Senescence Induced by RECQL4 Dysfunction Contributes to Rothmund–Thomson Syndrome Features in Mice
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CCR PEDIATRIC ONCOLOGY SERIES CCR Pediatric Oncology Series Recommendations for Childhood Cancer Screening and Surveillance in DNA Repair Disorders Michael F. Walsh1, Vivian Y. Chang2, Wendy K. Kohlmann3, Hamish S. Scott4, Christopher Cunniff5, Franck Bourdeaut6, Jan J. Molenaar7, Christopher C. Porter8, John T. Sandlund9, Sharon E. Plon10, Lisa L. Wang10, and Sharon A. Savage11 Abstract DNA repair syndromes are heterogeneous disorders caused by around the world to discuss and develop cancer surveillance pathogenic variants in genes encoding proteins key in DNA guidelines for children with cancer-prone disorders. Herein, replication and/or the cellular response to DNA damage. The we focus on the more common of the rare DNA repair dis- majority of these syndromes are inherited in an autosomal- orders: ataxia telangiectasia, Bloom syndrome, Fanconi ane- recessive manner, but autosomal-dominant and X-linked reces- mia, dyskeratosis congenita, Nijmegen breakage syndrome, sive disorders also exist. The clinical features of patients with DNA Rothmund–Thomson syndrome, and Xeroderma pigmento- repair syndromes are highly varied and dependent on the under- sum. Dedicated syndrome registries and a combination of lying genetic cause. Notably, all patients have elevated risks of basic science and clinical research have led to important in- syndrome-associated cancers, and many of these cancers present sights into the underlying biology of these disorders. Given the in childhood. Although it is clear that the risk of cancer is rarity of these disorders, it is recommended that centralized increased, there are limited data defining the true incidence of centers of excellence be involved directly or through consulta- cancer and almost no evidence-based approaches to cancer tion in caring for patients with heritable DNA repair syn- surveillance in patients with DNA repair disorders. -
DNA Polymerase : a Unique Multifunctional End-Joining Machine
G C A T T A C G G C A T genes Review DNA Polymerase θ: A Unique Multifunctional End-Joining Machine Samuel J. Black, Ekaterina Kashkina, Tatiana Kent and Richard T. Pomerantz * Fels Institute for Cancer Research, Department of Medical Genetics and Molecular Biochemistry, Temple University Lewis Katz School of Medicine, Philadelphia, PA 19140, USA; [email protected] (S.J.B); [email protected] (E.K.); [email protected] (T.K.) * Correspondence: [email protected]; Tel.: +1-215-707-8991 Academic Editor: Paolo Cinelli Received: 11 August 2016; Accepted: 8 September 2016; Published: 21 September 2016 Abstract: The gene encoding DNA polymerase θ (Polθ) was discovered over ten years ago as having a role in suppressing genome instability in mammalian cells. Studies have now clearly documented an essential function for this unique A-family polymerase in the double-strand break (DSB) repair pathway alternative end-joining (alt-EJ), also known as microhomology-mediated end-joining (MMEJ), in metazoans. Biochemical and cellular studies show that Polθ exhibits a unique ability to perform alt-EJ and during this process the polymerase generates insertion mutations due to its robust terminal transferase activity which involves template-dependent and independent modes of DNA synthesis. Intriguingly, the POLQ gene also encodes for a conserved superfamily 2 Hel308-type ATP-dependent helicase domain which likely assists in alt-EJ and was reported to suppress homologous recombination (HR) via its anti-recombinase activity. Here, we review our current knowledge of Polθ-mediated end-joining, the specific activities of the polymerase and helicase domains, and put into perspective how this multifunctional enzyme promotes alt-EJ repair of DSBs formed during S and G2 cell cycle phases. -
Whole Genome Sequencing in an Acrodermatitis Enteropathica Family from the Middle East
Hindawi Dermatology Research and Practice Volume 2018, Article ID 1284568, 9 pages https://doi.org/10.1155/2018/1284568 Research Article Whole Genome Sequencing in an Acrodermatitis Enteropathica Family from the Middle East Faisel Abu-Duhier,1 Vivetha Pooranachandran,2 Andrew J. G. McDonagh,3 Andrew G. Messenger,4 Johnathan Cooper-Knock,2 Youssef Bakri,5 Paul R. Heath ,2 and Rachid Tazi-Ahnini 4,6 1 Prince Fahd Bin Sultan Research Chair, Department of Medical Lab Technology, Faculty of Applied Medical Science, Prince Fahd Research Chair, University of Tabuk, Tabuk, Saudi Arabia 2Department of Neuroscience, SITraN, Te Medical School, University of Shefeld, Shefeld S10 2RX, UK 3Department of Dermatology, Royal Hallamshire Hospital, Shefeld S10 2JF, UK 4Department of Infection, Immunity and Cardiovascular Disease, Te Medical School, University of Shefeld, Shefeld S10 2RX, UK 5Biology Department, Faculty of Science, University Mohammed V Rabat, Rabat, Morocco 6Laboratory of Medical Biotechnology (MedBiotech), Rabat Medical School and Pharmacy, University Mohammed V Rabat, Rabat, Morocco Correspondence should be addressed to Rachid Tazi-Ahnini; [email protected] Received 4 April 2018; Revised 28 June 2018; Accepted 26 July 2018; Published 7 August 2018 Academic Editor: Gavin P. Robertson Copyright © 2018 Faisel Abu-Duhier et al. Tis is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. We report a family from Tabuk, Saudi Arabia, previously screened for Acrodermatitis Enteropathica (AE), in which two siblings presented with typical features of acral dermatitis and a pustular eruption but difering severity. -
Gene Section Review
Atlas of Genetics and Cytogenetics in Oncology and Haematology OPEN ACCESS JOURNAL INIST-CNRS Gene Section Review EEF1G (Eukaryotic translation elongation factor 1 gamma) Luigi Cristiano Aesthetic and medical biotechnologies research unit, Prestige, Terranuova Bracciolini, Italy; [email protected] Published in Atlas Database: March 2019 Online updated version : http://AtlasGeneticsOncology.org/Genes/EEF1GID54272ch11q12.html Printable original version : http://documents.irevues.inist.fr/bitstream/handle/2042/70656/03-2019-EEF1GID54272ch11q12.pdf DOI: 10.4267/2042/70656 This work is licensed under a Creative Commons Attribution-Noncommercial-No Derivative Works 2.0 France Licence. © 2020 Atlas of Genetics and Cytogenetics in Oncology and Haematology Abstract Keywords EEF1G; Eukaryotic translation elongation factor 1 Eukaryotic translation elongation factor 1 gamma, gamma; Translation; Translation elongation factor; alias eEF1G, is a protein that plays a main function protein synthesis; cancer; oncogene; cancer marker in the elongation step of translation process but also covers numerous moonlighting roles. Considering its Identity importance in the cell it is found frequently Other names: EF1G, GIG35, PRO1608, EEF1γ, overexpressed in human cancer cells and thus this EEF1Bγ review wants to collect the state of the art about EEF1G, with insights on DNA, RNA, protein HGNC (Hugo): EEF1G encoded and the diseases where it is implicated. Location: 11q12.3 Figure. 1. Splice variants of EEF1G. The figure shows the locus on chromosome 11 of the EEF1G gene and its splicing variants (grey/blue box). The primary transcript is EEF1G-001 mRNA (green/red box), but also EEF1G-201 variant is able to codify for a protein (reworked from https://www.ncbi.nlm.nih.gov/gene/1937; http://grch37.ensembl.org; www.genecards.org) Atlas Genet Cytogenet Oncol Haematol. -
RAPADILINO RECQL4 Mutant Protein Lacks Helicase and Atpase Activity
Biochimica et Biophysica Acta 1822 (2012) 1727–1734 Contents lists available at SciVerse ScienceDirect Biochimica et Biophysica Acta journal homepage: www.elsevier.com/locate/bbadis RAPADILINO RECQL4 mutant protein lacks helicase and ATPase activity Deborah L. Croteau, Marie L. Rossi, Jennifer Ross, Lale Dawut, Christopher Dunn, Tomasz Kulikowicz, Vilhelm A. Bohr ⁎ Laboratory of Molecular Gerontology, National Institute on Aging, Baltimore, MD, 21224, USA article info abstract Article history: The RecQ family of helicases has been shown to play an important role in maintaining genomic stability. In Received 18 May 2012 humans, this family has five members and mutations in three of these helicases, BLM, WRN and RECQL4, are Received in revised form 17 July 2012 associated with disease. Alterations in RECQL4 are associated with three diseases, Rothmund–Thomson Accepted 26 July 2012 syndrome, Baller–Gerold syndrome, and RAPADILINO syndrome. One of the more common mutations found in Available online 31 July 2012 RECQL4 is the RAPADILINO mutation, c.1390+2delT which is a splice-site mutation leading to an in-frame skip- ping of exon 7 resulting in 44 amino acids being deleted from the protein (p.Ala420–Ala463del). In order to char- Keywords: fi RecQ helicase acterize the RAPADILINO RECQL4 mutant protein, it was expressed in bacteria and puri ed using an established RECQL4 protocol. Strand annealing, helicase, and ATPase assays were conducted to characterize the protein's activities RAPADILINO relative to WT RECQL4. Here we show that strand annealing activity in the absence of ATP is unchanged from Rothmund–Thomson syndrome that of WT RECQL4. However, the RAPADILINO protein variant lacks helicase and ssDNA-stimulated ATPase ATPase activity. -
Nationwide Survey of Baller‑Gerold Syndrome in Japanese Population
3222 MOLECULAR MEDICINE REPORTS 15: 3222-3224, 2017 Nationwide survey of Baller‑Gerold syndrome in Japanese population HIDEO KANEKO1, RIE IZUMI2, HIROTSUGU ODA3, OSAMU OHARA4, KIYOKO SAMESHIMA5, HIDENORI OHNISHI6, TOSHIYUKI FUKAO6 and MICHINORI FUNATO1 1Department of Clinical Research, National Hospital Organization Nagara Medical Center, Gifu 502-8558; 2Niigata Prefecture Hamagumi Medical Rehabilitation Center for Children, Niigata 951-8121; 3Laboratory for Integrative Genomics, RIKEN Center for Integrative Medical Sciences (RIKEN‑IMS), Yokohama, Kanagawa 230-0045; 4Department of Technology Development, Kazusa DNA Research Institute, Kisarazu, Chiba 292-0818; 5Division of Medical Genetics, Gunma Children's Medical Center, Shibukawa, Gunma 377‑8577; 6Department of Pediatrics, Graduate School of Medicine, Gifu University, Gifu 501-1194, Japan Received July 19, 2016; Accepted March 10, 2017 DOI: 10.3892/mmr.2017.6408 Abstract. Baller-Gerold syndrome (BGS) is a rare autosomal mutations of the RECQL4 gene causes Rothmund-Thomson genetic disorder characterized by radial aplasia/hypoplasia syndrome (3,4). and craniosynostosis. The causative gene for BGS encodes However, mutations in the RECQL4 gene have been associ- RECQL4, which belongs to the RecQ helicase family. To ated with two other recessive disorders: One is RAPADILINO understand BGS patients in Japan, a nationwide survey was syndrome (OMIM 266280) which is characterized by radial conducted, which identified 2 families and 3 patients affected hypoplasia, patella hypoplasia and arched plate, diarrhoea and by the syndrome. All the three patients showed radial defects dislocated joints, little size and limb malformation, slender and craniosynostosis. In one patient who showed a dislocated nose and normal intelligence (4). The other is Baller-Gerold joint of the hip and flexion contracture of both the elbow syndrome (BGS) (OMIM 218600) characterized by radial joints and wrists at birth, a homozygous large deletion in the aplasia/hypoplasia and craniosynostosis (5). -
Crystal Structure of the Werner's Syndrome Helicase
bioRxiv preprint doi: https://doi.org/10.1101/2020.05.04.075176; this version posted May 5, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-ND 4.0 International license. Crystal Structure of the Werner’s Syndrome Helicase Joseph A. Newman1, Angeline E. Gavard1, Simone Lieb2, Madhwesh C. Ravichandran2, Katja Hauer2, Patrick Werni2, Leonhard Geist2, Jark Böttcher2, John. R. Engen3, Klaus Rumpel2, Matthias Samwer2, Mark Petronczki2 and Opher Gileadi1,* 1- Structural Genomics Consortium, University of Oxford, ORCRB, Roosevelt Drive, Oxford, United Kingdom. 2- Boehringer Ingelheim RCV GmbH & Co KG, Vienna, Austria. 3- Department of Chemistry and Chemical Biology, Northeastern University, Boston, MA 02115, USA. Abstract Werner syndrome helicase (WRN) plays important roles in DNA repair and the maintenance of genome integrity. Germline mutations in WRN give rise to Werner syndrome, a rare autosomal recessive progeroid syndrome that also features cancer predisposition. Interest in WRN as a therapeutic target has increased massively following the identification of WRN as the top synthetic lethal target for microsatellite instable (MSI) cancers. High throughput screens have identified candidate WRN helicase inhibitors, but the development of potent, selective inhibitors would be significantly enhanced by high-resolution structural information.. In this study we have further characterized the functions of WRN that are required for survival of MSI cancer cells, showing that ATP binding and hydrolysis are required for complementation of siRNA-mediated WRN silencing. A crystal structure of the WRN helicase core at 2.2 Å resolutionfeatures an atypical mode of nucleotide binding with extensive contacts formed by motif VI, which in turn defines the relative positioning of the two RecA like domains. -
Roles of the Werner Syndrome Recq Helicase in DNA Replication
dna repair 7 (2008) 1776–1786 available at www.sciencedirect.com journal homepage: www.elsevier.com/locate/dnarepair Mini-review Roles of the Werner syndrome RecQ helicase in DNA replication Julia M. Sidorova ∗ Department of Pathology, University of Washington, Seattle, WA 98195-7705, USA article info abstract Article history: Congenital deficiency in the WRN protein, a member of the human RecQ helicase family, Received 22 July 2008 gives rise to Werner syndrome, a genetic instability and cancer predisposition disorder with Accepted 23 July 2008 features of premature aging. Cellular roles of WRN are not fully elucidated. WRN has been Published on line 6 September 2008 implicated in telomere maintenance, homologous recombination, DNA repair, and other processes. Here I review the available data that directly address the role of WRN in preserv- Keywords: ing DNA integrity during replication and propose that WRN can function in coordinating Werner syndrome replication fork progression with replication stress-induced fork remodeling. I further dis- RecQ helicase cuss this role of WRN within the contexts of damage tolerance group of regulatory pathways, Human cell culture and redundancy and cooperation with other RecQ helicases. Replication stress Published by Elsevier B.V. Damage tolerance Contents 1. Introduction ................................................................................................................. 1777 1.1. Is S phase prolonged in WRN-deficient cells? ...................................................................... 1777 1.2. What is the mechanism of the S phase extension in the absence of WRN? ...................................... 1778 1.3. Are all forks equal when it comes to WRN? ........................................................................ 1779 1.4. A mechanistic model for WRN role in replication elongation ..................................................... 1779 1.5. WRN and damage tolerance pathways ............................................................................. 1781 1.6. -
Congenital Diseases of DNA Replication: Clinical Phenotypes and Molecular Mechanisms
International Journal of Molecular Sciences Review Congenital Diseases of DNA Replication: Clinical Phenotypes and Molecular Mechanisms Megan Schmit and Anja-Katrin Bielinsky * Department of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis, MN 55455, USA; [email protected] * Correspondence: [email protected] Abstract: Deoxyribonucleic acid (DNA) replication can be divided into three major steps: initiation, elongation and termination. Each time a human cell divides, these steps must be reiteratively carried out. Disruption of DNA replication can lead to genomic instability, with the accumulation of point mutations or larger chromosomal anomalies such as rearrangements. While cancer is the most common class of disease associated with genomic instability, several congenital diseases with dysfunctional DNA replication give rise to similar DNA alterations. In this review, we discuss all congenital diseases that arise from pathogenic variants in essential replication genes across the spectrum of aberrant replisome assembly, origin activation and DNA synthesis. For each of these conditions, we describe their clinical phenotypes as well as molecular studies aimed at determining the functional mechanisms of disease, including the assessment of genomic stability. By comparing and contrasting these diseases, we hope to illuminate how the disruption of DNA replication at distinct steps affects human health in a surprisingly cell-type-specific manner. Keywords: Meier-Gorlin syndrome; natural killer cell deficiency; X-linked pigmentary reticulate disorder; Van Esch-O’Driscoll disease; IMAGe syndrome; FILS syndrome; Rothmund-Thomson syndrome; Baller-Gerold syndrome; RAPADILINO Citation: Schmit, M.; Bielinsky, A.-K. Congenital Diseases of DNA Replication: Clinical Phenotypes and 1. Introduction Molecular Mechanisms. Int. J. Mol. 1.1. Replication Initiation Sci. -
Molecular Targeting and Enhancing Anticancer Efficacy of Oncolytic HSV-1 to Midkine Expressing Tumors
University of Cincinnati Date: 12/20/2010 I, Arturo R Maldonado , hereby submit this original work as part of the requirements for the degree of Doctor of Philosophy in Developmental Biology. It is entitled: Molecular Targeting and Enhancing Anticancer Efficacy of Oncolytic HSV-1 to Midkine Expressing Tumors Student's name: Arturo R Maldonado This work and its defense approved by: Committee chair: Jeffrey Whitsett Committee member: Timothy Crombleholme, MD Committee member: Dan Wiginton, PhD Committee member: Rhonda Cardin, PhD Committee member: Tim Cripe 1297 Last Printed:1/11/2011 Document Of Defense Form Molecular Targeting and Enhancing Anticancer Efficacy of Oncolytic HSV-1 to Midkine Expressing Tumors A dissertation submitted to the Graduate School of the University of Cincinnati College of Medicine in partial fulfillment of the requirements for the degree of DOCTORATE OF PHILOSOPHY (PH.D.) in the Division of Molecular & Developmental Biology 2010 By Arturo Rafael Maldonado B.A., University of Miami, Coral Gables, Florida June 1993 M.D., New Jersey Medical School, Newark, New Jersey June 1999 Committee Chair: Jeffrey A. Whitsett, M.D. Advisor: Timothy M. Crombleholme, M.D. Timothy P. Cripe, M.D. Ph.D. Dan Wiginton, Ph.D. Rhonda D. Cardin, Ph.D. ABSTRACT Since 1999, cancer has surpassed heart disease as the number one cause of death in the US for people under the age of 85. Malignant Peripheral Nerve Sheath Tumor (MPNST), a common malignancy in patients with Neurofibromatosis, and colorectal cancer are midkine- producing tumors with high mortality rates. In vitro and preclinical xenograft models of MPNST were utilized in this dissertation to study the role of midkine (MDK), a tumor-specific gene over- expressed in these tumors and to test the efficacy of a MDK-transcriptionally targeted oncolytic HSV-1 (oHSV). -
Statistical and Bioinformatic Analysis of Hemimethylation Patterns in Non-Small Cell Lung Cancer Shuying Sun1* , Austin Zane2, Carolyn Fulton3 and Jasmine Philipoom4
Sun et al. BMC Cancer (2021) 21:268 https://doi.org/10.1186/s12885-021-07990-7 RESEARCH ARTICLE Open Access Statistical and bioinformatic analysis of hemimethylation patterns in non-small cell lung cancer Shuying Sun1* , Austin Zane2, Carolyn Fulton3 and Jasmine Philipoom4 Abstract Background: DNA methylation is an epigenetic event involving the addition of a methyl-group to a cytosine- guanine base pair (i.e., CpG site). It is associated with different cancers. Our research focuses on studying non-small cell lung cancer hemimethylation, which refers to methylation occurring on only one of the two DNA strands. Many studies often assume that methylation occurs on both DNA strands at a CpG site. However, recent publications show the existence of hemimethylation and its significant impact. Therefore, it is important to identify cancer hemimethylation patterns. Methods: In this paper, we use the Wilcoxon signed rank test to identify hemimethylated CpG sites based on publicly available non-small cell lung cancer methylation sequencing data. We then identify two types of hemimethylated CpG clusters, regular and polarity clusters, and genes with large numbers of hemimethylated sites. Highly hemimethylated genes are then studied for their biological interactions using available bioinformatics tools. Results: In this paper, we have conducted the first-ever investigation of hemimethylation in lung cancer. Our results show that hemimethylation does exist in lung cells either as singletons or clusters. Most clusters contain only two or three CpG sites. Polarity clusters are much shorter than regular clusters and appear less frequently. The majority of clusters found in tumor samples have no overlap with clusters found in normal samples, and vice versa. -
Differential Mechanisms of Tolerance to Extreme Environmental
www.nature.com/scientificreports OPEN Diferential mechanisms of tolerance to extreme environmental conditions in tardigrades Dido Carrero*, José G. Pérez-Silva , Víctor Quesada & Carlos López-Otín * Tardigrades, also known as water bears, are small aquatic animals that inhabit marine, fresh water or limno-terrestrial environments. While all tardigrades require surrounding water to grow and reproduce, species living in limno-terrestrial environments (e.g. Ramazzottius varieornatus) are able to undergo almost complete dehydration by entering an arrested state known as anhydrobiosis, which allows them to tolerate ionic radiation, extreme temperatures and intense pressure. Previous studies based on comparison of the genomes of R. varieornatus and Hypsibius dujardini - a less tolerant tardigrade - have pointed to potential mechanisms that may partially contribute to their remarkable ability to resist extreme physical conditions. In this work, we have further annotated the genomes of both tardigrades using a guided approach in search for novel mechanisms underlying the extremotolerance of R. varieornatus. We have found specifc amplifcations of several genes, including MRE11 and XPC, and numerous missense variants exclusive of R. varieornatus in CHEK1, POLK, UNG and TERT, all of them involved in important pathways for DNA repair and telomere maintenance. Taken collectively, these results point to genomic features that may contribute to the enhanced ability to resist extreme environmental conditions shown by R. varieornatus. Tardigrades are small