pre-leukemic transformation remains poorly understood. We developed a disease model utilizing genetically modified human induced pluripotent stem cells (hiPSC) physiologically and conditionally expressing CG. Using in vitro differentiation and single-cell multi-omics,we captured the impact of oncogene activity on gene-regulatory networks during hematopoiesis. We discovered that CG interferes with myelopoiesis through two alternative routes: by locking aberrant megakaryocyte progenitors (aMKP) in a proliferative state,or by impeding differentiation of aberrant megakaryocytes (aMK). Transcriptionally and functionally,aMKPs mimic CG-AMKL cells and establish a self-renewal network with co-factors GATA2,ERG,and DLX3. In contrast,aMKs partially sustain regulators of MK maturation but fail to complete differentiation due to repression of factors like NFE2,SPI1,GATA1 and LYL1. These insights may inform new strategies for targeting AMKL cell states. Subject terms: Acute myeloid leukaemia,Cancer models View Publication

Disturbances within the cerebrovascular system substantially contribute to the pathogenesis of age-related cognitive impairment and Alzheimer’s disease (AD). Cerebral amyloid angiopathy (CAA) is characterized by the deposition of amyloid-β (Aβ) in the leptomeningeal and cortical arteries and is highly prevalent in AD,affecting over 90% of cases. While the ε4 allele of apolipoprotein E ( APOE ) represents the strongest genetic risk factor for AD,it is also associated with cerebrovascular dysregulations. APOE plays a crucial role in brain lipid transport,particularly in the trafficking of cholesterol and phospholipids. Lipid metabolism is increasingly recognized as a critical factor in AD pathogenesis. However,the precise mechanism by which APOE influences cerebrovascular lipid signatures in AD brains remains unclear. In this study,we conducted non-targeted lipidomics on cerebral vessels isolated from the middle temporal cortex of 89 postmortem human AD brains,representing varying degrees of CAA and different APOE genotypes: APOE ε2/ε3 (N = 9),APOE ε2/ε4 (N = 14),APOE ε3/ε3 (N = 21),APOE ε3/ε4 (N = 23),and APOE ε4/ε4 (N = 22). Lipidomics detected 10 major lipid classes with phosphatidylcholine (PC) and phosphatidylethanolamine (PE) being the most abundant lipid species. While we observed a positive association between age and total acyl-carnitine (CAR) levels (p = 0.0008),the levels of specific CAR subclasses were influenced by the APOE ε4 allele. Notably,APOE ε4 was associated with increased PE (p = 0.049) and decreased sphingomyelin (SM) levels (p = 0.028) in the cerebrovasculature. Furthermore,cerebrovascular Aβ40 and Aβ42 levels showed associations with sphingolipid levels including SM (p = 0.0079) and ceramide (CER) (p = 0.024). Weighted correlation network analysis revealed correlations between total tau and phosphorylated tau and lipid clusters enriched for PE plasmalogen and lysoglycerophospholipids. Taken together,our results suggest that cerebrovascular lipidomic profiles offer novel insights into the pathogenic mechanisms of AD,with specific lipid alterations potentially serving as biomarkers or therapeutic targets for AD. The online version contains supplementary material available at 10.1007/s00401-025-02949-5. View Publication

Biomolecular condensates are found throughout a diversity of eukaryotic cell types and cellular compartments,playing roles in various cellular functions. A given protein generally forms functionally and compositionally heterogeneous condensates,but the underlying regulatory mechanisms are unknown. Here,we found that different RNA motifs modulate the formation of heterogeneous mRNA-protein condensates via riboregulation. Fragile X-related 1 (FXR1),an RNA-binding protein interacting with nuclear pores,assembles distinct localized subcellular mRNP condensates linked to cytosolic accumulation of G-quadruplex-containing pluripotent mRNAs and the localized translation of nucleoporin mRNAs at nuclear pores. The diverse locations of FXR1 condensates depend on the unique RNA-protein interaction modules of its two RNA binding domains,and the opposing effects of different RNA motifs on the affinity of FXR1 for nuclear pores. Notably,reduced FXR1 levels and impaired nuclear pore function lead to the nuclear accumulation of transcribed RNAs,facilitating fate transition in human embryonic stem cells. Preventing this decline would result in impaired hESC differentiation. Subject terms: RNA metabolism,Embryonic stem cells,RNA,RNA transport View Publication

Prion diseases,such as sporadic Creutzfeldt-Jakob Disease (sCJD),are neurodegenerative disorders caused by misfolding of the prion protein (PrP). The D178N mutation in the PrP gene causes Fatal Familial Insomnia (FFI). Here we show that both sCJD and FFI prions can infect human cerebral organoids with or without the D178N mutation,and that the resulting infection is dictated by the inoculating prion and not the host organoid genotype. View Publication

IntroductionExposure to teratogenic compounds during pregnancy can lead to significant birth defects. Given the considerable variation in drug responses across species,along with the financial and ethical challenges associated with animal testing,the development of advanced human-based in vitro assays is imperative for effectively identifying potential human teratogens. Previously,we developed a human induced pluripotent stem cells (hiPSCs)-based biomarker assay,ReproTracker,that follows the differentiation of hiPSCs into hepatocytes and cardiomyocytes. The assay combines morphological profiling with the assessment of time-dependent expression patterns of cell-specific biomarkers to detect developmental toxicity responses.MethodsTo further increase the predictability of the assay in identifying potential teratogens,we added differentiation of hiPSCs towards neural rosette-like cells. We evaluated the performance of the extended assay with a set of 51 well-known in vivo teratogens and non-teratogens,including the compounds listed in the ICH S5 reference list.ResultsThe optimized assay correctly identified (neuro)developmental toxicants that were not detected in the hepatocyte and cardiomyocyte differentiation assays. These compounds selectively downregulated gene and protein expression of the neuroectodermal marker PAX6 and/or neural rosette marker NESTIN in a concentration-dependent manner and disrupted the differentiation of hiPSCs towards neural rosette-like cells. Overall,based on the current dataset,the addition of neural commitment improved the assay accuracy (from 72.55% to 86.27%) and sensitivity (from 67.50% to 87.50%),when compared to the previously described assay.DiscussionIn summary,trilineage differentiation expanded the spectrum of teratogenic agents detectable by ReproTracker,making the assay an invaluable tool for early in vitro teratogenicity screening. View Publication

BackgroundA growing body of evidence from primate embryos as well as in vitro systems supports the notion that amnion and primordial germ cell (PGC) lineage progressing cells share a common precursor.ResultsTo gain comprehensive transcriptomic insights into this critical but poorly understood precursor and its progeny,we examine the evolving transcriptome of a developing human pluripotent stem cell-derived model of amnion and PGC formation at the single cell level. This analysis reveals several continuous amniotic fate progressing states with state-specific markers. Additionally,a progenitor-like cell,that displays bi-potential characteristics for amnion and PGC-like cell lineages and is marked by CLDN10,is identified. Strikingly,we find that expression of CLDN10 is restricted to the amnion-epiblast boundary region in our human post-implantation amniotic sac model as well as in peri-gastrula cynomolgus macaque embryos; moreover,this boundary region presents amnion and PGC progenitor-like transcriptional characteristics. Furthermore,our loss of function analysis shows that CLDN10 promotes amniotic but suppresses PGC-like fate.ConclusionsOverall,based on the single cell transcriptomic resource in this study,we identify a CLDN10+ amnion and PGC progenitor-like population at the amnion-epiblast boundary of the primate peri-gastrula,and present additional molecular clues as to how amnion and PGC may be formed at the amnion-epiblast boundary in human peri-gastrula. Supplementary InformationThe online version contains supplementary material available at 10.1186/s13059-025-03751-y. View Publication