11 results on '"Abbe R. Clark"'
Search Results
2. Identification of and Molecular Basis for SIRT6 Loss-of-Function Point Mutations in Cancer
- Author
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Sita Kugel, Jessica L. Feldman, Mark A. Klein, Dafne M. Silberman, Carlos Sebastián, Craig Mermel, Stephanie Dobersch, Abbe R. Clark, Gad Getz, John M. Denu, and Raul Mostoslavsky
- Subjects
Biology (General) ,QH301-705.5 - Abstract
Chromatin factors have emerged as the most frequently dysregulated family of proteins in cancer. We have previously identified the histone deacetylase SIRT6 as a key tumor suppressor, yet whether point mutations are selected for in cancer remains unclear. In this manuscript, we characterized naturally occurring patient-derived SIRT6 mutations. Strikingly, all the mutations significantly affected either stability or catalytic activity of SIRT6, indicating that these mutations were selected for in these tumors. Further, the mutant proteins failed to rescue sirt6 knockout (SIRT6 KO) cells, as measured by the levels of histone acetylation at glycolytic genes and their inability to rescue the tumorigenic potential of these cells. Notably, the main activity affected in the mutants was histone deacetylation rather than demyristoylation, pointing to the former as the main tumor-suppressive function for SIRT6. Our results identified cancer-associated point mutations in SIRT6, cementing its function as a tumor suppressor in human cancer.
- Published
- 2015
- Full Text
- View/download PDF
3. Accelerated cognitive decline in obese mouse model of Alzheimer’s disease is linked to sialic acid-driven immune deregulation
- Author
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Stefano Suzzi, Tommaso Croese, Adi Ravid, Or Gold, Abbe R. Clark, Sedi Medina, Daniel Kitsberg, Miriam Adam, Katherine A. Vernon, Eva Kohnert, Inbar Shapira, Sergey Malitsky, Maxim Itkin, Sarah P. Colaiuta, Liora Cahalon, Michal Slyper, Anna Greka, Naomi Habib, and Michal Schwartz
- Abstract
Systemic immunity supports healthy brain homeostasis. Accordingly, conditions causing systemic immune deregulation may accelerate onset of neurodegeneration in predisposed individuals. Here we show that, in the 5xFAD mouse model of Alzheimer’s disease (AD), high-fat diet-induced obesity accelerated cognitive decline, which was associated with immune deviations comprising increased splenic frequencies of exhausted CD4+T effector memory cells and CD4+FOXP3+regulatory T cells (Tregs). Non-targeted plasma metabolomics identifiedN-acetylneuraminic acid (NANA), the predominant sialic acid, as the major obesity-induced metabolite in 5xFAD mice, the levels of which directly correlated with Tregs abundance and inversely correlated with cognitive performance. Visceral adipose tissue macrophages were identified by sNuc-Seq as one potential source of NANA. Exposure to NANA led to immune deregulation in middle-aged wild-type mice, andex vivoin human T cells. Our study identified diet-induced immune deregulation, potentially via sialic acid, as a previously unrecognized link between obesity and AD.
- Published
- 2022
- Full Text
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4. Single-Cell Transcriptomics Reveal Disrupted Kidney Filter Cell-Cell Interactions after Early and Selective Podocyte Injury
- Author
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Mónica S. Montesinos, Lan Nguyen, Yiming Zhou, Anna Greka, Abbe R. Clark, Jamie L. Marshall, Haiqi Chen, and Fei Chen
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Mice, Knockout ,Kidney ,Mesangial cell ,Podocytes ,Cell ,Regular Article ,Cell Communication ,Biology ,Pathology and Forensic Medicine ,Cell biology ,Podocyte ,Endothelial stem cell ,Mice ,medicine.anatomical_structure ,Downregulation and upregulation ,CTCF ,medicine ,Animals ,Renal Insufficiency, Chronic ,Single-Cell Analysis ,Transcriptome ,Intracellular - Abstract
The health of the kidney filtration barrier requires communication among podocytes, endothelial cells, and mesangial cells. Disruption of these cell-cell interactions is thought to contribute to disease progression in chronic kidney diseases (CKDs). Podocyte ablation via doxycycline-inducible deletion of an essential endogenous molecule, CTCF [inducible podocyte-specific CTCF deletion (iCTCF(pod−/−))], is sufficient to drive progressive CKD. However, the earliest events connecting podocyte injury to disrupted intercellular communication within the kidney filter remain unclear. Single-cell RNA sequencing of kidney tissue from iCTCF(pod−/−) mice after 1 week of doxycycline induction was performed to generate a map of the earliest transcriptional effects of podocyte injury on cell-cell interactions at single-cell resolution. A subset of podocytes had the earliest signs of injury due to disrupted gene programs for cytoskeletal regulation and mitochondrial function. Surviving podocytes up-regulated collagen type IV ɑ5, causing reactive changes in integrin expression in endothelial populations and mesangial cells. Intercellular interaction analysis revealed several receptor-ligand-target gene programs as drivers of endothelial cell injury and abnormal matrix deposition. This analysis reveals the earliest disruptive changes within the kidney filter, pointing to new, actionable targets within a therapeutic window that may allow us to maximize the success of much needed therapeutic interventions for CKDs.
- Published
- 2021
5. Single cell transcriptomics reveal disrupted kidney filter cell-cell interactions after early and selective podocyte injury
- Author
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Anna Greka, Mónica S. Montesinos, Lan Nguyen, Yiming Zhou, Abbe R. Clark, Fei Chen, Jamie L. Marshall, and Haiqi Chen
- Subjects
Endothelial stem cell ,Kidney ,medicine.anatomical_structure ,Downregulation and upregulation ,CTCF ,Cell ,medicine ,Biology ,Cytoskeleton ,Intracellular ,Cell biology ,Podocyte - Abstract
The health of the kidney filtration barrier requires communication between podocytes, endothelial cells and mesangial cells. Disruption of these cell-cell interactions is thought to contribute to disease progression in chronic kidney diseases (CKD). We recently demonstrated that podocyte ablation via doxycycline-inducible deletion of an essential endogenous molecule, CTCF (iCTCFpod-/-), is sufficient to drive progressive CKD. However, the earliest events connecting podocyte injury to disrupted intercellular communication within the kidney filter remain unclear. Here we performed single-cell RNA sequencing of kidney tissue from iCTCFpod-/- mice after one week of doxycycline induction to generate a map of the earliest transcriptional effects of podocyte injury on cell-cell interactions at single cell resolution. A subset of podocytes showed the earliest signs of injury due to disrupted gene programs for cytoskeletal regulation and mitochondrial function. Surviving podocytes upregulated Col4a5, causing reactive changes in integrin expression in endothelial populations and mesangial cells. Intercellular interaction analysis revealed several receptor-ligand-target gene programs as drivers of endothelial cell injury and abnormal matrix deposition. This analysis reveals the earliest disruptive changes within the kidney filter, pointing to new, actionable targets within a therapeutic window that may allow us to maximize the success of much needed therapeutic interventions for CKD.
- Published
- 2020
- Full Text
- View/download PDF
6. A small-molecule inhibitor of TRPC5 ion channels suppresses progressive kidney disease in animal models
- Author
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Philip Castonguay, Sookyung Kim, Jana Reichardt, John M. Basgen, Moran Dvela-Levitt, Nicolas Wieder, Anna Greka, Eric S. Lander, Frank Dubois, Sigrid Hoffmann, Mónica S. Montesinos, Michael R. Garrett, Abbe R. Clark, Ji Yong Jung, Svetlana Andreeva, Jonas Sieber, Corey R. Hopkins, Eriene Heidi Sidhom, Yiming Zhou, Astrid Weins, Ashley C. Johnson, Institute for Medical Engineering and Science, Sidhom, Eriene-Heidi I, Lander, Eric Steven, and Greka, Anna
- Subjects
rac1 GTP-Binding Protein ,0301 basic medicine ,Hypertension, Renal ,Indazoles ,Renal function ,urologic and male genital diseases ,TRPC5 ,Podocyte ,Small Molecule Libraries ,03 medical and health sciences ,0302 clinical medicine ,Focal segmental glomerulosclerosis ,medicine ,Animals ,TRPC Cation Channels ,In View: Game Changer ,Kidney ,Rats, Inbred Dahl ,Multidisciplinary ,Proteinuria ,urogenital system ,Glomerulosclerosis, Focal Segmental ,Podocytes ,business.industry ,Glomerulosclerosis ,medicine.disease ,female genital diseases and pregnancy complications ,Rats ,Disease Models, Animal ,030104 developmental biology ,medicine.anatomical_structure ,Mutation ,Cancer research ,Rats, Transgenic ,medicine.symptom ,business ,030217 neurology & neurosurgery ,Kidney disease - Abstract
Progressive kidney diseases are often associated with scarring of the kidney’s filtration unit, a condition called focal segmental glomerulosclerosis (FSGS). This scarring is due to loss of podocytes, cells critical for glomerular filtration, and leads to proteinuria and kidney failure. Inherited forms of FSGS are caused by Rac1-activating mutations, and Rac1 induces TRPC5 ion channel activity and cytoskeletal remodeling in podocytes. Whether TRPC5 activity mediates FSGS onset and progression is unknown. We identified a small molecule, AC1903, that specifically blocks TRPC5 channel activity in glomeruli of proteinuric rats. Chronic administration of AC1903 suppressed severe proteinuria and prevented podocyte loss in a transgenic rat model of FSGS. AC1903 also provided therapeutic benefit in a rat model of hypertensive proteinuric kidney disease. These data indicate that TRPC5 activity drives disease and that TRPC5 inhibitors may be valuable for the treatment of progressive kidney diseases., National Institutes of Health (U.S.) (Grant DK095045), National Institutes of Health (U.S.) (Grant DK099465), National Institutes of Health (U.S.) (Grant DK103658), National Institutes of Health (U.S.) (Grant DK083511), National Institutes of Health (U.S.) (Grant DK093746)
- Published
- 2017
- Full Text
- View/download PDF
7. The power of one: advances in single-cell genomics in the kidney
- Author
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Abbe R, Clark and Anna, Greka
- Subjects
Organoids ,Podocytes ,Gene Expression Profiling ,Humans ,Cell Differentiation ,Myeloid Cells ,Genomics ,Lymphocytes ,RNA-Seq ,Single-Cell Analysis ,Kidney ,Lupus Nephritis - Published
- 2019
8. Inducible podocyte-specific deletion of CTCF drives progressive kidney disease and bone abnormalities
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Eugene P. Rhee, Abbe R. Clark, Eric Hesse, Astrid Weins, Harald Jüppner, Mary L. Bouxsein, Anna Greka, Marta Christov, Niels Galjart, Hiroaki Saito, Peter Mundel, Braden Corbin, Ji Yong Jung, Samy Hakroush, Daniel J. Brooks, and Cell biology
- Subjects
Male ,0301 basic medicine ,Fibroblast growth factor 23 ,Nephrology ,CCCTC-Binding Factor ,medicine.medical_specialty ,030232 urology & nephrology ,lcsh:Medicine ,Parathyroid hormone ,urologic and male genital diseases ,Podocyte ,Mice ,03 medical and health sciences ,Calcification, Physiologic ,Endocrinology ,0302 clinical medicine ,Internal medicine ,Animals ,Humans ,Medicine ,Osteodystrophy ,Bone Resorption ,Renal Insufficiency, Chronic ,Mice, Knockout ,Kidney ,Podocytes ,business.industry ,lcsh:R ,General Medicine ,medicine.disease ,female genital diseases and pregnancy complications ,3. Good health ,Fibroblast Growth Factors ,Mice, Inbred C57BL ,Disease Models, Animal ,Fibroblast Growth Factor-23 ,030104 developmental biology ,medicine.anatomical_structure ,Parathyroid Hormone ,Disease Progression ,Cancer research ,Albuminuria ,Female ,medicine.symptom ,business ,Glomerular Filtration Rate ,Research Article ,Kidney disease - Abstract
Progressive chronic kidney diseases (CKDs) are on the rise worldwide. However, the sequence of events resulting in CKD progression remain poorly understood. Animal models of CKD exploring these issues are confounded by systemic toxicities or surgical interventions to acutely induce kidney injury. Here we report the generation of a CKD mouse model through the inducible podocyte-specific ablation of an essential endogenous molecule, the chromatin structure regulator CCCTC-binding factor (CTCF), which leads to rapid podocyte loss (iCTCFpod–/–). As a consequence, iCTCFpod–/– mice develop severe progressive albuminuria, hyperlipidemia, hypoalbuminemia, and impairment of renal function, and die within 8–10 weeks. CKD progression in iCTCFpod–/– mice leads to high serum phosphate and elevations in fibroblast growth factor 23 (FGF23) and parathyroid hormone that rapidly cause bone mineralization defects, increased bone resorption, and bone loss. Dissection of the timeline leading to glomerular pathology in this CKD model led to the surprising observation that podocyte ablation and the resulting glomerular filter destruction is sufficient to drive progressive CKD and osteodystrophy in the absence of interstitial fibrosis. This work introduces an animal model with significant advantages for the study of CKD progression, and it highlights the need for podocyte-protective strategies for future kidney therapeutics.
- Published
- 2018
- Full Text
- View/download PDF
9. The power of one: advances in single-cell genomics in the kidney
- Author
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Anna Greka and Abbe R. Clark
- Subjects
0301 basic medicine ,Kidney ,Cell type ,urogenital system ,business.industry ,Cell ,030232 urology & nephrology ,Kidney development ,Kidney metabolism ,Genomics ,Disease ,Computational biology ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,medicine.anatomical_structure ,Single-cell analysis ,Nephrology ,Medicine ,business - Abstract
Single-cell genomics provide a powerful approach to investigate the intrinsic complexity of the kidney and understand the diverse cell types and states that exist during kidney development, homeostasis and disease. Several advances were made in 2019 that enhance our understanding of kidney immune cell states in health and disease and the quality of current kidney organoid model systems for studying human diseases.
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- 2019
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- View/download PDF
10. SNAP-25 Contains Non-Acylated Thiol Pairs that can Form Intrachain Disulfide Bonds: Possible Sites for Redox Modulation of Neurotransmission
- Author
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Timothy D. Foley, Bradley M. Wierbowski, Abbe R. Clark, and Edward S. Stredny
- Subjects
Gene isoform ,Synaptosomal-Associated Protein 25 ,Stereochemistry ,Acylation ,Neurotransmission ,medicine.disease_cause ,Synaptic Transmission ,Arsenicals ,Rats, Sprague-Dawley ,Cellular and Molecular Neuroscience ,chemistry.chemical_compound ,medicine ,Animals ,Phenylarsine oxide ,Disulfides ,Sulfhydryl Compounds ,Chemoselectivity ,chemistry.chemical_classification ,Cell Biology ,General Medicine ,Rats ,Solubility ,chemistry ,Biochemistry ,Thiol ,Oxidation-Reduction ,Vicinal ,Oxidative stress ,Subcellular Fractions ,Cysteine - Abstract
Intrachain disulfide bond formation among the cysteine thiols of SNAP-25, a component of the SNARE protein complex required for neurotransmitter release, has been hypothesized to link oxidative stress and inhibition of synaptic transmission. However, neither the availability in vivo of SNAP-25 thiols, which are known targets of S-palmitoylation, nor the tendency of these thiols to form intrachain disulfide bonds is known. We have examined, in rat brain extracts, both the availability of closely spaced, or vicinal, thiol pairs in SNAP-25 and the propensity of these dithiols toward disulfide bond formation using a method improved by us recently that exploits the high chemoselectivity of phenylarsine oxide (PAO) for vicinal thiols. The results show for the first time that a substantial fraction of soluble and, to a lesser extent, particulate SNAP-25 contain non-acylated PAO-binding thiol pairs and that these thiols in soluble SNAP-25 in particular have a high propensity toward disulfide bond formation. Indeed, disulfide bonds were detected in a small fraction of soluble SNAP-25 even under conditions designed to prevent or greatly limit protein thiol oxidation during experimental procedures. These results provide direct experimental support for the availability, in a subpopulation of SNAP-25, of vicinal thiols that may confer on one or more isoforms of this family of proteins a sensitivity to oxidative stress.
- Published
- 2011
- Full Text
- View/download PDF
11. Identification of and molecular basis for SIRT6 loss-of-function point mutations in cancer
- Author
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Dafne Magalí Silberman, John M. Denu, Sita Kugel, Abbe R. Clark, Carlos Sebastian, Mark A. Klein, Jessica L. Feldman, Craig H. Mermel, Stephanie Dobersch, Gad Getz, and Raul Mostoslavsky
- Subjects
Molecular Sequence Data ,education ,General Biochemistry, Genetics and Molecular Biology ,Article ,Cell Line ,purl.org/becyt/ford/1 [https] ,Ciencias Biológicas ,Mice ,Catalytic Domain ,Neoplasms ,medicine ,SIRT6 ,Animals ,Humans ,Point Mutation ,Sirtuins ,cancer ,Cancer epigenetics ,Amino Acid Sequence ,purl.org/becyt/ford/1.6 [https] ,lcsh:QH301-705.5 ,Loss function ,Genetics ,biology ,Point mutation ,Cancer ,Bioquímica y Biología Molecular ,medicine.disease ,3. Good health ,Chromatin ,Histone ,lcsh:Biology (General) ,Acetylation ,biology.protein ,Cancer research ,Histone deacetylase ,genetic ,Glycolysis ,CIENCIAS NATURALES Y EXACTAS - Abstract
Chromatin factors have emerged as the most frequently dysregulated family of proteins in cancer. We have previously identified the histone deacetylase SIRT6 as a key tumor suppressor, yet whether point mutations are selected for in cancer remains unclear. In this manuscript, we characterized naturally occurring patient-derived SIRT6 mutations. Strikingly, all the mutations significantly affected either stability or catalytic activity of SIRT6, indicating that these mutations were selected for in these tumors. Further, the mutant proteins failed to rescue sirt6 knockout (SIRT6 KO) cells, as measured by the levels of histone acetylation at glycolytic genes and their inability to rescue the tumorigenic potential of these cells. Notably, the main activity affected in the mutants was histone deacetylation rather than demyristoylation, pointing to the former as the main tumor-suppressive function for SIRT6. Our results identified cancer-associated point mutations in SIRT6, cementing its function as a tumor suppressor in human cancer. Fil: Kugel, Sita . Harvard Medical School; Estados Unidos Fil: Feldman, Jessica L. . University Of Wisconsin; Estados Unidos Fil: Klein, Mark A.. University Of Wisconsin; Estados Unidos Fil: Silberman, Dafne Magali. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Houssay. Centro de Estudios Farmacológicos y Botánicos; Argentina. Universidad de Buenos Aires. Facultad de Medicina; Argentina Fil: Sebastián, Carlos. Harvard Medical School; Estados Unidos Fil: Mermel, Craig. Harvard Medical School; Estados Unidos Fil: Dobersch, Stephanie . Institute Max Planck for Heart and Lung Research; Alemania Fil: Clark, Abbe R.. Harvard Medical School; Estados Unidos Fil: Getz, Gad. Harvard Medical School; Estados Unidos Fil: Denu, John M.. University Of Wisconsin; Estados Unidos Fil: Mostoslavsky, Raul. Harvard Medical School; Estados Unidos
- Published
- 2015
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