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1.
Immunity ; 54(11): 2632-2649.e6, 2021 11 09.
Artículo en Inglés | MEDLINE | ID: mdl-34715018

RESUMEN

The incidence and severity of sepsis is higher among individuals of African versus European ancestry. We found that genetic risk variants (RVs) in the trypanolytic factor apolipoprotein L1 (APOL1), present only in individuals of African ancestry, were associated with increased sepsis incidence and severity. Serum APOL1 levels correlated with sepsis and COVID-19 severity, and single-cell sequencing in human kidneys revealed high expression of APOL1 in endothelial cells. Analysis of mice with endothelial-specific expression of RV APOL1 and in vitro studies demonstrated that RV APOL1 interfered with mitophagy, leading to cytosolic release of mitochondrial DNA and activation of the inflammasome (NLRP3) and the cytosolic nucleotide sensing pathways (STING). Genetic deletion or pharmacological inhibition of NLRP3 and STING protected mice from RV APOL1-induced permeability defects and proinflammatory endothelial changes in sepsis. Our studies identify the inflammasome and STING pathways as potential targets to reduce APOL1-associated health disparities in sepsis and COVID-19.


Asunto(s)
Apolipoproteína L1/genética , Población Negra/genética , COVID-19/genética , Predisposición Genética a la Enfermedad/genética , Sepsis/genética , Animales , Apolipoproteína L1/sangre , Población Negra/estadística & datos numéricos , COVID-19/patología , ADN Mitocondrial/metabolismo , Células Endoteliales/metabolismo , Humanos , Inflamación/genética , Inflamación/patología , Proteínas de la Membrana/antagonistas & inhibidores , Proteínas de la Membrana/genética , Proteínas de la Membrana/metabolismo , Ratones , Ratones Noqueados , Mitofagia/genética , Proteína con Dominio Pirina 3 de la Familia NLR/antagonistas & inhibidores , Proteína con Dominio Pirina 3 de la Familia NLR/genética , Proteína con Dominio Pirina 3 de la Familia NLR/metabolismo , Factores de Riesgo , Sepsis/patología , Índice de Severidad de la Enfermedad , Población Blanca/genética , Población Blanca/estadística & datos numéricos
2.
Nucleic Acids Res ; 50(D1): D287-D294, 2022 01 07.
Artículo en Inglés | MEDLINE | ID: mdl-34403477

RESUMEN

RNA-binding proteins (RBPs) play key roles in post-transcriptional regulation. Accurate identification of RBP binding sites in multiple cell lines and tissue types from diverse species is a fundamental endeavor towards understanding the regulatory mechanisms of RBPs under both physiological and pathological conditions. Our POSTAR annotation processes make use of publicly available large-scale CLIP-seq datasets and external functional genomic annotations to generate a comprehensive map of RBP binding sites and their association with other regulatory events as well as functional variants. Here, we present POSTAR3, an updated database with improvements in data collection, annotation infrastructure, and analysis that support the annotation of post-transcriptional regulation in multiple species including: we made a comprehensive update on the CLIP-seq and Ribo-seq datasets which cover more biological conditions, technologies, and species; we added RNA secondary structure profiling for RBP binding sites; we provided miRNA-mediated degradation events validated by degradome-seq; we included RBP binding sites at circRNA junction regions; we expanded the annotation of RBP binding sites, particularly using updated genomic variants and mutations associated with diseases. POSTAR3 is freely available at http://postar.ncrnalab.org.


Asunto(s)
Bases de Datos Genéticas , MicroARNs/genética , Procesamiento Postranscripcional del ARN , ARN Circular/genética , Proteínas de Unión al ARN/genética , Programas Informáticos , Animales , Arabidopsis/genética , Arabidopsis/metabolismo , Sitios de Unión , Línea Celular , Conjuntos de Datos como Asunto , Humanos , Internet , MicroARNs/clasificación , MicroARNs/metabolismo , Anotación de Secuencia Molecular , Conformación de Ácido Nucleico , ARN Circular/clasificación , ARN Circular/metabolismo , Proteínas de Unión al ARN/clasificación , Proteínas de Unión al ARN/metabolismo , Análisis de Secuencia de ARN
3.
Mol Ther ; 30(7): 2491-2504, 2022 07 06.
Artículo en Inglés | MEDLINE | ID: mdl-35450819

RESUMEN

Coding variants (named G1 and G2) in Apolipoprotein L1 (APOL1) can explain most excess risk of kidney disease observed in African American individuals. It has been proposed that risk variant APOL1 dose, such as increased risk variant APOL1 level serves as a trigger (second hit) for disease development. The goal of this study was to determine whether lowering risk variant APOL1 levels protects from disease development in a podocyte-specific transgenic mouse disease model. We administered antisense oligonucleotides (ASO) targeting APOL1 to podocyte-specific G2APOL1 mice and observed efficient reduction of APOL1 levels. APOL1 ASO1, which more efficiently lowered APOL1 transcript levels, protected mice from albuminuria, glomerulosclerosis, tubulointerstitial fibrosis, and renal failure. Administration of APOL1 ASO1 was effective even for established disease in the NEFTA-rtTA/TRE-G2APOL1 (NEFTA/G2APOL1) mice. We observed a strong correlation between APOL1 transcript level and disease severity. We concluded that APOL1 ASO1 may be an effective therapeutic approach for APOL1-associated glomerular disease.


Asunto(s)
Enfermedades Renales , Podocitos , Insuficiencia Renal , Animales , Apolipoproteína L1/genética , Apolipoproteínas/genética , Variación Genética , Enfermedades Renales/genética , Enfermedades Renales/terapia , Ratones , Ratones Transgénicos , Oligonucleótidos Antisentido/genética
4.
Artículo en Inglés | MEDLINE | ID: mdl-37499852

RESUMEN

OBJECTIVE: To determine the effectiveness of non-pharmacologic interventions and the additional benefits of their combination in patients with heart failure with reduced ejection fraction (HFrEF). DATA SOURCES: We searched PubMed, Embase, and the Cochrane Clinical Trials Register from the date of database inception to April 22, 2023. STUDY SELECTION: Randomized controlled trials involving non-pharmacologic interventions conducted in patients with HFrEF were included. DATA EXTRACTION: Data were extracted by 2 independent reviewers based on a pre-tested data extraction form. The quality of evidence was assessed using the Cochrane Risk of Bias tool and the Grading of Recommendations Assessment, Development, and Evaluation method. DATA SYNTHESIS: A total of 82 eligible studies (4574 participants) were included. We performed a random-effects model within a Bayesian framework to calculate weighted mean differences (WMDs) and 95% credibility intervals. High or moderate certainty evidence indicated that high-intensity aerobic interval training (HIAIT) was best on improving 6-minute walk distance (6MWD; 68.55 m [36.41, 100.47]) and left ventricular ejection fraction (6.28% [3.88, 8.77]), while high-intensity aerobic continuous training (HIACT) is best on improving peak oxygen consumption (Peak VO2; 3.48 mL/kg•min [2.84, 4.12]), quality of life (QOL; -17.26 [-29.99, -7.80]), resting heart rate (-8.20 bpm [-13.32, -3.05]), and N-terminal pro-B-type natriuretic peptide (-600.96 pg/mL [-902.93, -404.52]). Moderate certainty evidence supported the effectiveness of inspiratory muscle training to improve peak oxygen consumption and functional electrical stimulation to improve QOL. Moderate-intensity aerobic continuous training (MIACT) plus moderate-intensity resistance training (MIRT) had additional benefits in Peak VO2, 6MWD, and QOL. This review did not provide a comprehensive evaluation of adverse events. CONCLUSIONS: Both HIAIT and HIACT are the most effective single non-pharmacologic interventions for HFrEF. MIACT plus MIRT had additional benefits in improving peak oxygen consumption, 6MWD, and QOL.

5.
J Am Soc Nephrol ; 32(6): 1279-1292, 2021 06 01.
Artículo en Inglés | MEDLINE | ID: mdl-33722930

RESUMEN

Over the last 5 years, single cell methods have enabled the monitoring of gene and protein expression, genetic, and epigenetic changes in thousands of individual cells in a single experiment. With the improved measurement and the decreasing cost of the reactions and sequencing, the size of these datasets is increasing rapidly. The critical bottleneck remains the analysis of the wealth of information generated by single cell experiments. In this review, we give a simplified overview of the analysis pipelines, as they are typically used in the field today. We aim to enable researchers starting out in single cell analysis to gain an overview of challenges and the most commonly used analytical tools. In addition, we hope to empower others to gain an understanding of how typical readouts from single cell datasets are presented in the published literature.


Asunto(s)
Análisis de Datos , Análisis de Secuencia de ARN , Análisis de la Célula Individual/métodos , Programas Informáticos , Visualización de Datos , Conjuntos de Datos como Asunto/normas , Perfilación de la Expresión Génica , Regulación de la Expresión Génica , Genómica , Humanos , Análisis de Componente Principal , Control de Calidad
6.
J Am Soc Nephrol ; 32(11): 2863-2876, 2021 11.
Artículo en Inglés | MEDLINE | ID: mdl-34348909

RESUMEN

BACKGROUND: Patients with diabetic or hypertensive kidney disease rarely undergo kidney biopsy because nephrologists commonly believe that biopsy-related risk outweighs the potential benefits of obtaining histologic information to guide clinical decisions. Although kidney function is acutely regulated, histologic changes such as interstitial fibrosis, tubular atrophy, and glomerulosclerosis may represent chronic kidney damage, and thus might provide additional information about disease severity. However, whether histologic analysis provides information complementary to clinically used kidney function measurements, such as eGFR and proteinuria, is unclear. METHODS: We performed a standardized semiquantitative histologic analysis of 859 nephrectomies obtained from individuals with or without diabetes mellitus or hypertension and varying degrees of kidney dysfunction. Changes in glomeruli, tubules, interstitium, and the vasculature were scored using 17 descriptive parameters in a standardized manner. We used multivariable linear and logistic regression analyses and unbiased, hierarchical clustering to assess associations between histologic alterations and clinical variables. RESULTS: At CKD stages 3-5, eGFR correlates reasonably well with the degree of glomerulosclerosis and interstitial fibrosis and tubular atrophy (IFTA). In patients with CKD stages 1-2, the degree of histologic damage was highly variable and eGFR poorly estimated the degree of damage. Individuals with diabetes mellitus, hypertension, or Black race had significantly more glomerulosclerosis and IFTA, at the same eGFR level. Inclusion of glomerulosclerosis improved the kidney function decline estimation, even at early disease stages. CONCLUSIONS: Histologic analysis is an important complementary method for kidney disease evaluation, especially at early disease stages. Some individuals present with relatively severe structural damage despite preserved eGFR.


Asunto(s)
Nefropatías Diabéticas/patología , Tasa de Filtración Glomerular , Hipertensión/patología , Riñón/patología , Anciano , Atrofia , Biopsia , Población Negra , Nefropatías Diabéticas/fisiopatología , Femenino , Fibrosis , Humanos , Hipertensión/fisiopatología , Riñón/fisiopatología , Pruebas de Función Renal , Masculino , Persona de Mediana Edad , Proteinuria/patología , Proteinuria/fisiopatología
7.
J Am Soc Nephrol ; 32(3): 614-627, 2021 03.
Artículo en Inglés | MEDLINE | ID: mdl-33531352

RESUMEN

BACKGROUND: Microscopic analysis of urine sediment is probably the most commonly used diagnostic procedure in nephrology. The urinary cells, however, have not yet undergone careful unbiased characterization. METHODS: Single-cell transcriptomic analysis was performed on 17 urine samples obtained from five subjects at two different occasions, using both spot and 24-hour urine collection. A pooled urine sample from multiple healthy individuals served as a reference control. In total 23,082 cells were analyzed. Urinary cells were compared with human kidney and human bladder datasets to understand similarities and differences among the observed cell types. RESULTS: Almost all kidney cell types can be identified in urine, such as podocyte, proximal tubule, loop of Henle, and collecting duct, in addition to macrophages, lymphocytes, and bladder cells. The urinary cell-type composition was subject specific and reasonably stable using different collection methods and over time. Urinary cells clustered with kidney and bladder cells, such as urinary podocytes with kidney podocytes, and principal cells of the kidney and urine, indicating their similarities in gene expression. CONCLUSIONS: A reference dataset for cells in human urine was generated. Single-cell transcriptomics enables detection and quantification of almost all types of cells in the kidney and urinary tract.


Asunto(s)
Riñón/citología , Anciano , Código de Barras del ADN Taxonómico , Femenino , Biblioteca de Genes , Humanos , Riñón/metabolismo , Enfermedades Renales/genética , Enfermedades Renales/patología , Enfermedades Renales/orina , Masculino , Persona de Mediana Edad , Podocitos/citología , Podocitos/metabolismo , RNA-Seq , Análisis de la Célula Individual/métodos , Análisis de la Célula Individual/estadística & datos numéricos , Transcriptoma , Vejiga Urinaria/citología , Vejiga Urinaria/metabolismo , Orina/citología
8.
J Am Soc Nephrol ; 31(4): 765-782, 2020 04.
Artículo en Inglés | MEDLINE | ID: mdl-32127410

RESUMEN

BACKGROUND: Cytosine methylation is an epigenetic mark that dictates cell fate and response to stimuli. The timing and establishment of methylation logic during kidney development remains unknown. DNA methyltransferase 3a and 3b are the enzymes capable of establishing de novo methylation. METHODS: We generated mice with genetic deletion of Dnmt3a and Dnmt3b in nephron progenitor cells (Six2CreDnmt3a/3b) and kidney tubule cells (KspCreDnmt3a/3b). We characterized KspCreDnmt3a/3b mice at baseline and after injury. Unbiased omics profiling, such as whole genome bisulfite sequencing, reduced representation bisulfite sequencing and RNA sequencing were performed on whole-kidney samples and isolated renal tubule cells. RESULTS: KspCreDnmt3a/3b mice showed no obvious morphologic and functional alterations at baseline. Knockout animals exhibited increased resistance to cisplatin-induced kidney injury, but not to folic acid-induced fibrosis. Whole-genome bisulfite sequencing indicated that Dnmt3a and Dnmt3b play an important role in methylation of gene regulatory regions that act as fetal-specific enhancers in the developing kidney but are decommissioned in the mature kidney. Loss of Dnmt3a and Dnmt3b resulted in failure to silence developmental genes. We also found that fetal-enhancer regions methylated by Dnmt3a and Dnmt3b were enriched for kidney disease genetic risk loci. Methylation patterns of kidneys from patients with CKD showed defects similar to those in mice with Dnmt3a and Dnmt3b deletion. CONCLUSIONS: Our results indicate a potential locus-specific convergence of genetic, epigenetic, and developmental elements in kidney disease development.


Asunto(s)
ADN (Citosina-5-)-Metiltransferasas/fisiología , Enfermedades Renales/etiología , Riñón/embriología , Animales , Metilación de ADN , ADN Metiltransferasa 3A , Masculino , Ratones , Ratones Noqueados , Células Madre , ADN Metiltransferasa 3B
9.
Postepy Dermatol Alergol ; 38(6): 1058-1064, 2021 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-35126015

RESUMEN

INTRODUCTION: Allergic contact dermatitis (ACD) constitutes a considerable part of allergic morbidity among the population, although its actual prevalence is unknown as it is often not properly diagnosed. AIM: To determine the incidence of ACD compared to other allergic dermatoses in patients from the Russian Federation and the People's Republic of China, as well as analyse immunological parameters of ACD. MATERIAL AND METHODS: The study enrolled a total of 248 patients aged 17-63 years divided into two groups representing the population of the Russian Federation (122 patients) and the People's Republic of China (126 patients). The total male and female ratio in both groups was 183 (74%) to 58 (26%). RESULTS: The frequency of ACD incidence among other allergic dermatoses in the group of patients from the Russian Federation was 26.2%, while that in the group of patients representing the population of the PRC amounted to 22.2%. In the group of patients from the Russian Federation, positive reactions to allergens were most often observed for thiomersal (29.8%), nickel sulfate (25.2%), and a mixture of carbamates (20.7%), and in the group of patients from China, for nickel sulfate (30.7%), thiomersal (26.4%), and a mixture of carbamates (23.8%). CONCLUSIONS: The incidence rate of ACD among patients with allergic dermatoses is about a quarter of cases in groups from both regions. The increased expression of defensin and IFN-γ genes can be considered as a marker of inflammation.

10.
bioRxiv ; 2024 Jul 06.
Artículo en Inglés | MEDLINE | ID: mdl-39005270

RESUMEN

Human-mouse chimeric brain models, generated by transplanting human induced pluripotent stem cell (hiPSC)-derived neural cells, are valuable for studying the development and function of human neural cells in vivo. Understanding glial-glial and glial-neuronal interactions is essential for unraveling the complexities of brain function and developing treatments for neurological disorders. To explore these interactions between human neural cells within an intact brain environment, we employe a co-transplantation strategy involving the engraftment of hiPSC-derived neural progenitor cells along with primitive macrophage progenitors into the neonatal mouse brain. This approach creates human-mouse chimeric brains containing human microglia, macroglia (astroglia and oligodendroglia), and neurons. Using super-resolution imaging and 3D reconstruction techniques, we examine the dynamics between human neurons and glia, unveiling human microglia engulfing immature human neurons, microglia pruning synapses of human neurons, and significant interactions between human oligodendrocytes and neurons. Single-cell RNA sequencing analysis of the chimeric brain uncovers a close recapitulation of the human glial progenitor cell population, along with a dynamic stage in astroglial development that mirrors the processes found in the human brain. Furthermore, cell-cell communication analysis highlights significant neuronal-glial and glial-glial interactions, especially the interaction between adhesion molecules neurexins and neuroligins. This innovative co-transplantation model opens up new avenues for exploring the complex pathophysiological mechanisms underlying human neurological diseases. It holds particular promise for studying disorders where glial-neuronal interactions and non-cell-autonomous effects play crucial roles.

11.
Front Pharmacol ; 15: 1356639, 2024.
Artículo en Inglés | MEDLINE | ID: mdl-38500763

RESUMEN

Amphiphilic functional polycaprolactone (PCL) diblock copolymers are excellent candidates for micellar drug delivery. The functional groups on the backbone significantly affect the properties of PCL. A systematic investigation of the effect of aromatic substituents on the self-assembly of γ-functionalized PCLs and the delivery of doxorubicin (DOX) is presented in this work. Three thermoresponsive amphiphilic diblock copolymers with poly(γ-benzyloxy-ε-caprolactone) (PBnCL), poly(γ-phenyl- ε-caprolactone) (PPhCL), poly(γ-(4-ethoxyphenyl)-ε-caprolactone) (PEtOPhCL), respectively, as hydrophobic block and γ-tri(ethylene glycol) functionalized PCL (PME3CL) as hydrophilic block were prepared through ring-opening polymerization (ROP). The thermoresponsivity, thermodynamic stability, micelle size, morphology, DOX-loading, and release profile were determined. The LCST values of amphiphilic diblock copolymers PME3CL-b-PBnCL, PME3CL-b-PPhCL, and PME3CL-b-PEtOPhCL are 74.2°C, 43.3°C, and 37.3°C, respectively. All three copolymers formed spherical micelles in phosphate-buffered saline (PBS, 1×, pH = 7.4) at low concentrations ranging from 8.7 × 10-4 g/L to 8.9 × 10-4 g/L. PME3CL-b-PBnCL micelles showed the highest DOX loading capacity of 3.01 ± 0.18 (wt%) and the lowest drug release, while PME3CL-b-PEtOPhCL micelles exhibited the lowest DOX loading capacity of 1.95 ± 0.05 (wt%) and the highest drug release. Cytotoxicity and cellular uptake of all three micelles were assessed in vitro using MDA-MB-231 breast cancer cells. All three empty micelles did not show significant toxicity to the cells at concentrations high up to 0.5 mg/mL. All three DOX-loaded micelles were uptaken into the cells, and DOX was internalized into the nucleus of the cells.

12.
bioRxiv ; 2024 Mar 14.
Artículo en Inglés | MEDLINE | ID: mdl-38559257

RESUMEN

While challenging, identifying individuals displaying resilience to Alzheimer's disease (AD) and understanding the underlying mechanism holds great promise for the development of new therapeutic interventions to effectively treat AD. Down syndrome (DS), or trisomy 21, is the most common genetic cause of AD. Interestingly, some people with DS, despite developing AD neuropathology, show resilience to cognitive decline. Furthermore, DS individuals are at an increased risk of myeloid leukemia due to somatic mutations in hematopoietic cells. Recent studies indicate that somatic mutations in hematopoietic cells may lead to resilience to neurodegeneration. Microglia, derived from hematopoietic lineages, play a central role in AD etiology. We therefore hypothesize that microglia carrying the somatic mutations associated with DS myeloid leukemia may impart resilience to AD. Using CRISPR-Cas9 gene editing, we introduce a trisomy 21-linked hotspot CSF2RB A455D mutation into human pluripotent stem cell (hPSC) lines derived from both DS and healthy individuals. Employing hPSC-based in vitro microglia culture and in vivo human microglia chimeric mouse brain models, we show that in response to pathological tau, the CSF2RB A455D mutation suppresses microglial type-1 interferon signaling, independent of trisomy 21 genetic background. This mutation reduces neuroinflammation and enhances phagocytic and autophagic functions, thereby ameliorating senescent and dystrophic phenotypes in human microglia. Moreover, the CSF2RB A455D mutation promotes the development of a unique microglia subcluster with tissue repair properties. Importantly, human microglia carrying CSF2RB A455D provide protection to neuronal function, such as neurogenesis and synaptic plasticity in chimeric mouse brains where human microglia largely repopulate the hippocampus. When co-transplanted into the same mouse brains, human microglia with CSF2RB A455D mutation phagocytize and replace human microglia carrying the wildtype CSF2RB gene following pathological tau treatment. Our findings suggest that hPSC-derived CSF2RB A455D microglia could be employed to develop effective microglial replacement therapy for AD and other age-related neurodegenerative diseases, even without the need to deplete endogenous diseased microglia prior to cell transplantation.

13.
J Clin Invest ; 134(1)2024 Jan 02.
Artículo en Inglés | MEDLINE | ID: mdl-37906287

RESUMEN

Mineralocorticoid excess commonly leads to hypertension (HTN) and kidney disease. In our study, we used single-cell expression and chromatin accessibility tools to characterize the mineralocorticoid target genes and cell types. We demonstrated that mineralocorticoid effects were established through open chromatin and target gene expression, primarily in principal and connecting tubule cells and, to a lesser extent, in segments of the distal convoluted tubule cells. We examined the kidney-protective effects of steroidal and nonsteroidal mineralocorticoid antagonists (MRAs), as well as of amiloride, an epithelial sodium channel inhibitor, in a rat model of deoxycorticosterone acetate, unilateral nephrectomy, and high-salt consumption-induced HTN and cardiorenal damage. All antihypertensive therapies protected against cardiorenal damage. However, finerenone was particularly effective in reducing albuminuria and improving gene expression changes in podocytes and proximal tubule cells, even with an equivalent reduction in blood pressure. We noted a strong correlation between the accumulation of injured/profibrotic tubule cells expressing secreted posphoprotein 1 (Spp1), Il34, and platelet-derived growth factor subunit b (Pdgfb) and the degree of fibrosis in rat kidneys. This gene signature also showed a potential for classifying human kidney samples. Our multiomics approach provides fresh insights into the possible mechanisms underlying HTN-associated kidney disease, the target cell types, the protective effects of steroidal and nonsteroidal MRAs, and amiloride.


Asunto(s)
Hipertensión , Enfermedades Renales , Ratas , Humanos , Animales , Antagonistas de Receptores de Mineralocorticoides/farmacología , Cromatina/genética , Amilorida/farmacología , Mineralocorticoides/farmacología , Riñón , Enfermedades Renales/genética , Perfilación de la Expresión Génica
14.
Res Sq ; 2024 Feb 23.
Artículo en Inglés | MEDLINE | ID: mdl-38464127

RESUMEN

Designing proteins with improved functions requires a deep understanding of how sequence and function are related, a vast space that is hard to explore. The ability to efficiently compress this space by identifying functionally important features is extremely valuable. Here, we first establish a method called EvoScan to comprehensively segment and scan the high-fitness sequence space to obtain anchor points that capture its essential features, especially in high dimensions. Our approach is compatible with any biomolecular function that can be coupled to a transcriptional output. We then develop deep learning and large language models to accurately reconstruct the space from these anchors, allowing computational prediction of novel, highly fit sequences without prior homology-derived or structural information. We apply this hybrid experimental-computational method, which we call EvoAI, to a repressor protein and find that only 82 anchors are sufficient to compress the high-fitness sequence space with a compression ratio of 1048. The extreme compressibility of the space informs both applied biomolecular design and understanding of natural evolution.

15.
Nat Genet ; 2024 Jul 24.
Artículo en Inglés | MEDLINE | ID: mdl-39048792

RESUMEN

Kidneys are intricate three-dimensional structures in the body, yet the spatial and molecular principles of kidney health and disease remain inadequately understood. We generated high-quality datasets for 81 samples, including single-cell, single-nuclear, spot-level (Visium) and single-cell resolution (CosMx) spatial-RNA expression and single-nuclear open chromatin, capturing cells from healthy, diabetic and hypertensive diseased human kidneys. Combining these data, we identify cell types and map them to their locations within the tissue. Unbiased deconvolution of the spatial data identifies the following four distinct microenvironments: glomerular, immune, tubule and fibrotic. We describe the complex organization of microenvironments in health and disease and find that the fibrotic microenvironment is able to molecularly classify human kidneys and offers an improved prognosis compared to traditional histopathology. We provide a comprehensive spatially resolved molecular roadmap of the human kidney and the fibrotic process, demonstrating the clinical utility of spatial transcriptomics.

16.
J Orthop Surg Res ; 18(1): 500, 2023 Jul 15.
Artículo en Inglés | MEDLINE | ID: mdl-37454090

RESUMEN

BACKGROUND: The function of mesenchymal stem cells (MSCs) from patients with osteoporosis (OP) is impaired and worsens in patients with type 2 diabetes mellitus (T2DM). Icariin (ICA) is the major active flavonoid glucoside isolated from traditional Chinese herbal Epimedium pubescens, and confirmed able to improve bone mass of OP patients. OBJECTIVE: To investigate the effect of ICA on the proliferation and osteogenic differentiation of bone-derived MSCs (BMSCs) from patients with OP and T2DM and uncover the potential mechanism. METHODS: BMSCs were treated with ICA, and proliferation and osteogenic potency were evaluated using the 2,5-diphenyl-2H-tetrazolium bromide (MTT) assay and detection of osteogenic markers (ALP, RUNX2, SPP1, COL1A1, and mineralized nodules) was performed. RNA sequencing and bioinformatic analysis were performed to identify differentially expressed genes (DEGs) after ICA treatment and screen proliferation- and osteogenic differentiation-related processes. Gene gain and loss were performed to confirm the role of the key candidate gene. RESULTS: ICA significantly promoted the proliferation and osteogenic differentiation of BMSCs. A total of 173 DEGs were identified after ICA treatment. Six DEGs (GLI-1, IGF2, BMP6, WNT5A, PTHLH, and MAPK14) enriched in both proliferation- and osteogenic differentiation-related processes were screened; GLI-1 had the highest validated |log2FC| value. Overexpression of GLI-1 enhanced the proliferation and osteogenic differentiation of BMSCs, and knockdown of GLI-1 weakened the positive effect of ICA on BMSCs. CONCLUSION: ICA promoted the proliferation and osteogenic differentiation of impaired BMSCs by upregulating GLI-1.


Asunto(s)
Diabetes Mellitus Tipo 2 , Células Madre Mesenquimatosas , Osteoporosis , Humanos , Osteogénesis/genética , Diferenciación Celular , Osteoporosis/tratamiento farmacológico , Osteoporosis/genética , Proliferación Celular/genética , Células Cultivadas
17.
ACS Appl Mater Interfaces ; 15(39): 46119-46129, 2023 Oct 04.
Artículo en Inglés | MEDLINE | ID: mdl-37738113

RESUMEN

A group of chalcogenopheno[3,2-b]pyrroles, including thieno[3,2-b]pyrrole (TP), furo[3,2-b]pyrrole (FP), and selenopheno[3,2-b]pyrrole (SeP), and thieno[3,2-b]thiophene (TT) electron-donating units were coupled with a thiophene-flanked diketopyrrolo[3,4-c]pyrrole (ThDPP) acceptor to generate four donor-acceptor-donor (D-A-D) semiconducting small molecules (ThDPP-TT, ThDPP-FP, ThDPP-TP, and ThDPP-SeP). This study systematically investigated the differences between chalcogenopheno[3,2-b]pyrroles and TT. From the characterizations, chalcogenopheno[3,2-b]pyrrole-containing molecules showed lower band gaps and binding-energy cold crystallization behavior. The enthalpies of cold crystallization were correlated with the weight of the chalcogen in ThDPP-FP, ThDPP-TP, and ThDPP-SeP, which were evaluated as intermolecular chalcogen-bond interactions between chalcogen and pyrrole nitrogen in chalcogenopheno[3,2-b]pyrroles. A stronger chalcogen bond interaction resulted in stronger self-aggregation in thin films with thermal treatment, which resulted in a polycrystalline structure in chalcogenopheno[3,2-b]pyrrole-containing molecules. For the application in an organic field-effect transistor, all four molecules showed good performance with the highest hole mobilities as 6.33 × 10-3 cm2 V-1 s-1 for ThDPP-TT, 2.08 × 10-2 cm2 V-1 s-1 for ThDPP-FP, 1.87 × 10-2 cm2 V-1 s-1 for ThDPP-TP, and 6.32 × 10-3 cm2 V-1 s-1 for ThDPP-SeP, and the change of mobility is well correlated to the root-mean-square roughness of the thin films. Overall, all the chalcogenopheno[3,2-b]pyrrole-containing molecules showed lower band gaps, polymorphism, and better charge transport properties compared to TT-containing molecules, which motivates replacing TT with chalcogenopheno[3,2-b]pyrroles in conjugated polymers, non-fullerene small molecular acceptors, and narrow-band-gap donors.

18.
PLoS One ; 18(6): e0287423, 2023.
Artículo en Inglés | MEDLINE | ID: mdl-37352292

RESUMEN

The primary cause of hazy weather is PM2.5, and forecasting PM2.5 concentrations can aid in managing and preventing hazy weather. This paper proposes a novel spatiotemporal prediction model called SpatioTemporal-Informer (ST-Informer) in response to the shortcomings of spatiotemporal prediction models commonly used in studies for long-input series prediction. The ST-Informer model implements parallel computation of long correlations and adds an independent spatiotemporal embedding layer to the original Informer model. The spatiotemporal embedding layer captures the complex dynamic spatiotemporal correlations among the input information. In addition, the ProbSpare Self-Attention mechanism in this model can focus on extracting important contextual information of spatiotemporal data. The ST-Informer model uses weather and air pollutant concentration data from numerous stations as its input data. The outcomes of the trials indicate that (1) The ST-Informer model can sharply capture the peaks and sudden changes in PM2.5 concentrations. (2) Compared to the current models, the ST-Informer model shows better prediction performance while maintaining high-efficiency prediction [Formula: see text]. (3) The ST-Informer model has universal applicability, and the model was applied to the concentration of other pollutants prediction with good results.


Asunto(s)
Contaminantes Atmosféricos , Contaminación del Aire , Material Particulado/análisis , Contaminación del Aire/análisis , Modelos Teóricos , Monitoreo del Ambiente/métodos , Contaminantes Atmosféricos/análisis
19.
Front Endocrinol (Lausanne) ; 13: 858422, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-35909564

RESUMEN

Pancreatic resident macrophages, a heterogeneous family of cells with distinct origins and phenotypes, are the main myeloid cells in exocrine and endocrine tissues. Adult exocrine F4/80hi macrophages consist of three different subsets based on the embryonic marker Tim-4 and MHC II expression. Their frequencies shift during aging and obesity with the Tim-4-MHCII+ fraction becoming the predominant subpopulation in the inter acinar stroma. Endocrine resident F4/80hi macrophages are more homogenous and represent the prevalent leukocyte fraction residing within the islets in both lean and obese mice. We used an adult fate mapping mouse model to characterize turnover kinetics within the pancreatic resident macrophages under normal homeostasis and obese diabetic conditions. We demonstrate that islet resident macrophages show unique replenishment kinetics, with embryonic macrophages being gradually replaced by bone marrow-derived monocytes with increasing age. Their replenishment was independent of the CCL2/CCR2 axis. Furthermore, we confirmed that both exocrine Tim-4+MHCIIlow and Tim-4+MHCII+ fractions are long-lived and primarily independent from bone marrow-derived monocytes. In contrast, exocrine Tim-4-MHCII+ macrophages are gradually replaced through a CCR2-dependent influx of bone marrow-derived monocytes in aging. Moreover, we show that obesity and type 2 diabetes do not affect the turnover kinetics of any macrophage subpopulation residing in the pancreas. Our study uncovers new insights on pancreatic macrophage biology in aging and obesity.


Asunto(s)
Diabetes Mellitus Experimental , Diabetes Mellitus Tipo 2 , Animales , Diabetes Mellitus Experimental/metabolismo , Diabetes Mellitus Tipo 2/metabolismo , Macrófagos/metabolismo , Ratones , Ratones Obesos , Obesidad/metabolismo , Páncreas
20.
J Cosmet Dermatol ; 21(4): 1533-1538, 2022 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-34143573

RESUMEN

BACKGROUND: Acne vulgaris (AV) is a chronic inflammatory disorder of the pilosebaceous unit that affects over 80% of adolescents and young adults. This study aimed to compare the therapeutic efficacy and tolerability of an isotretinoin treatment course with GDP-20 (granulysin-derived peptides) versus the conventional isotretinoin monotherapy prescribed to patients with mild-to-moderate acne. METHODS: Our study included 60 Russian subjects affected with AV of mild-to-moderate severity divided into two therapeutic groups. Half of the patients were female; mean age was 19.5 ± 5.6 years. Group 1 was treated with topical GDP-20 twice daily to the affected skin of the face combined with systemic isotretinoin in a fixed low dose of 0.3 mg/kg/day. Group 2 was treated with systemic isotretinoin as a monotherapy. RESULTS: The assessment of the changes of AV lesion count on the 12th week of the treatment showed that in Group 1, the mean value of open comedo number reduced from 21.4 ± 6.1 at day 0 to 4.4 ± 2.5 (p < 0.05), the mean number of closed comedo reduced from 7.6 ± 3.5 to 2.4 ± 1.05 (p < 0.05), and those of papules-pustules reduced from 6.1 ± 1.03 to 1.4 ± 0.2 (p < 0.05). CONCLUSIONS: Topical antimicrobial peptides (GDP-20) combined with low doses of systemic isotretinoin mild-to-moderate resulted in considerable improvement of clinical manifestations of mild-to-moderate AV and threefold reduction in the disease severity with IGA score 0-1 after 12 weeks. Topical application of GDP-20 antimicrobial peptides can improve the efficacy of low-dose systemic isotretinoin in combined treatment of mild-to-moderate AV.


Asunto(s)
Acné Vulgar , Péptidos Antimicrobianos , Acné Vulgar/tratamiento farmacológico , Acné Vulgar/patología , Adolescente , Adulto , Femenino , Humanos , Isotretinoína , Piel/patología , Resultado del Tratamiento , Adulto Joven
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