Deficient Rd10 Mouse
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Reprogramming Metabolism by Targeting Sirtuin 6 Attenuates Retinal Degeneration
The Journal of Clinical Investigation RESEARCH ARTICLE Reprogramming metabolism by targeting sirtuin 6 attenuates retinal degeneration Lijuan Zhang,1,2,3 Jianhai Du,4 Sally Justus,1,2 Chun-Wei Hsu,1,2 Luis Bonet-Ponce,5 Wen-Hsuan Wu,1,2 Yi-Ting Tsai,1,2 Wei-Pu Wu,1,2 Yading Jia,2 Jimmy K. Duong,6 Vinit B. Mahajan,7 Chyuan-Sheng Lin,8 Shuang Wang,6 James B. Hurley,4 and Stephen H. Tsang1,2,9 1The Jonas Children’s Vision Care and Bernard & Shirlee Brown Glaucoma Laboratory, Department of Ophthalmology, Columbia University, New York, New York, USA. 2Edward S. Harkness Eye Institute, New York-Presbyterian Hospital, New York, New York, USA. 3Shanxi Eye Hospital, affiliated with Shanxi Medical University, Xinghualing, Taiyuan, China. 4Department of Biochemistry and Ophthalmology, University of Washington, Seattle, Washington, USA. 5Section on Retinal Ganglion Cell Biology, Laboratory of Retinal Cell and Molecular Biology, NIH, Bethesda, Maryland, USA. 6Department of Biostatistics, Mailman School of Public Health, Columbia University Medical Center, New York, New York, USA. 7Omics Lab, University of Iowa, Iowa City, Iowa, USA. 8Department of Pathology and Cell Biology, Herbert Irving Comprehensive Cancer Center, College of Physicians and Surgeons of Columbia University, New York, New York, USA. 9Departments of Pathology and Cell Biology, Institute of Human Nutrition, College of Physicians and Surgeons, Columbia University, New York, New York, USA. Retinitis pigmentosa (RP) encompasses a diverse group of Mendelian disorders leading to progressive degeneration of rods and then cones. For reasons that remain unclear, diseased RP photoreceptors begin to deteriorate, eventually leading to cell death and, consequently, loss of vision. -
RPE65 Mutant Dog/ Leber Congenital Amaurosis
Rpe65 mutant dogs Pde6A mutant dogs Cngb1 mutant dogs rAAV RPE65 Mutant Dog/ Leber Congenital Amaurosis Null mutation in Rpe65 retinal function (ERG & dim light vision) Failure of 11-cis retinal supply to photoreceptors (visual cycle) Retina only slow degeneration (S-cones and area centralis degeneration – variable) RPE lipid inclusions 8 Mo 3.5 yr The Visual (Retinoid) Cycle retinal pigment All-trans-retinol epithelium (Vitamin A) RPE65 11-cis-retinal Visual pigments All-trans-retinal rod and cone outer segments All-trans-retinol Gene supplementation therapy for RPE65 Leber Congenital Amaurosis Initial trials in dogs – very successful Outcome in humans Some improvement in visual function Appears to not preserve photoreceptors in longer term Questions Is there preservation of photoreceptors? Why is outcome in humans not so successful? Does RPE65 Gene Therapy Preserve Photoreceptors? Rpe65-/- dogs: Early loss of S-cones Slow LM cone loss Very slow rod loss Exception – region of high density of photoreceptors – rapid loss Gene therapy preservation of photoreceptors Limitations to Human Functional Rescue and Photoreceptor Preservation Hypothesis The dose of gene therapy delivered is a limiting factor for the efficacy of treatment Specific aim To compare the clinical efficacy and the levels of expression of RPE65 protein and the end product of RPE65 function (11-cis retinal) of various doses of RPE65 gene therapy in Rpe65 -/- dogs Methods Tested total dose of 8x108 to 1x1011 vg/eye ERG Scotopic b wave Vision testing % correct choice RPE65 protein expression Dose of gene therapy +/+ 8x108 4x109 2x1010 1x1011 RPE65 GAPDH RPE65 protein expression RPE65/DAPI/ autofluorescence Chromophore levels 11-cis retinal levels undetectable In Rpe65 -/- All-trans retinal Chromophore vs clinical outcomes Scotopic b wave r2 = 0.91 p < 0.0001 Vision testing % correct choice r2 = 0.58 p = 0.02 RPE65 gene expression Human vs. -
A Multistep Bioinformatic Approach Detects Putative Regulatory
BMC Bioinformatics BioMed Central Research article Open Access A multistep bioinformatic approach detects putative regulatory elements in gene promoters Stefania Bortoluzzi1, Alessandro Coppe1, Andrea Bisognin1, Cinzia Pizzi2 and Gian Antonio Danieli*1 Address: 1Department of Biology, University of Padova – Via Bassi 58/B, 35131, Padova, Italy and 2Department of Information Engineering, University of Padova – Via Gradenigo 6/B, 35131, Padova, Italy Email: Stefania Bortoluzzi - [email protected]; Alessandro Coppe - [email protected]; Andrea Bisognin - [email protected]; Cinzia Pizzi - [email protected]; Gian Antonio Danieli* - [email protected] * Corresponding author Published: 18 May 2005 Received: 12 November 2004 Accepted: 18 May 2005 BMC Bioinformatics 2005, 6:121 doi:10.1186/1471-2105-6-121 This article is available from: http://www.biomedcentral.com/1471-2105/6/121 © 2005 Bortoluzzi et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract Background: Searching for approximate patterns in large promoter sequences frequently produces an exceedingly high numbers of results. Our aim was to exploit biological knowledge for definition of a sheltered search space and of appropriate search parameters, in order to develop a method for identification of a tractable number of sequence motifs. Results: Novel software (COOP) was developed for extraction of sequence motifs, based on clustering of exact or approximate patterns according to the frequency of their overlapping occurrences. -
A Real-Time Retinomorphic Simulator Using a Conductance-Based Discrete Neuronal Network
A Real-Time Retinomorphic Simulator Using a Conductance-Based Discrete Neuronal Network Seungbum Baek1;5, Jason K. Eshraghian2;5, Wesley Thio2, Yulia Sandamirskaya3, Herbert H.C. Iu 4 and Wei D. Lu2 1College of Electrical and Computer Engineering, Chungbuk National University, Cheongju 362763, South Korea 2School of Electrical, Electronic and Computer Engineering, University of Michigan, Ann Arbor, MI 48109 USA 3Institute of Neuroinformatics Neuroscience Center Zurich University and ETH Zurich, Switzerland 4School of Electrical, Electronic and Computer Engineering, University of Western Australia, Crawley, WA 6009, Australia 5These authors contributed equally to this manuscript. Abstract—We present an optimized conductance-based retina [2], and fabricating high-performance image sensors that are microcircuit simulator which transforms light stimuli into a on par with the specifications of the retina in terms of power series of graded and spiking action potentials through photo dissipation, dynamic range, and resolution [3]–[7]. At present, transduction. We use discrete retinal neuron blocks based on a collation of single-compartment models and morphologically most bio-inspired image processors trade-off the ability to pass realistic formulations, and successfully achieve a biologically low-frequency content and low spatial resolution, in favor of real-time simulator. This is done by optimizing the numerical practicality. methods employed to solve the system of over 270 nonlinear Beyond hardware, a similar distinction exists between bi- -
Impedes Transport of GRK1 and PDE6 Catalytic Subunits to Photoreceptor Outer Segments
Deletion of PrBP/␦ impedes transport of GRK1 and PDE6 catalytic subunits to photoreceptor outer segments H. Zhang*, S. Li*, T. Doan†, F. Rieke†‡, P. B. Detwiler†, J. M. Frederick*, and W. Baehr*§¶ʈ *John A. Moran Eye Center, University of Utah Health Science Center, Salt Lake City, UT 84132; †Department of Physiology and Biophysics and ‡Howard Hughes Medical Institute, University of Washington, Seattle, WA 98195; and Departments of §Neurobiology and Anatomy and ¶Biology, University of Utah, Salt Lake City, UT 84112 Edited by Jeremy Nathans, Johns Hopkins University School of Medicine, Baltimore, MD, and approved April 11, 2007 (received for review February 23, 2007) The mouse Pde6d gene encodes a ubiquitous prenyl binding chains (5, 7). Posttranslational sorting and targeting of proteins protein, termed PrBP/␦, of largely unknown physiological function. occurs in all cells and is of particular importance in photore- PrBP/␦ was originally identified as a putative rod cGMP phospho- ceptors, which renew their entire outer segments roughly every diesterase (PDE6) subunit in the retina, where it is relatively 10 days (8). Because of compartmentalization of inner and outer abundant. To investigate the consequences of Pde6d deletion in segments and very active metabolism, photoreceptors are re- .retina, we generated a Pde6d؊/؊ mouse by targeted recombina- garded as model cells to study protein trafficking tion. Although manifesting reduced body weight, the Pde6d؊/؊ PrBP/␦, originally thought to be a subunit of PDE6 and termed mouse was viable and fertile and its retina developed normally. PDE␦ (9), was shown recently to be a prenyl binding protein (10, Immunocytochemistry showed that farnesylated rhodopsin kinase 11) and subsequently named PrBP/␦ to reflect this fact (12). -
Novel Variants in Phosphodiesterase 6A and Phosphodiesterase 6B Genes and Its Phenotypes in Patients with Retinitis Pigmentosa in Chinese Families
Novel Variants in Phosphodiesterase 6A and Phosphodiesterase 6B Genes and Its Phenotypes in Patients With Retinitis Pigmentosa in Chinese Families Yuyu Li Beijing Tongren Hospital, Capital Medical University Ruyi Li Beijing Tongren Hospital, Capital Medical University Hehua Dai Beijing Tongren Hospital, Capital Medical University Genlin Li ( [email protected] ) Beijing Tongren Hospital, Capital Medical University Research Article Keywords: Retinitis pigmentosa, PDE6A,PDE6B, novel variants, phenotypes Posted Date: May 20th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-507306/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/15 Abstract Background: Retinitis pigmentosa (RP) is a genetically heterogeneous disease with 65 causative genes identied to date. However, only approximately 60% of RP cases genetically solved to date, predicating that many novel disease-causing variants are yet to be identied. The purpose of this study is to identify novel variants in phosphodiesterase 6A and phosphodiesterase 6B genes and present its phenotypes in patients with retinitis pigmentosa in Chinese families. Methods: Five retinitis pigmentosa patients with PDE6A variants and three with PDE6B variants were identied through a hereditary eye disease enrichment panel (HEDEP), all patients’ medical and ophthalmic histories were collected, and ophthalmological examinations were performed, then we analysed the possible causative variants. Sanger sequencing was used to verify the variants. Results: We identied 20 mutations sites in eight patients, two heterozygous variants were identied per patient of either PDE6A or PDE6B variants, others are from CA4, OPTN, RHO, ADGRA3 variants. We identied two novel variants in PDE6A: c.1246G > A;p.(Asp416Asn) and c.1747T > A;p.(Tyr583Asn). -
Gene Therapy Provides Long-Term Visual Function in a Pre-Clinical Model of Retinitis Pigmentosa Katherine J. Wert Submitted in P
Gene Therapy Provides Long-term Visual Function in a Pre-clinical Model of Retinitis Pigmentosa Katherine J. Wert Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy under the Executive Committee of the Graduate School of Arts and Sciences COLUMBIA UNIVERSITY 2013 © 2013 Katherine J. Wert All rights reserved ABSTRACT Gene Therapy Provides Long-term Visual Function in a Pre-clinical Model of Retinitis Pigmentosa Katherine J. Wert Retinitis pigmentosa (RP) is a photoreceptor neurodegenerative disease. Patients with RP present with the loss of their peripheral visual field, and the disease will progress until there is a full loss of vision. Approximately 36,000 cases of simplex and familial RP worldwide are caused by a mutation in the rod-specific cyclic guanosine monophosphate phosphodiesterase (PDE6) complex. However, despite the need for treatment, mouse models with mutations in the alpha subunit of PDE6 have not been characterized beyond 1 month of age or used to test the pre- clinical efficacy of potential therapies for human patients with RP caused by mutations in PDE6A. We first proposed to establish the temporal progression of retinal degeneration in a mouse model with a mutation in the alpha subunit of PDE6: the Pde6anmf363 mouse. Next, we developed a surgical technique to enable us to deliver therapeutic treatments into the mouse retina. We then hypothesized that increasing PDE6α levels in the Pde6anmf363 mouse model, using an AAV2/8 gene therapy vector, could improve photoreceptor survival and retinal function when delivered before the onset of degeneration. Human RP patients typically will not visit an eye care professional until they have a loss of vision, therefore we further hypothesized that this gene therapy vector could improve photoreceptor survival and retinal function when delivered after the onset of degeneration, in a clinically relevant scenario. -
It Takes Two Transducins to Activate the Cgmp-Phosphodiesterase 6 in Retinal Rods Rsob.Royalsocietypublishing.Org Bilal M
It takes two transducins to activate the cGMP-phosphodiesterase 6 in retinal rods rsob.royalsocietypublishing.org Bilal M. Qureshi1,†,‡, Elmar Behrmann1,†,}, Johannes Scho¨neberg2,jj, Justus Loerke1,Jo¨rg Bu¨rger1, Thorsten Mielke1,3, Jan Giesebrecht1,§, Frank Noe´2, Trevor D. Lamb4, Klaus Peter Hofmann1,5, Christian M. T. Spahn1 and Martin Heck1 Research 1Institut fu¨r Medizinische Physik und Biophysik, Charite´ – Universita¨tsmedizin Berlin, corporate member Cite this article: Qureshi BM et al. 2018 It of Freie Universita¨t Berlin, Humboldt-Universita¨t zu Berlin, and Berlin Institute of Health, Berlin, Germany 2Department of Mathematics, Computer Science and Bioinformatics, Freie Universita¨t Berlin, Berlin, Germany takes two transducins to activate the cGMP- 3Microscopy and Cryo Electron Microscopy Group, Max-Planck Institut fu¨r Molekulare Genetik, Berlin, Germany phosphodiesterase 6 in retinal rods. Open Biol. 4Eccles Institute of Neuroscience, John Curtin School of Medical Research, Australian National University, 8: 180075. Canberra, Australian Capital Territory 2600, Australia 5 http://dx.doi.org/10.1098/rsob.180075 Zentrum fu¨r Biophysik und Bioinformatik, Humboldt-Universita¨t zu Berlin, Berlin, Germany BMQ, 0000-0002-0153-7729; TDL, 0000-0003-0299-6115; MH, 0000-0003-0847-5038 Received: 28 April 2018 Accepted: 6 July 2018 Among cyclic nucleotide phosphodiesterases (PDEs), PDE6 is unique in serving as an effector enzyme in G protein-coupled signal transduction. In Subject Area: retinal rods and cones, PDE6 is membrane-bound and activated to hydrolyse biochemistry/biophysics/structural biology its substrate, cGMP, by binding of two active G protein a-subunits (Ga*). To investigate the activation mechanism of mammalian rod PDE6, we Keywords: have collected functional and structural data, and analysed them by reac- PDE6, visual signal transduction, coincidence tion–diffusion simulations. -
Clinical Laboratory Services
Final Adoption March 19, 2021 101 CMR: EXECUTIVE OFFICE OF HEALTH AND HUMAN SERVICES 101 CMR 320.00: CLINICAL LABORATORY SERVICES Section 320.01: General Provisions 320.02: Definitions 320.03: Covered and Excluded Billing Situations 320.04: General Rate Provisions and Maximum Fees 320.05: Allowable Fees 320.06: Filing and Reporting Requirements 320.07: Severability 320.01: General Provisions (1) Scope and Purpose. 101 CMR 320.00 governs the payment rates for clinical laboratory services rendered to publicly aided individuals. The rates set forth in 101 CMR 320.00 do not apply to individuals covered by M.G.L. c. 152 (the Workers’ Compensation Act). Rates for services rendered to such individuals are set forth in 114.3 CMR 40.00: Rates for Services Under M.G.L. c. 152, Worker’s Compensation Act. (2) Applicable Dates of Service. Rates contained in 101 CMR 320.00 apply for dates of service provided on or after January 1, 2021. (3) Coverage. The payment rates in 101 CMR 320.00 are full compensation for clinical laboratory services rendered to publicly aided individuals. (4) Coding Updates and Corrections. EOHHS may publish procedure code updates and corrections in the form of an administrative bulletin. Updates may reference coding systems including but not limited to the American Medical Association’s Current Procedural Terminology (CPT). The publication of such updates and corrections lists (a) codes for which only the code numbers changed, with the corresponding cross-references between existing and new codes; (b) deleted codes for which there are no corresponding new codes; and (c) codes for entirely new services that require pricing. -
Genetic Variation in Phosphodiesterase (PDE) 7B in Chronic Lymphocytic Leukemia: Overview of Genetic Variants of Cyclic Nucleotide Pdes in Human Disease
Journal of Human Genetics (2011) 56, 676–681 & 2011 The Japan Society of Human Genetics All rights reserved 1434-5161/11 $32.00 www.nature.com/jhg ORIGINAL ARTICLE Genetic variation in phosphodiesterase (PDE) 7B in chronic lymphocytic leukemia: overview of genetic variants of cyclic nucleotide PDEs in human disease Ana M Peiro´ 1,2, Chih-Min Tang1, Fiona Murray1,3, Lingzhi Zhang1, Loren M Brown1, Daisy Chou1, Laura Rassenti4, Thomas A Kipps3,4 and Paul A Insel1,3,4 Expression of cyclic adenosine monophosphate-specific phosphodiesterase 7B (PDE7B) mRNA is increased in patients with chronic lymphocytic leukemia (CLL), thus suggesting that variation may occur in the PDE7B gene in CLL. As genetic variation in other PDE family members has been shown to associate with numerous clinical disorders (reviewed in this manuscript), we sought to identify single-nucleotide polymorphisms (SNPs) in the PDE7B gene promoter and coding region of 93 control subjects and 154 CLL patients. We found that the PDE7B gene has a 5¢ non-coding region SNP À347C4T that occurs with similar frequency in CLL patients (1.9%) and controls (2.7%). Tested in vitro, À347C4T has less promoter activity than a wild-type construct. The low frequency of this 5¢ untranslated region variant indicates that it does not explain the higher PDE7B expression in patients with CLL but it has the potential to influence other settings that involve a role for PDE7B. Journal of Human Genetics (2011) 56, 676–681; doi:10.1038/jhg.2011.80; published online 28 July 2011 Keywords: cAMP; chronic lymphocytic -
G Protein-Coupled Receptors
www.aladdin-e.com Address:800 S Wineville Avenue, Ontario, CA 91761,USA Website:www.aladdin-e.com Email USA: [email protected] Email EU: [email protected] Email Asia Pacific: [email protected] G PROTEIN-COUPLED RECEPTORS Overview: The completion of the Human Genome Project allowed the identification of a large family of proteins with a common motif of seven groups of 20–24 hydrophobic amino acids arranged as a-helices. Approximately 800 of these seven transmembrane (7TM) receptors have been identified of which over 300 are non-olfactory receptors (see Fredriksson et al., 2003; Lagerstrom and Schioth, 2008). Subdivision on the basis of sequence homology allows the definition of rhodopsin, secretin, adhesion, glutamate and Frizzled receptor families. NC-IUPHAR recognizes Classes A, B, and C, which equate to the rhodopsin, secretin, and glutamate receptor families. The nomenclature of 7TM receptors is commonly used interchangeably with G protein-coupled receptors (GPCR), although the former nomenclature recognises signalling of 7TM receptors through pathways not involving G proteins. For example, adiponectin and membrane progestin receptors have some sequence homology to 7TM receptors but signal independently of G proteins and appear to reside in membranes in an inverted fashion compared to conventional GPCR. Additionally, the NPR-C natriuretic peptide receptor (see Page S195) has a single transmembrane domain structure, but appears to couple to G proteins to generate cellular responses. The 300+ non-olfactory GPCR are the targets for the majority of drugs in clinical usage (Overington et al., 2006), although only a minority of these receptors are exploited therapeutically. -
G Protein-Coupled Receptors
G PROTEIN-COUPLED RECEPTORS Overview:- The completion of the Human Genome Project allowed the identification of a large family of proteins with a common motif of seven groups of 20-24 hydrophobic amino acids arranged as α-helices. Approximately 800 of these seven transmembrane (7TM) receptors have been identified of which over 300 are non-olfactory receptors (see Frederikson et al., 2003; Lagerstrom and Schioth, 2008). Subdivision on the basis of sequence homology allows the definition of rhodopsin, secretin, adhesion, glutamate and Frizzled receptor families. NC-IUPHAR recognizes Classes A, B, and C, which equate to the rhodopsin, secretin, and glutamate receptor families. The nomenclature of 7TM receptors is commonly used interchangeably with G protein-coupled receptors (GPCR), although the former nomenclature recognises signalling of 7TM receptors through pathways not involving G proteins. For example, adiponectin and membrane progestin receptors have some sequence homology to 7TM receptors but signal independently of G-proteins and appear to reside in membranes in an inverted fashion compared to conventional GPCR. Additionally, the NPR-C natriuretic peptide receptor has a single transmembrane domain structure, but appears to couple to G proteins to generate cellular responses. The 300+ non-olfactory GPCR are the targets for the majority of drugs in clinical usage (Overington et al., 2006), although only a minority of these receptors are exploited therapeutically. Signalling through GPCR is enacted by the activation of heterotrimeric GTP-binding proteins (G proteins), made up of α, β and γ subunits, where the α and βγ subunits are responsible for signalling. The α subunit (tabulated below) allows definition of one series of signalling cascades and allows grouping of GPCRs to suggest common cellular, tissue and behavioural responses.