DOCSLIB.ORG

Epigenetics Research Reports

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Epigenetics Research Reports 2018 Babraham Institute Annual Research Report Epigenetics 330-41 Epigenetics Inside cells, genetic information stored in DNA is packaged by proteins into a structure called chromatin. Epigenetics is the study of chemical modifications to DNA and to chromatin and the effects that these modifications have on genome function. Epigenetic marks are involved in the creation of different types of cells from stem cells and epigenetic changes over time are associated with ageing. Epigenetic marks also provide a form of cellular memory, recording certain information about past events and potentially carrying it between parent and child. Our work in this area aims to enhance our understanding of how epigenetics shapes human development and affects healthy ageing by examining: n How stem cells develop into different types of cells n How subtle epigenetic differences influence cell diversity n The impacts of diet on epigenetics, health and ageing n The inheritance of epigenetic memory between generations n How life events affect biological ageing through the epigenetic clock n New approaches and technologies to drive further progress 30 Group leaders Wolf Olivia Myriam Jon Gavin Peter Stefan Reik Casanueva Hemberger Houseley Kelsey Rugg-Gunn Schoenfelder 31 Epigenetics Single-cell epigenome landscape of development and ageing We are interested in epigenetic single cell. Our collaborators have mechanisms in mammalian developed computational methods Selected Impact Activities development and ageing. Epigenetic by which biologically meaningful n Members of the group formed Wolf Reik marks are able to regulate gene relationships between the regulatory a core part in developing and Programme leader expression and can behave as a form layers can be identified. In cells that delivering the Institute’s exhibit: of memory that records the history of exit from pluripotency and prepare for Race Against the Ageing Clock at Group members a cell. These marks include chemical differentiation, we made the surprising the 2018 Royal Society Summer Senior research scientists: changes to DNA or DNA-associated observation that cells become hugely Science Exhibition. Stephen Clark proteins. We are particularly interested heterogeneous in their methylation n Wolf Reik was featured in an Wendy Dean in the epigenetic rules that govern cell patterns especially in enhancers, and this article on big data ‘How big data is Melanie Eckersley-Maslin fate decisions in early development, and may be associated with transcriptional Fatima Santos changing science’ for the Wellcome how cell fate degrades during ageing. heterogeneity (or noise) which may help Ferdinand Von Meyenn Trust’s Mosaic platform, which Our research uses single-cell sequencing with cell fate decisions. We are also aiming (Left in 2018) was subsequently featured in methods to investigate cell fate to connect epigenetic marks in enhancers Research fellow: the Independent online on 11th decisions at the level of individual cells. with histone dynamics which may be Carine Stapel November, reaching over 22M (Started 2018) important for dynamic gene regulation. Current Aims people. Postdoctoral researchers: The group’s research focuses on Irina Abnizova n A visiting employee from Shift understanding how cell fate decisions are Rebecca Berrens (Left in 2018) Biosciences has been based in our Poppy Gould (Left in 2018) first programmed or primed, and which lab over the past year to apply Irene Hernando Herraez epigenetic layers this involves. We would the lab’s epigenetic ageing clock Nelly Olova then like to know which cell signalling- model to drug discovery. Aled Parry (Started in 2018) induced epigenetic rearrangements Solenn Patalano occur during fate change. Finally, we are PhD students: exploring whether epigenetic memory Celia Alda keeps cell identity of fully differentiated Diljeet Gill Oana Kubinyecz cells intact for the rest of our lives (or at (Started in 2018) least until we start to age). We are also Georgia Lea working on identifying DNA binding Tim Lohoff proteins which are involved in epigenetic Juliette Pearce priming of enhancers or promoters for Julia Spindel future lineage-specific gene expression. Research assistant: Mouse embryonic stem cells (ESCs) stained for DNA Laura Benson Progress in 2018 methylation, and pseudo-coloured according to (Started in 2018) In order to address these questions we signal intensity (higher signal - red; lowest - blue), Visiting scientists: are developing single-cell multi-omics revealing the heterogeneity of this epigenetic mark. Romina Durigon sequencing approaches which can reveal (Started in 2018) molecular hierarchies involved in fate decision-making. Our most advanced method combines sequencing of the transcriptome, the methylome, and chromatin accessibility from the same Publications www.babraham.ac.uk/our-research/epigenetics/wolf-reik @ReikLab n Rulands, S. et al. (2018) Genome-scale oscillations in DNA methylation during exit from pluripotency. Cell Syst. 7(1):63-76 n Clark, S.J. et al. (2018) scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells. Nat. Commun. 9(1):781 n Raiber, E.A. et al. (2018) 5-Formylcytosine organizes nucleosomes and forms Schiff base interactions with histones in mouse embryonic stem cells. Nat. Chem. 10:1258-1266 32 Understanding the interplay between stress and metabolism during early stages of ageing The discovery that genes control 2. How lipid and energy metabolism longevity has been quite significant for interplay with signalling pathways that the understanding of ageing because mediate healthy ageing. Metabolism is Olivia Casanueva it changed the view from a gradual a key mediator of longevity, however stochastic process, to a genetically its complexity makes it difficult to Group members controlled process that we can interfere study within the particular context Senior research assistant: with and potentially slow down. Since of ageing. With this goal in mind, we Sharlene Murdoch then, thousands of genes and conditions have developed computational tools to have been found to influence lifespan, Postdoctoral research study metabolic fluxes during ageing. with many of them controlling the way scientists: Progress in 2018 in which organisms deal with external Laetitia Chauve n We launched WormJam, a community- Cheryl Li (Left 2018) challenges brought by stress and driven platform that improved the Celia Raimondi nutrition. Such findings underscore the status of the existing model of C. elegans Boo Virk (Left 2018) key interplay between genes and the C. elegans worms labelled with a fluorescent protein by reconciling and manually curating environment and may explain the high and imaged using a confocal microscope. C. elegans PhD students: its metabolic pathways into a single Janna Hastings degree of discordance among identical is a really useful system for our research because we consensus model (refs 1 & 3). Abraham Mains (Left 2018) twins. Our lab’s interest is to understand can monitor fluorescent reporters of gene expression in vivo and study inter-individual variability in stress Manusnan Suriyalaksh the non-genetic influences on lifespan n We also discussed the relevance of response gene expression in isogenic individuals. Research assistants: and stress related phenotypes using these approaches in Current Opinions Francesca Hodge genetically identical lab strains of in Systems Biology (Hastings, in print), Sheikh Mukhtar C.elegans as a model organism. pointing at one of the key challenges Selected Impact Activities that we face when studying ageing with n The group was involved in several Visiting students: Current Aims these tools, namely that the modelling public engagement events Fatemeh Masoudzadeh Our overarching aim is to understand the tools available are optimised for throughout 2018, including being Pia Todtenhaupt (Left in 2018) molecular details of ageing and to discover animals or cells that are in the process part of the team that developed new ways to slow or even reverse the Other visitors: of growing, which is not happening in and presented the Institute’s Rebecca Aldunate ageing process. With that goal in mind, we aged animals. ‘Race Against the Ageing Clock’ (Left in 2018) use C. elegans to understand: exhibit at the Royal Society Rob Jelier (Left in 2018) n Confronted with this challenge, we 1. The significance of non-genetically Summer Exhibition, and sharing re-optimised the modelling tool by encoded variability in the expression the Institute’s science at the driving information from multi-omic of genes that respond to external cues Cambridge Science Festival and sources (both transcriptomics and such as temperature and nutrients. We events held as part of the LifeLab metabolomics) and were able to are interesting in finding how early project for European Researchers’ optimise this tool to study metabolic molecular differences in the way worms Night. fluxes during ageing (2). This re- respond to stress can influence and be optimisation represents a significant n Lab members were involved in predictive of lifespan. technical advance for the field and will organising the second EU-LIFE allow more accurate predictions of postdoc retreat. metabolic fluxes during the course of n The lab coordinates the ageing. organisation of local area Cambridge worm meetings. Publications www.babraham.ac.uk/our-research/epigenetics/olivia-casanueva n Witting, M. et al. (2018) Modeling meets metabolomics - The WormJam consensus model as basis for metabolic
Load more

Recommended publications
  • The for Report 07-08
    THE CENTER FOR INTEGRATIVE GENOMICS REPORT 07-08 www.unil.ch/cig Table of Contents INTRODUCTION 2 The CIG at a glance 2 The CIG Scientific Advisory Committee 3 Message from the Director 4 RESEARCH 6 Richard Benton Chemosensory perception in Drosophila: from genes to behaviour 8 Béatrice Desvergne Networking activity of PPARs during development and in adult metabolic homeostasis 10 Christian Fankhauser The effects of light on plant growth and development 12 Paul Franken Genetics and energetics of sleep homeostasis and circadian rhythms 14 Nouria Hernandez Mechanisms of basal and regulated RNA polymerase II and III transcription of ncRNA in mammalian cells 16 Winship Herr Regulation of cell proliferation 18 Henrik Kaessmann Mammalian evolutionary genomics 20 Sophie Martin Molecular mechanisms of cell polarization 22 Liliane Michalik Transcriptional control of tissue repair and angiogenesis 24 Alexandre Reymond Genome structure and expression 26 Andrzej Stasiak Functional transitions of DNA structure 28 Mehdi Tafti Genetics of sleep and the sleep EEG 30 Bernard Thorens Molecular and physiological analysis of energy homeostasis in health and disease 32 Walter Wahli The multifaceted roles of PPARs 34 Other groups at the Génopode 37 CORE FACILITIES 40 Lausanne DNA Array Facility (DAFL) 42 Protein Analysis Facility (PAF) 44 Core facilities associated with the CIG 46 EDUCATION 48 Courses and lectures given by CIG members 50 Doing a PhD at the CIG 52 Seminars and symposia 54 The CIG annual retreat 62 The CIG and the public 63 Artist in residence at the CIG 63 PEOPLE 64 1 Introduction The Center for IntegratiVE Genomics (CIG) at A glance The Center for Integrative Genomics (CIG) is the newest depart- ment of the Faculty of Biology and Medicine of the University of Lausanne (UNIL).
    [Show full text]
  • Epigenetics, Obesity and Metabolism
    Epigenetics, Obesity and Metabolism Wellcome Genome Campus Conference Centre Hinxton, Cambridge, UK October 11-14, 2015 Conference Program Sunday, October 11 14:00 – 15:00 Registration 15:00 Welcome and introductions Nessa Carey & Wolf Reik Session 1: Introduction into the three fields Chair: Wolf Reik 15:00 – 15:45 Adrian Bird (University of Edinburgh, UK) DNA methylation and the brain 15:45 – 16:30 Stephen O'Rahilly (University of Cambridge, UK) Metabolic Disease: lessons from human genetics 16:30 – 17:15 Jens Bruning (Max Planck Institute, Germany) Neonatal insulin action impairs hypothalamic neurocircuit formation in response to maternal high-fat feeding 17:15 – 17:30 Abcam 17:30 – 19:30 Poster Session and welcome reception Dinner Monday, October 12 07:30 – 09:00 Breakfast Session 2: How circadian rhythms link with, and are linked by, the three topics Chair: Stephen O’Rahily and Jens Bruning 09:30 – 10:05 Wolfgang Wagner (Helmholtz Institute for Biomedical Engineering, Germany) DNA Methylation changes in replicative senescence and aging 10:05 – 10:40 Sung Hee Baek (Seoul National University, South Korea) Phosphorylation of LSD1 by PKCalpha is crucial for circadian rhythmicity and phase resetting 10:40 – 10:55 Guillaume Rey (University of Cambridge, UK) Central carbon metabolism regulates circadian oscillations Break 11:30 – 12:05 Andrew Loudon (University of Manchester, UK) The generation of the seasonal rhythm: role of circadian clock genes and epigenetics in the circannual clockwork 12:05 – 12:40 Ueli Schibler (University of Geneva,
    [Show full text]
  • Molecular Characterization of the T(4;9)12Gso Mutation and Analysis of the Associated Fitness, Skeletal, and Lymphoproliferative Phenotypes
    University of Tennessee, Knoxville TRACE: Tennessee Research and Creative Exchange Doctoral Dissertations Graduate School 8-2002 Molecular Characterization of the T(4;9)12Gso Mutation and Analysis of the Associated Fitness, Skeletal, and Lymphoproliferative Phenotypes Laura Ray Chittenden University of Tennessee - Knoxville Follow this and additional works at: https://trace.tennessee.edu/utk_graddiss Part of the Biomedical Engineering and Bioengineering Commons Recommended Citation Chittenden, Laura Ray, "Molecular Characterization of the T(4;9)12Gso Mutation and Analysis of the Associated Fitness, Skeletal, and Lymphoproliferative Phenotypes. " PhD diss., University of Tennessee, 2002. https://trace.tennessee.edu/utk_graddiss/2105 This Dissertation is brought to you for free and open access by the Graduate School at TRACE: Tennessee Research and Creative Exchange. It has been accepted for inclusion in Doctoral Dissertations by an authorized administrator of TRACE: Tennessee Research and Creative Exchange. For more information, please contact [email protected]. To the Graduate Council: I am submitting herewith a dissertation written by Laura Ray Chittenden entitled "Molecular Characterization of the T(4;9)12Gso Mutation and Analysis of the Associated Fitness, Skeletal, and Lymphoproliferative Phenotypes." I have examined the final electronic copy of this dissertation for form and content and recommend that it be accepted in partial fulfillment of the requirements for the degree of Doctor of Philosophy, with a major in Biomedical Engineering.
    [Show full text]
  • A N N U a L R E P O R T 2 0
    0 1 0 2 Acknowledgements T R HFSPO is grateful for the support of the following organizations: O P Australia E R National Health and Medical Research Council (NHMRC) L Canada A Canadian Institute of Health Research (CIHR) U Natural Sciences and Engineering Research Council (NSERC) N European Union N European Commission - A Directorate General Information Society (DG INFSO) European Commission - Directorate General Research (DG RESEARCH) France Communauté Urbaine de Strasbourg (CUS) Ministère des Affaires Etrangères et Européennes (MAEE) Ministère de l’Enseignement Supérieur et de la Recherche (MESR) Région Alsace Germany Federal Ministry of Education and Research (BMBF) India Department of Biotechnology (DBT), Ministry of Science and Technology Italy Ministry of Education, University and Research (CNR) Japan Ministry for Economy, Trade and Industry (METI) Ministry of Education, Culture, Sports, Science and Technology (MEXT) Republic of Korea Ministry of Education, Science and Technology (MEST) New Zealand Health Research Council (HRC) Norway Research Council of Norway (RCN) Switzerland State Secretariat for Education and Research (SER) United Kingdom The International Human Frontier Science Biotechnology and Biological Sciences Research Program Organization (HFSPO) Council (BBSRC) 12 quai Saint Jean - BP 10034 Medical Research Council (MRC) 67080 Strasbourg CEDEX - France Fax. +33 (0)3 88 32 88 97 United States of America e-mail: [email protected] National Institutes of Health (NIH) Web site: www.hfsp.org National Science Foundation (NSF) Japanese web site: http://jhfsp.jsf.or.jp HUMAN FRONTIER SCIENCE PROGRAM The Human Frontier Science Program is unique, supporting international collaboration to undertake innovative, risky, basic research at the frontiers of the life sciences.
    [Show full text]
  • Highly Multiplexed Spatially Resolved Gene Expression Profiling of Mouse Organogenesis
    bioRxiv preprint doi: https://doi.org/10.1101/2020.11.20.391896; this version posted November 21, 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-NC 4.0 International license. Highly multiplexed spatially resolved gene expression profiling of mouse organogenesis T. Lohoff1,2,3*, S. Ghazanfar4*, A. Missarova4,5‡, N. Koulena6‡, N. Pierson6‡, J.A. Griffiths4^, E.S. Bardot7, C.-H.L. Eng6, R.C.V. Tyser8, R. Argelaguet5, C. Guibentif1,9,10, S. Srinivas8, J. Briscoe11, B.D. Simons1,12,13, A.-K. Hadjantonakis7, B. Göttgens1,9, W. Reik1,3,14,15†, J. Nichols1,2†, L. Cai6†, J.C. Marioni4,5,15†* 1 Wellcome-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK 2 Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, UK 3 Epigenetics Programme, Babraham Institute, Cambridge, UK 4 Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK 5 European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK 6 Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA 7 Developmental Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA 8 Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, UK 9 Department of Haematology, University of
    [Show full text]
  • Phylogenetic and Epigenetic Footprinting of the Putative Enhancers of the Peg3 Domain
    RESEARCH ARTICLE Phylogenetic and Epigenetic Footprinting of the Putative Enhancers of the Peg3 Domain Joomyeong Kim*,AnYe Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803, United States of America * [email protected] Abstract The Peg3 (Paternally Expressed Gene 3) imprinted domain is predicted to be regulated through a large number of evolutionarily conserved regions (ECRs) that are localized within a11111 its middle 200-kb region. In the current study, we characterized these potential cis-regula- tory regions using phylogenetic and epigenetic approaches. According to the results, the majority of these ECRs are potential enhancers for the transcription of the Peg3 domain. Also, these potential enhancers can be divided into two groups based on their histone modi- fication and DNA methylation patterns: ubiquitous and tissue-specific enhancers. Phyloge- netic and bioinformatic analyses further revealed that several cis-regulatory motifs are OPEN ACCESS frequently associated with the ECRs, such as the E box, PITX2, NF-κB and RFX1 motifs. A series of subsequent ChIP experiments demonstrated that the trans factor MYOD indeed Citation: Kim J, Ye A (2016) Phylogenetic and Epigenetic Footprinting of the Putative Enhancers of binds to the E box of several ECRs, further suggesting that MYOD may play significant the Peg3 Domain. PLoS ONE 11(4): e0154216. roles in the transcriptional control of the Peg3 domain. Overall, the current study identifies, doi:10.1371/journal.pone.0154216 for the first time, a set of cis-regulatory motifs and corresponding trans factors that may be Editor: Martina Stromvik, McGill University, CANADA critical for the transcriptional regulation of the Peg3 domain.
    [Show full text]
  • Epigenetic Instability of Imprinted Genes in Human Cancers Joomyeong Kim*, Corey L
    Published online 3 September 2015 Nucleic Acids Research, 2015, Vol. 43, No. 22 10689–10699 doi: 10.1093/nar/gkv867 Epigenetic instability of imprinted genes in human cancers Joomyeong Kim*, Corey L. Bretz and Suman Lee Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803, USA Received May 10, 2015; Revised August 14, 2015; Accepted August 17, 2015 ABSTRACT (2,3). Among the 100 imprinted genes found in the hu- man genome, the well-known examples include H19, IGF2 Many imprinted genes are often epigenetically af- (Insulin-like growth factor 2), IGF2R (IGF2 receptor), fected in human cancers due to their functional link- GNAS (stimulatory GTPase ␣), GRB10 (Growth factor- age to insulin and insulin-like growth factor signal- bound protein 10), MEST (Mesoderm-Specific Transcript) ing pathways. Thus, the current study systemati- and PEG3 (Paternally Expressed Gene 3) (3). cally characterized the epigenetic instability of im- Imprinted genes are also clustered in specific chromoso- printed genes in multiple human cancers. First, the mal domains, size-ranging from 0.5 to 2-megabase pair in survey results from TCGA (The Cancer Genome At- length. Yet, small genomic regions, 2–4 kb in length, are las) revealed that the expression levels of the major- known to control the imprinting of large genomic domains, ity of imprinted genes are downregulated in primary thus named Imprinting Control Regions (ICRs) (4). One tumors compared to normal cells. These changes of the main functions of ICRs is first to inherit germ cell- driven DNA methylation as a gametic signal, and later to are also accompanied by DNA methylation level maintain the subsequent allele-specific DNA methylation changes in several imprinted domains, such as the pattern within somatic cells (5).
    [Show full text]
  • Epigenetic Profiling of Mammalian Retrotransposons Arundhati Bakshi Louisiana State University and Agricultural and Mechanical College
    Louisiana State University LSU Digital Commons LSU Doctoral Dissertations Graduate School 2017 Epigenetic Profiling of Mammalian Retrotransposons Arundhati Bakshi Louisiana State University and Agricultural and Mechanical College Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_dissertations Part of the Life Sciences Commons Recommended Citation Bakshi, Arundhati, "Epigenetic Profiling of Mammalian Retrotransposons" (2017). LSU Doctoral Dissertations. 4357. https://digitalcommons.lsu.edu/gradschool_dissertations/4357 This Dissertation is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Doctoral Dissertations by an authorized graduate school editor of LSU Digital Commons. For more information, please [email protected]. EPIGENETIC PROFILING OF MAMMALIAN RETROTRANSPOSONS A Dissertation Submitted to the Graduate Faculty of the Louisiana State University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Doctor of Philosophy in The Department of Biological Sciences by Arundhati Bakshi B.S., Louisiana State University, 2013 August 2017 ACKNOWLEDGEMENTS I joined Dr. Joomyeong Kim’s lab as an undergraduate student, a “newbie” to the world of science. He discovered in me the potential to be a good scientist, and then gave me the opportunity in his lab to realize that potential. For that, I will always remain grateful to Dr. Kim, my boss and mentor for the past six years. He gave me the opportunity to learn from his knowledge and experience, and his constructive criticisms frequently helped me fine-tune my ideas. He also trained me to think of science both in publication units as well as the “big- picture,” which is an invaluable skill for a scientist.
    [Show full text]
  • The Sixth Weissenburg Symposium September 01 - 04, 2021 Venue: Kulturzentrum Karmeliterkirche, Weissenburg in Bayern, Germany
    In times of crisis, optimism and caution will be of the essence The Sixth Weissenburg Symposium September 01 - 04, 2021 Venue: Kulturzentrum Karmeliterkirche, Weissenburg in Bayern, Germany “Genome-wide Epigenetic Profiles” Dear friends of the Weissenburg Symposia, As of today, Thursday, July 22, 2021, the statistics of Covid-19 cases in Germany and Weissenburg are the following: The incidence of cases per 100.000 inhabitants during the past 7 days has been 12.2 and 5.3, respectively. Vaccination update: 60.4 % of the population in Germany have been vaccinated once, 48 % twice. With the obvious proviso that predictions about the state of the pandemic in September 2021 are impossible to make, we decided to schedule the Weissenburg Symposium September 01 to 04, 2021. Please, be assured that, should Covid-19 conditions deteriorate between now and around the end of August, we would have to postpone or cancel the date of the meeting again. Lectures will begin on Wednesday September 01, 2021 at 9:00 o’clock AM.. List of Speakers and (Preliminary) Lecture Titles Thomas R. Broker, University of Alabama, Birmingham – [email protected] Clonal selection for a single locus of transcriptionally active HPV oncogenes in cancers involving DNA methylation-mediated silencing. Louise T. Chow, University of Alabama, Birmingham – Histone deacetylase inhibitors abrogate HPV DNA replicative amplification and cause apoptosis in cervical cancer xenografts and organoids. [email protected] *Michelle Débatisse, Institut Gustave Roussy, Paris – [email protected] Title pending. *Walter Doerfler, FAU Erlangen-Nürnberg, Institute of Genetics, Cologne – [email protected] Epigenetic consequences of foreign DNA insertions into mammalian genomes.
    [Show full text]
  • Transcription and Histone Methylation Changes Correlate with Imprint Acquisition in Male Germ Cells
    The EMBO Journal (2012) 31, 606–615 | & 2012 European Molecular Biology Organization | All Rights Reserved 0261-4189/12 www.embojournal.org TTHEH E EEMBOMBO JJOURNALOURN AL Transcription and histone methylation changes correlate with imprint acquisition in male germ cells Amandine Henckel1, Karim Chebli, known why some ICRs acquire DNA methylation imprints in Satya K Kota, Philippe Arnaud2,3,* and the female germ line, while others become methylated Robert Feil3,* specifically in the male germ line. However, in both the germ lines de-novo DNA methyltransferase DNMT3A is Institute of Molecular Genetics (IGMM), CNRS, Universities of et al et al Montpellier I and II, Montpellier, France involved in imprint acquisition (Kaneda , 2004; Kato , 2007). The related DNMT3L protein can form complexes with Genomic imprinting in mammals is controlled by DNA DNMT3A and plays an essential role in imprint acquisition as methylation imprints that are acquired in the gametes, at well (Bourc’his et al, 2001; Hata et al, 2002; Kato et al, 2007). essential sequence elements called ‘imprinting control Interestingly, DNMT3L can bind to histone H3 in vitro, but H3 regions’ (ICRs). What signals paternal imprint acquisition lysine-4 dimethylation, and in particular H3-K4 trimethyla- in male germ cells remains unknown. To address this tion (H3K4me3), was found to prevent its association with question, we explored histone methylation at ICRs in chromatin (Ooi et al, 2007). Recent studies show that mouse primordial germ cells (PGCs). By 13.5 days post DNMT3A itself is also sensitive to the H3 lysine-4 methyla- coitum (d.p.c.), H3 lysine-9 and H4 lysine-20 trimethyla- tion status.
    [Show full text]
  • Allele and Dosage Specificity of the Peg3 Imprinted Domain
    Louisiana State University LSU Digital Commons Faculty Publications Department of Biological Sciences 5-1-2018 Allele and dosage specificity of the eg3P imprinted domain Corey L. Bretz Louisiana State University Wesley D. Frey Louisiana State University Ryoichi Teruyama Louisiana State University Joomyeong Kim Louisiana State University Follow this and additional works at: https://digitalcommons.lsu.edu/biosci_pubs Recommended Citation Bretz, C., Frey, W., Teruyama, R., & Kim, J. (2018). Allele and dosage specificity of the eg3P imprinted domain. PLoS ONE, 13 (5) https://doi.org/10.1371/journal.pone.0197069 This Article is brought to you for free and open access by the Department of Biological Sciences at LSU Digital Commons. It has been accepted for inclusion in Faculty Publications by an authorized administrator of LSU Digital Commons. For more information, please contact [email protected]. RESEARCH ARTICLE Allele and dosage specificity of the Peg3 imprinted domain Corey L. Bretz, Wesley D. Frey, Ryoichi Teruyama, Joomyeong Kim* Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, United States of America * [email protected] Abstract a1111111111 The biological impetus for gene dosage and allele specificity of mammalian imprinted genes a1111111111 a1111111111 is not fully understood. To address this, we generated and analyzed four sets of mice from a1111111111 a single breeding scheme with varying allelic expression and gene dosage of the Peg3 a1111111111 domain. The mutants with abrogation of the two paternally expressed genes, Peg3 and Usp29, showed a significant decrease in growth rates for both males and females, while the mutants with biallelic expression of Peg3 and Usp29 resulted in an increased growth rate of female mice only.
    [Show full text]
  • Corey Lane Bretz | Curriculum Vitae, January 25, 2017 Corey
    Corey Lane Bretz Doctoral candidate, Louisiana State University Department of Biological Sciences 688 Life Sciences Building Phone: (225) 439-9601 Email: [email protected] EDUCATION/TRAINING Louisiana State University: Ph.D. in Biology (anticipated August 2017) Laboratory of Dr. Joomyeong Kim Louisiana State University: B.S. in Biology and minor in Chemistry (May 2013) Awarded University Medal for Highest Academic Achievement PROFESSIONAL POSITIONS Research (LSU) – May 2012 to present • Graduate teaching assistantship • LSU-HHMI undergraduate research fellow Teaching (LSU) – August 2013 to present • Biology Lab for Science majors • Microbiology laboratory • Principles of Genetics Student Affairs (LSU) – Summer 2014 and summer 2015 • LSU-HHMI Undergraduate Research Program assistant coordinator Supplemental Instruction Leader (LSU) – (August 2011 to May 2013) • Organic chemistry I & II Animal Husbandry (LSU - DLAM) – (April 2010 to August 2010) • Student worker: routine laboratory animal husbandry PUBLICATIONS 1. C.L. Bretz, I.M. Langohr, and J. Kim. (Submitted Dec 2016) Epigenetic response of imprinted domains during carcinogenesis. Clinical Epigenetics, under review. 2. C.L. Bretz, I.M. Langohr, S. Lee, and J. Kim. (2015) Epigenetic instability at imprinting control regions in a KrasG12D-induced T-cell neoplasm. Epigenetics. PMID: 26507119 3. J. Kim, C.L. Bretz, S. Lee. (2015) Epigenetic instability of imprinted genes in human cancers. Nucleic Acids Res. PMID: 26338779 Corey Lane Bretz | Curriculum Vitae, January 25, 2017 HONORS AND AWARDS
    [Show full text]