Effect of Exercise and Butyrate Supplementation on Microbiota Composition and Lipid Metabolism
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The Role of Nuclear Lamin B1 in Cell Proliferation and Senescence
Downloaded from genesdev.cshlp.org on September 29, 2021 - Published by Cold Spring Harbor Laboratory Press The role of nuclear lamin B1 in cell proliferation and senescence Takeshi Shimi,1 Veronika Butin-Israeli,1 Stephen A. Adam,1 Robert B. Hamanaka,2 Anne E. Goldman,1 Catherine A. Lucas,1 Dale K. Shumaker,1 Steven T. Kosak,1 Navdeep S. Chandel,2 and Robert D. Goldman1,3 1Department of Cell and Molecular Biology, 2Department of Medicine, Division of Pulmonary and Critical Care Medicine, Feinberg School of Medicine, Northwestern University, Chicago, Illinois 60611, USA Nuclear lamin B1 (LB1) is a major structural component of the nucleus that appears to be involved in the regulation of many nuclear functions. The results of this study demonstrate that LB1 expression in WI-38 cells decreases during cellular senescence. Premature senescence induced by oncogenic Ras also decreases LB1 expression through a retinoblastoma protein (pRb)-dependent mechanism. Silencing the expression of LB1 slows cell proliferation and induces premature senescence in WI-38 cells. The effects of LB1 silencing on proliferation require the activation of p53, but not pRb. However, the induction of premature senescence requires both p53 and pRb. The proliferation defects induced by silencing LB1 are accompanied by a p53-dependent reduction in mitochondrial reactive oxygen species (ROS), which can be rescued by growth under hypoxic conditions. In contrast to the effects of LB1 silencing, overexpression of LB1 increases the proliferation rate and delays the onset of senescence of WI-38 cells. This overexpression eventually leads to cell cycle arrest at the G1/S boundary. -
Mechanism of CREB Recognition and Coactivation by the CREB-Regulated Transcriptional Coactivator CRTC2
Mechanism of CREB recognition and coactivation by the CREB-regulated transcriptional coactivator CRTC2 Qianyi Luoa, Kristin Visteb, Janny Concha Urday-Zaaa, Ganesan Senthil Kumara, Wen-Wei Tsaib, Afsaneh Talaia, Kelly E. Mayoa, Marc Montminyb,1, and Ishwar Radhakrishnana,1 aDepartment of Molecular Biosciences, Northwestern University, Evanston, IL 60208; and bClayton Foundation Laboratories for Peptide Biology, Salk Institute for Biological Studies, La Jolla, CA 92037 Contributed by Marc Montminy, November 2, 2012 (sent for review October 8, 2012) Basic leucine zipper (bZip) transcription factors regulate cellular program (10). Sequestered in the cytoplasm under feeding con- gene expression in response to a variety of extracellular signals ditions through phosphorylation by the Ser/Thr kinase SIK2, and nutrient cues. Although the bZip domain is widely known to CRTC2 is dephosphorylated in response to pancreatic glucagon play significant roles in DNA binding and dimerization, recent during fasting, when it translocates to the nucleus and stimulates studies point to an additional role for this motif in the recruitment gluconeogenic gene expression. of the transcriptional apparatus. For example, the cAMP response Recent studies support a conserved role for CRTCs through evolution. Deletion of TORC, the single CRTC homolog in Dro- element binding protein (CREB)-regulated transcriptional coacti- sophila, reduces fat stores and increases sensitivity to starvation vator (CRTC) family of transcriptional coactivators has been pro- (11). CRTCs also seem to be important in aging: RNAi-mediated posed to promote the expression of calcium and cAMP responsive depletion of CRTC1 in Caenorhabditis elegans extends lifespan, in genes, by binding to the CREB bZip in response to extracellular part through down-regulation of the CREB pathway (12). -
Genome-Wide Regulatory Roles of the C2H2-Type Zinc Finger Protein
www.nature.com/scientificreports OPEN Genome-wide Regulatory Roles of the C2H2-type Zinc Finger Protein ZNF764 on the Glucocorticoid Received: 09 June 2016 Accepted: 23 December 2016 Receptor Published: 31 January 2017 Abeer Fadda1, Najeeb Syed2, Rafah Mackeh1, Anna Papadopoulou3, Shigeru Suzuki3,4, Puthen V. Jithesh2 & Tomoshige Kino1,3 The C2H2-type zinc finger protein ZNF764 acts as an enhancer for several steroid hormone receptors, and haploinsufficiency of this gene may be responsible for tissue resistance to multiple steroid hormones including glucocorticoids observed in a patient with 16p11.2 microdeletion. We examined genome-wide regulatory actions of ZNF764 on the glucocorticoid receptor (GR) in HeLa cells as a model system. ZNF764- and GR-binding sites demonstrated similar distribution in various genomic features. They positioned predominantly around 50–500 kbs from the transcription start sites of their nearby genes, and were closely localized with each other, overlapping in ~37% of them. ZNF764 demonstrated differential on/off effects on GR-binding and subsequent mRNA expression: some genes were highly dependent on the presence/absence of ZNF764, but others were not. Pathway analysis revealed that these 3 gene groups were involved in distinct cellular activities. ZNF764 physically interacted with GR at ligand-binding domain through its KRAB domain, and both its physical interaction to GR and zinc finger domain appear to be required for ZNF764 to regulate GR transcriptional activity. Thus, ZNF764 is a cofactor directing GR transcriptional activity toward specific biologic pathways by changing GR binding and transcriptional activity on the glucocorticoid-responsive genes. Steroid hormones exert diverse physiologic functions and play central roles in human physiology1,2. -
A Computational Approach for Defining a Signature of Β-Cell Golgi Stress in Diabetes Mellitus
Page 1 of 781 Diabetes A Computational Approach for Defining a Signature of β-Cell Golgi Stress in Diabetes Mellitus Robert N. Bone1,6,7, Olufunmilola Oyebamiji2, Sayali Talware2, Sharmila Selvaraj2, Preethi Krishnan3,6, Farooq Syed1,6,7, Huanmei Wu2, Carmella Evans-Molina 1,3,4,5,6,7,8* Departments of 1Pediatrics, 3Medicine, 4Anatomy, Cell Biology & Physiology, 5Biochemistry & Molecular Biology, the 6Center for Diabetes & Metabolic Diseases, and the 7Herman B. Wells Center for Pediatric Research, Indiana University School of Medicine, Indianapolis, IN 46202; 2Department of BioHealth Informatics, Indiana University-Purdue University Indianapolis, Indianapolis, IN, 46202; 8Roudebush VA Medical Center, Indianapolis, IN 46202. *Corresponding Author(s): Carmella Evans-Molina, MD, PhD ([email protected]) Indiana University School of Medicine, 635 Barnhill Drive, MS 2031A, Indianapolis, IN 46202, Telephone: (317) 274-4145, Fax (317) 274-4107 Running Title: Golgi Stress Response in Diabetes Word Count: 4358 Number of Figures: 6 Keywords: Golgi apparatus stress, Islets, β cell, Type 1 diabetes, Type 2 diabetes 1 Diabetes Publish Ahead of Print, published online August 20, 2020 Diabetes Page 2 of 781 ABSTRACT The Golgi apparatus (GA) is an important site of insulin processing and granule maturation, but whether GA organelle dysfunction and GA stress are present in the diabetic β-cell has not been tested. We utilized an informatics-based approach to develop a transcriptional signature of β-cell GA stress using existing RNA sequencing and microarray datasets generated using human islets from donors with diabetes and islets where type 1(T1D) and type 2 diabetes (T2D) had been modeled ex vivo. To narrow our results to GA-specific genes, we applied a filter set of 1,030 genes accepted as GA associated. -
Multidrug Transporter MRP4/ABCC4 As a Key Determinant of Pancreatic
www.nature.com/scientificreports OPEN Multidrug transporter MRP4/ ABCC4 as a key determinant of pancreatic cancer aggressiveness A. Sahores1, A. Carozzo1, M. May1, N. Gómez1, N. Di Siervi1, M. De Sousa Serro1, A. Yanef1, A. Rodríguez‑González2, M. Abba3, C. Shayo2 & C. Davio1* Recent fndings show that MRP4 is critical for pancreatic ductal adenocarcinoma (PDAC) cell proliferation. Nevertheless, the signifcance of MRP4 protein levels and function in PDAC progression is still unclear. The aim of this study was to determine the role of MRP4 in PDAC tumor aggressiveness. Bioinformatic studies revealed that PDAC samples show higher MRP4 transcript levels compared to normal adjacent pancreatic tissue and circulating tumor cells express higher levels of MRP4 than primary tumors. Also, high levels of MRP4 are typical of high-grade PDAC cell lines and associate with an epithelial-mesenchymal phenotype. Moreover, PDAC patients with high levels of MRP4 depict dysregulation of pathways associated with migration, chemotaxis and cell adhesion. Silencing MRP4 in PANC1 cells reduced tumorigenicity and tumor growth and impaired cell migration. Transcriptomic analysis revealed that MRP4 silencing alters PANC1 gene expression, mainly dysregulating pathways related to cell-to-cell interactions and focal adhesion. Contrarily, MRP4 overexpression signifcantly increased BxPC-3 growth rate, produced a switch in the expression of EMT markers, and enhanced experimental metastatic incidence. Altogether, our results indicate that MRP4 is associated with a more aggressive phenotype in PDAC, boosting pancreatic tumorigenesis and metastatic capacity, which could fnally determine a fast tumor progression in PDAC patients. Pancreatic ductal adenocarcinoma (PDAC) is one of the most lethal human malignancies, due to its late diag- nosis, inherent resistance to treatment and early dissemination 1. -
The Essential Role of the Crtc2-CREB Pathway in Β Cell Function And
The Essential Role of the Crtc2-CREB Pathway in β cell Function and Survival by Chandra Eberhard A thesis submitted to the School of Graduate Studies and Research in partial fulfillment of the requirements for the degree of Masters of Science in Cellular and Molecular Medicine Department of Cellular and Molecular Medicine Faculty of Medicine University of Ottawa September 28, 2012 © Chandra Eberhard, Ottawa, Canada, 2013 Abstract: Immunosuppressants that target the serine/threonine phosphatase calcineurin are commonly administered following organ transplantation. Their chronic use is associated with reduced insulin secretion and new onset diabetes in a subset of patients, suggestive of pancreatic β cell dysfunction. Calcineurin plays a critical role in the activation of CREB, a key transcription factor required for β cell function and survival. CREB activity in the islet is activated by glucose and cAMP, in large part due to activation of Crtc2, a critical coactivator for CREB. Previous studies have demonstrated that Crtc2 activation is dependent on dephosphorylation regulated by calcineurin. In this study, we sought to evaluate the impact of calcineurin-inhibiting immunosuppressants on Crtc2-CREB activation in the primary β cell. In addition, we further characterized the role and regulation of Crtc2 in the β cell. We demonstrate that Crtc2 is required for glucose dependent up-regulation of CREB target genes. The phosphatase calcineurin and kinase regulation by LKB1 contribute to the phosphorylation status of Crtc2 in the β cell. CsA and FK506 block glucose-dependent dephosphorylation and nuclear translocation of Crtc2. Overexpression of a constitutively active mutant of Crtc2 that cannot be phosphorylated at Ser171 and Ser275 enables CREB activity under conditions of calcineurin inhibition. -
PRMT5 Modulates the Metabolic Response to Fasting Signals
PRMT5 modulates the metabolic response to fasting signals Wen-Wei Tsaia, Sherry Niessenb, Naomi Goebela, John R. Yates IIIb, Ernesto Guccionec,d, and Marc Montminya,1 aThe Clayton Foundation Laboratories for Peptide Biology, Salk Institute, La Jolla, CA 92037; bDepartment of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037; cInstitute of Molecular and Cell Biology, Proteos, Singapore 138673; dDepartment of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119074 Contributed by Marc Montminy, March 11, 2013 (sent for review February 20, 2013) Under fasting conditions, increases in circulating glucagon maintain sites. The results provide a mechanism to explain how latent cy- glucose balance by promoting hepatic gluconeogenesis. Triggering toplasmic regulators such as CRTC2 may contribute to signaling of the cAMP pathway stimulates gluconeogenic gene expression in the nucleus through their association with chromatin mod- through the PKA-mediated phosphorylation of the cAMP response ifying enzymes. element binding (CREB) protein and via the dephosphorylation of the latent cytoplasmic CREB regulated transcriptional coactivator 2 Results (CRTC2). CREB and CRTC2 activities are increased in insulin resis- In mass spectroscopy studies using epitope-tagged CRTC2 to tance, in which they promote hyperglycemia because of constitu- identify relevant interacting proteins, we recovered the protein tive induction of the gluconeogenic program. The extent to which arginine methyltransferase 5 (PRMT5) (Fig. S1 A and B). We CREB and CRTC2 are coordinately up-regulated in response to glu- confirmed the CRTC2:PRMT5 interaction in coimmunopreci- cagon, however, remains unclear. Here we show that, following its pitation studies with epitope-tagged proteins (Fig. -
Adiponectin Suppresses Gluconeogenic Gene Expression in Mouse Hepatocytes Independent of LKB1-AMPK Signaling
Adiponectin suppresses gluconeogenic gene expression in mouse hepatocytes independent of LKB1-AMPK signaling Russell A. Miller, … , Benoit Viollet, Morris J. Birnbaum J Clin Invest. 2011;121(6):2518-2528. https://doi.org/10.1172/JCI45942. Research Article Metabolism The adipocyte-derived hormone adiponectin signals from the fat storage depot to regulate metabolism in peripheral tissues. Inversely correlated with body fat levels, adiponectin reduction in obese individuals may play a causal role in the symptoms of metabolic syndrome. Adiponectin lowers serum glucose through suppression of hepatic glucose production, an effect attributed to activation of AMPK. Here, we investigated the signaling pathways that mediate the effects of adiponectin by studying mice with inducible hepatic deletion of LKB1, an upstream regulator of AMPK. We found that loss of LKB1 in the liver partially impaired the ability of adiponectin to lower serum glucose, though other actions of the hormone were preserved, including reduction of gluconeogenic gene expression and hepatic glucose production as assessed by euglycemic hyperinsulinemic clamp. Furthermore, in primary mouse hepatocytes, the absence of LKB1, AMPK, or the transcriptional coactivator CRTC2 did not prevent adiponectin from inhibiting glucose output or reducing gluconeogenic gene expression. These results reveal that whereas some of the hormone’s actions in vivo may be LKB1 dependent, substantial LKB1-, AMPK-, and CRTC2-independent signaling pathways also mediate effects of adiponectin. Find the latest version: https://jci.me/45942/pdf Research article Adiponectin suppresses gluconeogenic gene expression in mouse hepatocytes independent of LKB1-AMPK signaling Russell A. Miller,1 Qingwei Chu,1 John Le Lay,1 Philipp E. Scherer,2 Rexford S. -
Arsenic Trioxide-Mediated Suppression of Mir-182-5P Is Associated with Potent Anti-Oxidant Effects Through Up-Regulation of SESN2
www.impactjournals.com/oncotarget/www.oncotarget.com Oncotarget, 2018,Oncotarget, Vol. 9, (No.Advance 22), Publicationspp: 16028-16042 2018 Research Paper Arsenic trioxide-mediated suppression of miR-182-5p is associated with potent anti-oxidant effects through up-regulation of SESN2 Liang-Ting Lin1,10,*, Shin-Yi Liu2,*, Jyh-Der Leu3,4,*, Chun-Yuan Chang1, Shih-Hwa Chiou5,6,7, Te-Chang Lee7,8 and Yi-Jang Lee1,9 1Department of Biomedical Imaging and Radiological Sciences, National Yang-Ming University, Taipei, Taiwan 2Department of Radiation Oncology, MacKay Memorial Hospital, Taipei, Taiwan 3Division of Radiation Oncology, Taipei City Hospital Ren Ai Branch, Taipei, Taiwan 4Institute of Neuroscience, National Chengchi University, Taipei, Taiwan 5Department of Medical Research and Education, Taipei Veterans General Hospital, Taipei, Taiwan 6Institute of Clinical Medicine, School of Medicine, National Yang-Ming University, Taipei, Taiwan 7Institute of Pharmacology, National Yang-Ming University, Taipei, Taiwan 8Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan 9Biophotonics and Molecular Imaging Research Center (BMIRC), National Yang-Ming University, Taipei, Taiwan 10Current address: Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Hong Kong *These authors have contributed equally to this work Correspondence to: Te-Chang Lee, email: [email protected] Yi-Jang Lee, email: [email protected] Keywords: arsenic trioxide; sestrin 2; miR-182; oxidative stress; anti-oxidant effect Received: April 12, 2017 Accepted: February 24, 2018 Published: March 23, 2018 Copyright: Lin et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC BY 3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. -
Xo PANEL DNA GENE LIST
xO PANEL DNA GENE LIST ~1700 gene comprehensive cancer panel enriched for clinically actionable genes with additional biologically relevant genes (at 400 -500x average coverage on tumor) Genes A-C Genes D-F Genes G-I Genes J-L AATK ATAD2B BTG1 CDH7 CREM DACH1 EPHA1 FES G6PC3 HGF IL18RAP JADE1 LMO1 ABCA1 ATF1 BTG2 CDK1 CRHR1 DACH2 EPHA2 FEV G6PD HIF1A IL1R1 JAK1 LMO2 ABCB1 ATM BTG3 CDK10 CRK DAXX EPHA3 FGF1 GAB1 HIF1AN IL1R2 JAK2 LMO7 ABCB11 ATR BTK CDK11A CRKL DBH EPHA4 FGF10 GAB2 HIST1H1E IL1RAP JAK3 LMTK2 ABCB4 ATRX BTRC CDK11B CRLF2 DCC EPHA5 FGF11 GABPA HIST1H3B IL20RA JARID2 LMTK3 ABCC1 AURKA BUB1 CDK12 CRTC1 DCUN1D1 EPHA6 FGF12 GALNT12 HIST1H4E IL20RB JAZF1 LPHN2 ABCC2 AURKB BUB1B CDK13 CRTC2 DCUN1D2 EPHA7 FGF13 GATA1 HLA-A IL21R JMJD1C LPHN3 ABCG1 AURKC BUB3 CDK14 CRTC3 DDB2 EPHA8 FGF14 GATA2 HLA-B IL22RA1 JMJD4 LPP ABCG2 AXIN1 C11orf30 CDK15 CSF1 DDIT3 EPHB1 FGF16 GATA3 HLF IL22RA2 JMJD6 LRP1B ABI1 AXIN2 CACNA1C CDK16 CSF1R DDR1 EPHB2 FGF17 GATA5 HLTF IL23R JMJD7 LRP5 ABL1 AXL CACNA1S CDK17 CSF2RA DDR2 EPHB3 FGF18 GATA6 HMGA1 IL2RA JMJD8 LRP6 ABL2 B2M CACNB2 CDK18 CSF2RB DDX3X EPHB4 FGF19 GDNF HMGA2 IL2RB JUN LRRK2 ACE BABAM1 CADM2 CDK19 CSF3R DDX5 EPHB6 FGF2 GFI1 HMGCR IL2RG JUNB LSM1 ACSL6 BACH1 CALR CDK2 CSK DDX6 EPOR FGF20 GFI1B HNF1A IL3 JUND LTK ACTA2 BACH2 CAMTA1 CDK20 CSNK1D DEK ERBB2 FGF21 GFRA4 HNF1B IL3RA JUP LYL1 ACTC1 BAG4 CAPRIN2 CDK3 CSNK1E DHFR ERBB3 FGF22 GGCX HNRNPA3 IL4R KAT2A LYN ACVR1 BAI3 CARD10 CDK4 CTCF DHH ERBB4 FGF23 GHR HOXA10 IL5RA KAT2B LZTR1 ACVR1B BAP1 CARD11 CDK5 CTCFL DIAPH1 ERCC1 FGF3 GID4 HOXA11 -
Functional Genomics Study of Acute Heat Stress Response in the Small
www.nature.com/scientificreports OPEN Functional genomics study of acute heat stress response in the small yellow follicles of layer-type Received: 30 January 2017 Accepted: 11 December 2017 chickens Published: xx xx xxxx Chuen-Yu Cheng1, Wei-Lin Tu1, Chao-Jung Chen2,3, Hong-Lin Chan4,5, Chih-Feng Chen1,6,7, Hsin-Hsin Chen1, Pin-Chi Tang1,2, Yen-Pai Lee1, Shuen-Ei Chen1,6,7 & San-Yuan Huang 1,6,7,8 This study investigated global gene and protein expression in the small yellow follicle (SYF; 6–8 mm in diameter) tissues of chickens in response to acute heat stress. Twelve 30-week-old layer-type hens were divided into four groups: control hens were maintained at 25 °C while treatment hens were subjected to acute heat stress at 36 °C for 4 h without recovery, with 2-h recovery, and with 6-h recovery. SYFs were collected at each time point for mRNA and protein analyses. A total of 176 genes and 93 distinct proteins with diferential expressions were identifed, mainly associated with the molecular functions of catalytic activity and binding. The upregulated expression of heat shock proteins and peroxiredoxin family after acute heat stress is suggestive of responsive machineries to protect cells from apoptosis and oxidative insults. In conclusion, both the transcripts and proteins associated with apoptosis, stress response, and antioxidative defense were upregulated in the SYFs of layer-type hens to alleviate the detrimental efects by acute heat stress. However, the genomic regulations of specifc cell type in response to acute heat stress of SYFs require further investigation. -
CREB-Dependent Transcription in Astrocytes: Signalling Pathways, Gene Profiles and Neuroprotective Role in Brain Injury
CREB-dependent transcription in astrocytes: signalling pathways, gene profiles and neuroprotective role in brain injury. Tesis doctoral Luis Pardo Fernández Bellaterra, Septiembre 2015 Instituto de Neurociencias Departamento de Bioquímica i Biologia Molecular Unidad de Bioquímica y Biologia Molecular Facultad de Medicina CREB-dependent transcription in astrocytes: signalling pathways, gene profiles and neuroprotective role in brain injury. Memoria del trabajo experimental para optar al grado de doctor, correspondiente al Programa de Doctorado en Neurociencias del Instituto de Neurociencias de la Universidad Autónoma de Barcelona, llevado a cabo por Luis Pardo Fernández bajo la dirección de la Dra. Elena Galea Rodríguez de Velasco y la Dra. Roser Masgrau Juanola, en el Instituto de Neurociencias de la Universidad Autónoma de Barcelona. Doctorando Directoras de tesis Luis Pardo Fernández Dra. Elena Galea Dra. Roser Masgrau In memoriam María Dolores Álvarez Durán Abuela, eres la culpable de que haya decidido recorrer el camino de la ciencia. Que estas líneas ayuden a conservar tu recuerdo. A mis padres y hermanos, A Meri INDEX I Summary 1 II Introduction 3 1 Astrocytes: physiology and pathology 5 1.1 Anatomical organization 6 1.2 Origins and heterogeneity 6 1.3 Astrocyte functions 8 1.3.1 Developmental functions 8 1.3.2 Neurovascular functions 9 1.3.3 Metabolic support 11 1.3.4 Homeostatic functions 13 1.3.5 Antioxidant functions 15 1.3.6 Signalling functions 15 1.4 Astrocytes in brain pathology 20 1.5 Reactive astrogliosis 22 2 The transcription