4.7 Article

Single-Nuclei RNA-Sequencing of the Gastrocnemius Muscle in Peripheral Artery Disease

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

Innately expressed estrogen-related receptors in the skeletal muscle are indispensable for exercise fitness

Danesh H. Sopariwala et al.

Summary: In this study, the role of nuclear receptor ERR alpha/gamma in regulating skeletal muscle composition, contractility, and exercise capacity was elucidated. The deletion of ERR alpha/gamma led to decreased expression of genes associated with mitochondrial and oxidative metabolism, resulting in impaired mitochondrial function, angiogenesis, and exercise capacity.

FASEB JOURNAL (2023)

Article Biology

MME+ fibro-adipogenic progenitors are the dominant adipogenic population during fatty infiltration in human skeletal muscle

Gillian Fitzgerald et al.

Summary: In this study, the heterogeneity of FAP cells in patients with fatty infiltration was characterized using single-nuclei and single-cell RNA sequencing. An MME+ FAP subpopulation with high adipogenic potential was identified, which showed resistance to WNT activators. It was also found that many MME+ FAP cells undergo apoptosis during muscle regeneration and differentiate into adipocytes under pathological conditions.

COMMUNICATIONS BIOLOGY (2023)

Article Cardiac & Cardiovascular Systems

Transcriptomic and Proteomic of Gastrocnemius Muscle in Peripheral Artery Disease

Luigi Ferrucci et al.

Summary: Transcriptomic and proteomic analyses revealed activation of hypoxia-compensatory mechanisms, inflammation, fibrosis, apoptosis, angiogenesis, unfolded protein response, and nerve and muscle repair in peripheral artery disease (PAD) muscle. Aberrant proportions of mitochondrial respiratory proteins and reduced activity of rate-limiting glycolytic enzymes were also observed. These mechanisms may serve as potential targets for disease modification.

CIRCULATION RESEARCH (2023)

Article Biochemical Research Methods

scFates: a scalable python package for advanced pseudotime and bifurcation analysis from single-cell data

Louis Faure et al.

Summary: scFates is an extensive toolset for analyzing dynamic trajectories, including tree learning, feature association testing, branch differential expression, with a focus on cell biasing and fate splits at the level of bifurcations. It is designed to be fully integrated into the scanpy ecosystem for seamless analysis of trajectories from single-cell data of various modalities (e.g., RNA and ATAC).

BIOINFORMATICS (2023)

Article Oncology

Interventional- and amputation-stage muscle proteomes in the chronically threatened ischemic limb

Terence E. Ryan et al.

Summary: This study found that in CLTI patients, mitochondria were predominantly downregulated, indicating significant functional impairment, while extracellular matrix proteins were upregulated. Pre-intervention CLTI muscles showed upregulation of mitochondrial proteins but modest functional impairments in fatty acid oxidation compared to controls.

CLINICAL AND TRANSLATIONAL MEDICINE (2022)

Article Cardiac & Cardiovascular Systems

Impaired microcirculatory function, mitochondrial respiration, and oxygen utilization in skeletal muscle of claudicating patients with peripheral artery disease

Song-Young Park et al.

Summary: This study found that patients with PAD have impaired skeletal muscle arteriole endothelial function and mitochondrial respiration. The oxygen delivery and utilization capacity in the skeletal muscle are compromised due to microcirculatory and mitochondrial dysfunction. Targeting skeletal muscle arteriole function may lead to improvements in mitochondrial respiration and oxygen delivery and utilization capacity in patients with PAD.

AMERICAN JOURNAL OF PHYSIOLOGY-HEART AND CIRCULATORY PHYSIOLOGY (2022)

Article Biophysics

Muscle forces and power are significantly reduced during walking in patients with peripheral artery disease

Hafizur Rahman et al.

Summary: Patients with PAD show altered lower extremity muscle functions during walking, especially during the propulsion phase. This study used simulations to analyze the muscle responses of PAD patients during walking and identified changes in muscle force and power associated with PAD.

JOURNAL OF BIOMECHANICS (2022)

Article Medicine, General & Internal

Surgery or Endovascular Therapy for Chronic Limb-Threatening Ischemia

Alik Farber et al.

Summary: In patients with chronic limb-threatening ischemia (CLTI), it is uncertain whether endovascular therapy or surgical revascularization is superior for improving limb outcomes. This international trial enrolled 1830 patients with CLTI and peripheral artery disease, and found that surgical revascularization was more effective than endovascular therapy in reducing major adverse limb events or death in patients with an adequate great saphenous vein for surgery.

NEW ENGLAND JOURNAL OF MEDICINE (2022)

Article Cardiac & Cardiovascular Systems

Dysregulated Genes, MicroRNAs, Biological Pathways, and Gastrocnemius Muscle Fiber Types Associated With Progression of Peripheral Artery Disease: A Preliminary Analysis

Sunil K. Saini et al.

Summary: This study investigated the differential gene and microRNA expression associated with peripheral artery disease (PAD) progression in the gastrocnemius muscle. The results showed that individuals with PAD progression exhibited greater differences in gene and miRNA expression, as well as biological pathways, compared to those without PAD. These findings may have potential implications for the diagnosis and monitoring of PAD.

JOURNAL OF THE AMERICAN HEART ASSOCIATION (2022)

Article Geriatrics & Gerontology

Pyruvate dehydrogenase kinase 4 promotes ubiquitin-proteasome system-dependent muscle atrophy

Ibotombi Singh Sinam et al.

Summary: This study reveals that PDK4 mediates dexamethasone-induced muscle atrophy by phosphorylating and degrading myogenin. The findings suggest that PDK4 may be a potential therapeutic target for muscle wasting.

JOURNAL OF CACHEXIA SARCOPENIA AND MUSCLE (2022)

Article Biology

Single-cell sequencing deconvolutes cellular responses to exercise in human skeletal muscle

Alen Lovric et al.

Summary: This study used single-cell sequencing to investigate the effects of exercise on cellular composition and specific cell type processes in skeletal muscle. The results showed that exercise accelerated the maturation of myogenic cells and induced a transcriptional response in various cell populations. These findings contribute to the understanding of skeletal muscle adaptations to exercise and their potential implications for physiological and pathological processes affecting skeletal muscle.

COMMUNICATIONS BIOLOGY (2022)

Article Cell Biology

Transcription factor Foxp1 stimulates angiogenesis in adult rats after myocardial infarction

Dinghui Wang et al.

Summary: This study investigates the angiogenic role of Forkhead box protein P1 (FoxP1) in a rat model of myocardial infarction (MI). The results show that FoxP1 promotes angiogenesis in the post-MI heart by promoting endothelial cell proliferation, suggesting it as a potential target for therapeutic cardiac angiogenesis.

CELL DEATH DISCOVERY (2022)

Article Cardiac & Cardiovascular Systems

CARMN Is an Evolutionarily Conserved Smooth Muscle Cell-Specific LncRNA That Maintains Contractile Phenotype by Binding Myocardin

Kunzhe Dong et al.

Summary: CARMN is a highly conserved SMC-specific long noncoding RNA that plays a crucial role in maintaining the contractile phenotype of VSMCs, and it is the first noncoding RNA discovered to interact with myocardin.

CIRCULATION (2021)

Article Cell Biology

FOS licenses early events in stem cell activation driving skeletal muscle regeneration

Albert E. Almada et al.

Summary: This study identified a prominent Fos mRNA and protein signature in recently activated muscle satellite cells (SCs) that is induced rapidly, heterogeneously, and transiently by muscle damage. The research further revealed the essential role of FOS in initiating key stem cell functions, including cell cycle entry, proliferative expansion, and muscle regeneration, through induction of pro-regenerative genes. Disruption of one of these Fos/AP-1 targets, Art1, delayed cell cycle entry and impeded progenitor cell expansion and muscle regeneration.

CELL REPORTS (2021)

Article Hematology

Gene Expression Signature in Patients With Symptomatic Peripheral Artery Disease

Jonathan D. Newman et al.

Summary: A transcriptomic signature identified patients with symptomatic PAD and those at increased risk of major adverse cardiac or limb events (MACLE). A specific microRNA, microRNA-4477b, was found to be overexpressed in prevalent PAD, incident MACLE, and in a mouse hindlimb ischemia model. This novel signature provides insights into potential mechanisms of severe symptomatic PAD.

ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY (2021)

Article Biochemistry & Molecular Biology

Lifelong Ulk1-Mediated Autophagy Deficiency in Muscle Induces Mitochondrial Dysfunction and Contractile Weakness

Anna S. Nichenko et al.

Summary: This study investigated the role of Ulk1-mediated autophagy in skeletal muscle aging by using muscle-specific Ulk1 knockout mice. Findings suggest that under Ulk1 deficiency, muscle contractile and metabolic function are impaired, leading to mitochondrial damage and oxidative stress. Additionally, lower activation of Ulk1 in aging muscles may contribute to decreased autophagy flux and accumulation of dysfunctional mitochondria.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2021)

Article Multidisciplinary Sciences

Inference and analysis of cell-cell communication using CellChat

Suoqin Jin et al.

Summary: By constructing an interaction database and developing the tool CellChat, the authors quantitatively inferred and analyzed cell-cell communication networks, revealing important signaling inputs and outputs between cells, and achieved classification of conserved and context-specific pathways.

NATURE COMMUNICATIONS (2021)

Article Medicine, General & Internal

Unique Metabolomic Profile of Skeletal Muscle in Chronic Limb Threatening Ischemia

Ram B. Khattri et al.

Summary: Chronic limb threatening ischemia (CLTI) is the most severe manifestation of peripheral atherosclerosis. Patients with CLTI exhibit distinct metabolic alterations in their limb muscles, including features of ischemic/hypoxic metabolism, aberrant amino acid metabolism, and accumulation of lipids, providing insights into the profound metabolic disturbances in the failing ischemic limbs of CLTI patients.

JOURNAL OF CLINICAL MEDICINE (2021)

Article Cardiac & Cardiovascular Systems

One-Year Change in Walking Performance and Subsequent Mobility Loss and Mortality Rates in Peripheral Artery Disease: Longitudinal Data From the WALCS

Michael M. Hammond et al.

Summary: In individuals with peripheral artery disease, a significant decline in 6-minute walk or 4-meter walking velocity over 1 year may help identify those at highest risk for mobility loss and mortality.

JOURNAL OF THE AMERICAN HEART ASSOCIATION (2021)

Article Biology

Large-scale integration of single-cell transcriptomic data captures transitional progenitor states in mouse skeletal muscle regeneration

David W. McKellar et al.

Summary: The study integrates single-cell and -nuclear transcriptomic analyses of mouse skeletal muscle in different conditions and after injury, constructing a transcriptomic model of myogenesis that identifies rare transitional states and cell subtypes. This resource supports large-scale integration of single-cell transcriptomic data for biological discovery.

COMMUNICATIONS BIOLOGY (2021)

Article Biochemistry & Molecular Biology

Integrated analysis of multimodal single-cell data

Yuhan Hao et al.

Summary: The study introduces a weighted-nearest neighbor analysis framework to learn the relative utility of each data type in each cell, enabling integrative analysis of multiple modalities. Applied to a CITE-seq dataset, the method constructs a multimodal reference atlas of the circulating immune system and successfully identifies and validates previously unreported lymphoid subpopulations.
Article Physiology

Muscle ankyrin repeat protein 1 (MARP1) locks titin to the sarcomeric thin filament and is a passive force regulator

Robbert J. van der Pijl et al.

Summary: This study demonstrates that MARP1 interacts with F-actin and forms a complex with titin-N2A, which leads to the locking of titin to the thin filament, resulting in increased passive force. The mechanism proposed here suggests that in stressed muscle, MARP1 plays a role in protecting the sarcomere from mechanical damage.

JOURNAL OF GENERAL PHYSIOLOGY (2021)

Article Cell Biology

Perturbed BMP signaling and denervation promote muscle wasting in cancer cachexia

Roberta Sartori et al.

Summary: The study showed that diminished BMP signaling is associated with cancer-induced muscle wasting, and increasing BMP signaling could prevent muscle wasting. This presents an attractive strategy to counteract the loss of functional musculature in cancer patients.

SCIENCE TRANSLATIONAL MEDICINE (2021)

Review Medicine, Research & Experimental

Therapeutic targeting of BAG3: considering its complexity in cancer and heart disease

Jonathan A. Kirk et al.

Summary: BAG3 is a protein that is expressed ubiquitously in humans, with highest levels in the heart, skeletal muscle, and central nervous system, as well as in many cancers. It plays diverse roles in both the heart and cancer cells, including apoptosis inhibition, autophagy promotion, and maintenance of cellular structure. However, targeting BAG3 function in cancer cells may pose challenges due to its essential roles in the heart.

JOURNAL OF CLINICAL INVESTIGATION (2021)

Article Multidisciplinary Sciences

clusterProfiler 4.0: A universal enrichment tool for interpreting omics data

Tianzhi Wu et al.

Summary: The updated version of clusterProfiler 4.0 is a powerful tool for functional enrichment analysis in a wide range of organisms, offering tidy interfaces for data operation and visualization, as well as new features like gene set enrichment analysis and comparison of results from multiple gene lists.

INNOVATION (2021)

Article Surgery

Regeneration of Mitochondrial Function in Gastrocnemius Muscle in Peripheral Arterial Disease After Successful Revascularisation

Alexandra Gratl et al.

EUROPEAN JOURNAL OF VASCULAR AND ENDOVASCULAR SURGERY (2020)

Article Cardiac & Cardiovascular Systems

Correlations of Calf Muscle Macrophage Content With Muscle Properties and Walking Performance in Peripheral Artery Disease

Kate Kosmac et al.

JOURNAL OF THE AMERICAN HEART ASSOCIATION (2020)

Article Cardiac & Cardiovascular Systems

Associations of Peripheral Artery Disease With Calf Skeletal Muscle Mitochondrial DNA Heteroplasmy

Marta Gonzalez-Freire et al.

JOURNAL OF THE AMERICAN HEART ASSOCIATION (2020)

Article Peripheral Vascular Disease

Serum Metabolomic Profile of Critical Limb-Threatening Ischemia Patients

Sandi Azab et al.

JOURNAL OF VASCULAR SURGERY (2020)

Article Medicine, Research & Experimental

PFKFB3-mediated glycolysis rescues myopathic outcomes in the ischemic limb

Terence E. Ryan et al.

JCI INSIGHT (2020)

Article Cell Biology

MyoSight-semi-automated image analysis of skeletal muscle cross sections

Lyle W. Babcock et al.

SKELETAL MUSCLE (2020)

Article Medicine, General & Internal

Fibrosis Distinguishes Critical Limb Ischemia Patients from Claudicants in a Transcriptomic and Histologic Analysis

Guangzhi Cong et al.

JOURNAL OF CLINICAL MEDICINE (2020)

Article Biochemistry & Molecular Biology

DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors

Christopher S. McGinnis et al.

CELL SYSTEMS (2019)

Article Clinical Neurology

Molecular indicators of denervation in aging human skeletal muscle

Casper Soendenbroe et al.

MUSCLE & NERVE (2019)

Article Multidisciplinary Sciences

EGF receptor (EGFR) inhibition promotes a slow-twitch oxidative, over a fast-twitch, muscle phenotype

Margherita Ciano et al.

SCIENTIFIC REPORTS (2019)

Article Medicine, General & Internal

Altered Metabolomic Profile in Patients with Peripheral Artery Disease

Ahmed Ismaeel et al.

JOURNAL OF CLINICAL MEDICINE (2019)

Article Genetics & Heredity

New family with HSPB8-associated autosomal dominant rimmed vacuolar myopathy

Sejad Al-Tahan et al.

NEUROLOGY-GENETICS (2019)

Article Cardiac & Cardiovascular Systems

Oxygen availability and skeletal muscle oxidative capacity in patients with peripheral artery disease: implications from in vivo and in vitro assessments

Corey R. Hart et al.

AMERICAN JOURNAL OF PHYSIOLOGY-HEART AND CIRCULATORY PHYSIOLOGY (2018)

Article Biochemistry & Molecular Biology

Mitochondrial MDM2 Regulates Respiratory Complex I Activity Independently of p53

Giuseppe Arena et al.

MOLECULAR CELL (2018)

Article Cell Biology

Promotion of Myoblast Differentiation by Fkbp5 via Cdk4 Isomerization

Mercedes Ruiz-Estevez et al.

CELL REPORTS (2018)

Article Biotechnology & Applied Microbiology

SCANPY: large-scale single-cell gene expression data analysis

F. Alexander Wolf et al.

GENOME BIOLOGY (2018)

Article Cardiac & Cardiovascular Systems

Lower Extremity Peripheral Artery Disease and Quality of Life Among Older Individuals in the Community

Aozhou Wu et al.

JOURNAL OF THE AMERICAN HEART ASSOCIATION (2017)

Article Biochemistry & Molecular Biology

Integrin alpha 11 in the regulation of the myofibroblast phenotype: implications for fibrotic diseases

Ruchi Bansal et al.

EXPERIMENTAL AND MOLECULAR MEDICINE (2017)

Article Biochemistry & Molecular Biology

Ciliary Hedgehog Signaling Restricts Injury-Induced Adipogenesis

Daniel Kopinke et al.

Article Biochemistry & Molecular Biology

Gadd45a Protein Promotes Skeletal Muscle Atrophy by Forming a Complex with the Protein Kinase MEKK4

Steven A. Bullard et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2016)

Article Cardiac & Cardiovascular Systems

Epidemiology of Peripheral Artery Disease

Michael H. Criqui et al.

CIRCULATION RESEARCH (2015)

Article Surgery

Abnormal myofiber morphology and limb dysfunction in claudication

Panagiotis Koutakis et al.

JOURNAL OF SURGICAL RESEARCH (2015)

Article Clinical Neurology

BAG3 myofibrillar myopathy presenting with cardiomyopathy

Chamindra G. Konersman et al.

NEUROMUSCULAR DISORDERS (2015)

Article Clinical Neurology

MUSCLE ATROPHY, UBIQUITIN-PROTEASOME, AND AUTOPHAGIC PATHWAYS IN DYSFERLINOPATHY

Marina Fanin et al.

MUSCLE & NERVE (2014)

Article Genetics & Heredity

Recurrent Gain-of-Function Mutation in PRKG1 Causes Thoracic Aortic Aneurysms and Acute Aortic Dissections

Dong-Chuan Guo et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2013)

Article Biochemistry & Molecular Biology

Type 2 Innate Signals Stimulate Fibro/Adipogenic Progenitors to Facilitate Muscle Regeneration

Jose E. Heredia et al.

Article Biochemistry & Molecular Biology

Developmental consequences of the ColQ/MuSK interactions

Jennifer Karmouch et al.

CHEMICO-BIOLOGICAL INTERACTIONS (2013)

Review Cardiac & Cardiovascular Systems

Cell Therapy of Peripheral Arterial Disease From Experimental Findings to Clinical Trials

Zankhana Raval et al.

CIRCULATION RESEARCH (2013)

Review Biochemistry & Molecular Biology

Muscle type and fiber type specificity in muscle wasting

Stefano Ciciliot et al.

INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY (2013)

Article Endocrinology & Metabolism

Smad3 Induces Atrogin-1, Inhibits mTOR and Protein Synthesis, and Promotes Muscle Atrophy In Vivo

Craig A. Goodman et al.

MOLECULAR ENDOCRINOLOGY (2013)

Article Genetics & Heredity

BMP signaling controls muscle mass

Roberta Sartori et al.

NATURE GENETICS (2013)

Review Cardiac & Cardiovascular Systems

Therapeutic angiogenesis for critical limb ischaemia

Brian H. Annex

NATURE REVIEWS CARDIOLOGY (2013)

Review Peripheral Vascular Disease

Gene therapy for therapeutic angiogenesis in peripheral arterial disease - a systematic review and meta-analysis of randomized, controlled trials

Alexandra Hammer et al.

VASA-EUROPEAN JOURNAL OF VASCULAR MEDICINE (2013)

Article Cardiac & Cardiovascular Systems

Calf Muscle Characteristics, Strength Measures, and Mortality in Peripheral Arterial Disease A Longitudinal Study

Mary M. McDermott et al.

JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY (2012)

Article Cardiac & Cardiovascular Systems

Decline in Functional Performance Predicts Later Increased Mobility Loss and Mortality in Peripheral Arterial Disease

Mary M. McDermott et al.

JOURNAL OF THE AMERICAN COLLEGE OF CARDIOLOGY (2011)

Article Geriatrics & Gerontology

Lower Extremity Nerve Function, Calf Skeletal Muscle Characteristics, and Functional Performance in Peripheral Arterial Disease

Parveen K. Garg et al.

JOURNAL OF THE AMERICAN GERIATRICS SOCIETY (2011)

Article Biochemistry & Molecular Biology

The cathepsin L gene is a direct target of FOXO1 in skeletal muscle

Yoshihiro Yamazaki et al.

BIOCHEMICAL JOURNAL (2010)

Article Cell Biology

Muscle injury activates resident fibro/adipogenic progenitors that facilitate myogenesis

Aaron W. B. Joe et al.

NATURE CELL BIOLOGY (2010)

Article Biochemistry & Molecular Biology

Large-Scale Structural Analysis of the Classical Human Protein Tyrosine Phosphatome

Alastair J. Barr et al.

Article Biochemistry & Molecular Biology

Cardiac ankyrin repeat protein is a marker of skeletal muscle pathological remodelling

Lydie Laure et al.

FEBS JOURNAL (2009)

Article Geriatrics & Gerontology

Lower extremity ischemia, calf skeletal muscle characteristics, and functional impairment in peripheral arterial disease

Mary M. McDermott et al.

JOURNAL OF THE AMERICAN GERIATRICS SOCIETY (2007)

Article Biochemistry & Molecular Biology

Mitochondrial defects and oxidative damage in patients with peripheral arterial disease

Iraklis I. Pipinos et al.

FREE RADICAL BIOLOGY AND MEDICINE (2006)

Article Multidisciplinary Sciences

Identification of ubiquitin ligases required for skeletal muscle atrophy

SC Bodine et al.

SCIENCE (2001)