A Dissertation Entitled Erk1/2 Signaling Pathway And

Total Page:16

File Type:pdf, Size:1020Kb

A Dissertation Entitled Erk1/2 Signaling Pathway And A Dissertation Entitled Erk1/2 Signaling Pathway and Transcriptional Repressor Gfi1 in the Regulation of Neutrophil versus Monocyte Development in Response to G-CSF and M-CSF by Nan Hu Submitted to the Graduate Faculty as partial fulfillment of the requirements for the Doctor of Philosophy Degree in Biology _________________________________________ Dr. Fan Dong, Committee Chair _________________________________________ Dr. Lirim Shemshedini, Committee Member _________________________________________ Dr. Deborah Chadee, Committee Member _________________________________________ Dr.Stanislaw Stepkowski, Committee Member _________________________________________ Dr. Kam Yeung, Committee Member _________________________________________ Dr. Patricia R. Komuniecki, Dean College of Graduate Studies The University of Toledo August 2015 Copyright 2015, Nan Hu This document is copyrighted material. Under copyright law, no parts of this document may be reproduced without the expressed permission of the author. An Abstract of Erk1/2 Signaling Pathway and Transcriptional Repressor Gfi1 in the Regulation of Neutrophil versus Monocyte Development in Response to G-CSF and M-CSF by Nan Hu Submitted to the Graduate Faculty as partial fulfillment of the requirements for the Doctor of Philosophy Degree in Biology The University of Toledo August 2015 All lineages of mature blood cells are derived from the hematopoietic stem cells which reside in the bone marrow. Blood cell development, a process called hematopoiesis, is regulated by different mechanisms. At the cellular level, multiple transcription factors are critical for blood cell development. For example, the ratio of c/EBP to PU.1 is important for the direction of differentiation. High c/EBP to PU.1 ratio favors neutrophil differentiation whereas low c/EBP to PU.1 ratio leads to monocyte/macrophage differentiation. In addition to transcription factors, hematopoietic cytokines also play important roles in hematopoiesis. Granulocyte-colony stimulating factor (G-CSF) acts on the lineage of granulocytes while macrophage-colony stimulating factor (M-CSF) acts on the monocytic lineage. Hematopoietic cytokines are known to stimulate cell proliferation and survival, but whether these cytokines actively induce the differentiation of hematopoietic progenitor cells is still controversial. Our lab has previously shown that murine myeloblastic 32D cells transfected with wild type G-CSF receptor differentiated into neutrophils after G-CSF treatment, but cells transfected with the truncated G-CSFR lacking the three C-terminal tyrosine residues (Tyr 729, 744, 769) iii failed to differentiate. To address whether the three tyrosine residues are involved in granulocytic differentiation, 32D cells were transfected with a mutant G-CSFR (mA) in which the three tyrosine residues have been mutated to phenylalanine. Interestingly, 32D/mA cells showed monocytic differentiation in response to G-CSF, as evidenced by attachment to culture flasks, morphological features and expression of monocytic differentiation markers F4/80, Mmp-12 and M-CSF. By individually mutating each of the three tyrosine residues, we demonstrate that Tyr 729 of G-CSFR is required for the neutrophil differentiation in response to G-CSF. We further demonstrate that Erk1/2 activation upon G-CSF treatment is prolonged in 32D/Y729F and FDCPmix/Y729F cells as compared to WT cells and inhibition of Erk1/2 pathway using specific inhibitors and Erk1/2 knockdown partially reversed monocytic differentiation of 32D/Y729F and FDCPmix/Y729F cells. Together, these results indicate that Tyr729 of the G-CSFR negatively regulates Erk1/2 activation and that mutation of Tyr729 leads to prolonged Erk1/2 activation. Furthermore, Erk1/2 activation upon M-CSF treatment is prolonged in Lin- primary bone marrow cells as compared to G-CSF treatment. Mek1/2 inhibitors favor neutrophil development at the expense of monocytic development of Lin- bone marrow cells upon M-CSF treatment. To find out the downstream targets of Erk1/2, we examined expressions of c-Fos, Egr1 and phosphorylation of c-Fos which are important for monocytic differentiation. Both 32D/Y729F cells and FDCPmix/Y729F cells showed prolonged induction of c-Fos and Egr1, which is consistent with stronger induction of TRE3-tk-Luc (containing 3 repeats of AP1 binding elements) and EBS24-Luc (containing 4 repeats of Egr1 binding sequence). We further showed that c-Fos or Egr1 knockdown restored neutrophil differentiation of 32D/Y729F cells and FDCPmix/Y729F cells, along iv with repression of Mmp-12 and M-CSF. Together we have shown that Tyr729 is essential for instructing neutrophil development, and activation of Erk1/2 regulates neutrophil versus monocyte development through Egr1 and c-Fos. Gfi1 is a transcriptional repressor that plays an important role in hematopoiesis. Gfi1 favors neutrophil development and antagonize monocyte/macrophage development. It has been shown that Gfi1 represses M-CSF, M-CSF receptor and Egr2 expression which are important for macrophage differentiation. Gfi1 also represses PU.1 transcription and further inhibits PU.1 activity through protein-protein interaction. However, it is still incompletely understood how Gfi1 regulates neutrophil versus monocyte cell fate choice. Here we demonstrate that Gfi1 represses Egr1 and c-Fos to block macrophage development in both 32D and FDCP-mix A4 cell. Gfi1 knockout mice lack neutrophils and have elevated number of abnormal monocyte progenitors. We have also shown that mRNA levels of Egr1 and c-Fos were elevated and Erk1/2 activation was stronger in Gfi1-/- BM cells compared to Gfi1+/+ cells. To address whether strong activation of Erk1/2 is associated with the abnormal differentiation of Gfi1-/- BM cells through Egr1 and c-Fos, Gfi1-/- BM cells were treated with Mek1/2 inhibitors U0126 and PD0325901. Egr1 and c-Fos mRNA levels were repressed significantly. Interestingly, U0126 and PD0325901 also restored neutrophil development of Gfi1-/- BM cells in response to G-CSF. Together, our data showed a new mechanism of the action of Gfi1 in myelopoeisis that Gfi1 represses Egr1 and c-Fos expression through direct promoter binding and the abnormal differentiation of Gfi1-/- BM cells is associated with strong activation of Erk1/2. v This work is dedicated to my mother, Peizhi Kong, for her love and sacrifice. Acknowledgements I wish to thank my advisor, Dr. Fan Dong, for introducing me to the field of hematology, his guidance in my research and giving me the opportunity to work on very interesting projects. Gratitude also goes to my committee members, Dr. Lirim Shemshedini, Dr. Deborah Chadee, Dr. Stanislaw Stepkowski and Dr. Kam Yeung, for their help and insights. I also would like to thank the people I have been working with in the past five years, Dr. Yaling Qiu for teaching me experiments and making the lab feel like home, Srimathi Karsturirangan, Yangyang Zhang and previous lab member Dr. Pei Du. It is a pleasure to work with them. I am eternally gratefully to my mother, Peizhi Kong, for her greatest love, sacrifice and support. Without her love, I would not achieve anything. I also would like to thank my husband, Jonathan McAtee, for his love and continuous encouragement, my daughter, Allison McAtee, for bringing the joy of being a parent, and all my family for loving and supporting me. Last but not the least, I wish to thank all my friends for being supportive and being there for me. vii Table of Contents Abstract ............................................................................................................................. iii Acknowledgements ......................................................................................................... vii Table of Contents ........................................................................................................... viii List of Figures ................................................................................................................... xi List of Abbreviations ..................................................................................................... xiii 1 Introduction .....................................................................................................................1 1.1 Hematopoiesis .................................................................................................1 1.2 Hematopoietic cytokine and cytokine receptors .............................................3 1.3 Granulocyte Colony Stimulating Factor (G-CSF) Receptor ...........................5 1.4 Granulocyte Colony Stimulating Factor (G-CSF) Receptor signaling ...........8 1.5 Hematopoietic transcription factors ................................................................9 1.6 Growth factor independent 1 (Gfi1) .............................................................11 1.7 Egr1 and c-Fos ..............................................................................................13 2 Material and Methods ................................................................................................15 2.1 Cell lines and cell culture ..............................................................................15 2.2 Construction of plasmids ..............................................................................16 2.3 Transfection and generation of stable cell lines ............................................16 2.4 Flow cytometry .............................................................................................16 2.5 Western
Recommended publications
  • RBP-J Signaling − Cells Through Notch Novel IRF8-Controlled
    Sca-1+Lin−CD117− Mesenchymal Stem/Stromal Cells Induce the Generation of Novel IRF8-Controlled Regulatory Dendritic Cells through Notch −RBP-J Signaling This information is current as of September 25, 2021. Xingxia Liu, Shaoda Ren, Chaozhuo Ge, Kai Cheng, Martin Zenke, Armand Keating and Robert C. H. Zhao J Immunol 2015; 194:4298-4308; Prepublished online 30 March 2015; doi: 10.4049/jimmunol.1402641 Downloaded from http://www.jimmunol.org/content/194/9/4298 Supplementary http://www.jimmunol.org/content/suppl/2015/03/28/jimmunol.140264 http://www.jimmunol.org/ Material 1.DCSupplemental References This article cites 59 articles, 19 of which you can access for free at: http://www.jimmunol.org/content/194/9/4298.full#ref-list-1 Why The JI? Submit online. • Rapid Reviews! 30 days* from submission to initial decision by guest on September 25, 2021 • No Triage! Every submission reviewed by practicing scientists • Fast Publication! 4 weeks from acceptance to publication *average Subscription Information about subscribing to The Journal of Immunology is online at: http://jimmunol.org/subscription Permissions Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html Email Alerts Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts The Journal of Immunology is published twice each month by The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2015 by The American Association of Immunologists, Inc. All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. The Journal of Immunology Sca-1+Lin2CD1172 Mesenchymal Stem/Stromal Cells Induce the Generation of Novel IRF8-Controlled Regulatory Dendritic Cells through Notch–RBP-J Signaling Xingxia Liu,*,1 Shaoda Ren,*,1 Chaozhuo Ge,* Kai Cheng,* Martin Zenke,† Armand Keating,‡,x and Robert C.
    [Show full text]
  • CDC2 Mediates Progestin Initiated Endometrial Stromal Cell Proliferation: a PR Signaling to Gene Expression Independently of Its Binding to Chromatin
    CDC2 Mediates Progestin Initiated Endometrial Stromal Cell Proliferation: A PR Signaling to Gene Expression Independently of Its Binding to Chromatin Griselda Vallejo1, Alejandro D. La Greca1., Inti C. Tarifa-Reischle1., Ana C. Mestre-Citrinovitz1, Cecilia Ballare´ 2, Miguel Beato2,3, Patricia Saragu¨ eta1* 1 Instituto de Biologı´a y Medicina Experimental, IByME-Conicet, Buenos Aires, Argentina, 2 Centre de Regulacio´ Geno`mica, (CRG), Barcelona, Spain, 3 University Pompeu Fabra (UPF), Barcelona, Spain Abstract Although non-genomic steroid receptor pathways have been studied over the past decade, little is known about the direct gene expression changes that take place as a consequence of their activation. Progesterone controls proliferation of rat endometrial stromal cells during the peri-implantation phase of pregnancy. We showed that picomolar concentration of progestin R5020 mimics this control in UIII endometrial stromal cells via ERK1-2 and AKT activation mediated by interaction of Progesterone Receptor (PR) with Estrogen Receptor beta (ERb) and without transcriptional activity of endogenous PR and ER. Here we identify early downstream targets of cytoplasmic PR signaling and their possible role in endometrial stromal cell proliferation. Microarray analysis of global gene expression changes in UIII cells treated for 45 min with progestin identified 97 up- and 341 down-regulated genes. The most over-represented molecular functions were transcription factors and regulatory factors associated with cell proliferation and cell cycle, a large fraction of which were repressors down-regulated by hormone. Further analysis verified that progestins regulate Ccnd1, JunD, Usf1, Gfi1, Cyr61, and Cdkn1b through PR- mediated activation of ligand-free ER, ERK1-2 or AKT, in the absence of genomic PR binding.
    [Show full text]
  • Genome-Wide DNA Methylation Analysis of KRAS Mutant Cell Lines Ben Yi Tew1,5, Joel K
    www.nature.com/scientificreports OPEN Genome-wide DNA methylation analysis of KRAS mutant cell lines Ben Yi Tew1,5, Joel K. Durand2,5, Kirsten L. Bryant2, Tikvah K. Hayes2, Sen Peng3, Nhan L. Tran4, Gerald C. Gooden1, David N. Buckley1, Channing J. Der2, Albert S. Baldwin2 ✉ & Bodour Salhia1 ✉ Oncogenic RAS mutations are associated with DNA methylation changes that alter gene expression to drive cancer. Recent studies suggest that DNA methylation changes may be stochastic in nature, while other groups propose distinct signaling pathways responsible for aberrant methylation. Better understanding of DNA methylation events associated with oncogenic KRAS expression could enhance therapeutic approaches. Here we analyzed the basal CpG methylation of 11 KRAS-mutant and dependent pancreatic cancer cell lines and observed strikingly similar methylation patterns. KRAS knockdown resulted in unique methylation changes with limited overlap between each cell line. In KRAS-mutant Pa16C pancreatic cancer cells, while KRAS knockdown resulted in over 8,000 diferentially methylated (DM) CpGs, treatment with the ERK1/2-selective inhibitor SCH772984 showed less than 40 DM CpGs, suggesting that ERK is not a broadly active driver of KRAS-associated DNA methylation. KRAS G12V overexpression in an isogenic lung model reveals >50,600 DM CpGs compared to non-transformed controls. In lung and pancreatic cells, gene ontology analyses of DM promoters show an enrichment for genes involved in diferentiation and development. Taken all together, KRAS-mediated DNA methylation are stochastic and independent of canonical downstream efector signaling. These epigenetically altered genes associated with KRAS expression could represent potential therapeutic targets in KRAS-driven cancer. Activating KRAS mutations can be found in nearly 25 percent of all cancers1.
    [Show full text]
  • Genome-Wide Assessment of REST Binding Profiles Reveals Distinctions Between Human and Mouse Hippocampus
    bioRxiv preprint doi: https://doi.org/10.1101/2020.07.07.192229; this version posted July 7, 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-ND 4.0 International license. Genome-wide assessment of REST binding profiles reveals distinctions between human and mouse hippocampus James C. McGann1,2#, Michael Spinner1#, Saurabh K. Garg1,3#, Karin Mullendorf1,4, Randall L. Woltjer5 and Gail Mandel1*. 1 Vollum Institute, Oregon Health and Science University, Portland, OR, USA. 2 Cancer Early Detection Advanced Research Center, Oregon Health and Science Institute, Portland, OR, USA. 3 Department of Cutaneous Oncology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA. 4 Universidad San Sebastian, Puerto Montt, Chile 5 Department of Pathology, Division of Neuropathology, Oregon Health and Science University, Portland, OR, USA. *Corresponding author # These authors contributed equally Abstract Background The transcriptional repressor, RE1 Silencing Transcription Factor (REST), recognized historically as a master regulator of neuronal gene expression during mouse development, has recently been ascribed roles in human aging and neurodegenerative disorders. However, REST’s role in healthy adult human brain, and how faithfully mouse models reproduce REST function in human brain, is not known. Results Here, we present the first genome-wide binding profile for REST in both mouse and human postnatal hippocampus. We find the majority of REST-bound sites in human hippocampus are unique compared to both mouse hippocampus and to all other reported human ENCODE cell types.
    [Show full text]
  • Functional Annotation of Human Long Noncoding Rnas Using Chromatin
    bioRxiv preprint doi: https://doi.org/10.1101/2021.01.13.426305; this version posted January 14, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Funconal annotaon of human long noncoding RNAs using chroman conformaon data Saumya Agrawal1, Tanvir Alam2, Masaru Koido1,3, Ivan V. Kulakovskiy4,5, Jessica Severin1, Imad ABugessaisa1, Andrey Buyan5,6, Josee Dos&e7, Masayoshi Itoh1,8, Naoto Kondo9, Yunjing Li10, Mickaël Mendez11, Jordan A. Ramilowski1,12, Ken Yagi1, Kayoko Yasuzawa1, CHi Wai Yip1, Yasushi Okazaki1, MicHael M. Ho9man11,13,14,15, Lisa Strug10, CHung CHau Hon1, CHikashi Terao1, Takeya Kasukawa1, Vsevolod J. Makeev4,16, Jay W. SHin1, Piero Carninci1, MicHiel JL de Hoon1 1RIKEN Center for Integra&ve Medical Sciences, YokoHama, Japan. 2College of Science and Engineering, Hamad Bin KHalifa University, DoHa, Qatar. 3Ins&tute of Medical Science, THe University of Tokyo, Tokyo, Japan. 4Vavilov Ins&tute of General Gene&cs, Russian Academy of Sciences, Moscow, Russia. 5Ins&tute of Protein ResearcH, Russian Academy of Sciences, PusHcHino, Russia. 6Faculty of Bioengineering and Bioinforma&cs, Lomonosov Moscow State University, Moscow, Russia. 7Department of BiocHemistry, Rosalind and Morris Goodman Cancer ResearcH Center, McGill University, Montréal, QuéBec, Canada. 8RIKEN Preven&ve Medicine and Diagnosis Innova&on Program, Wako, Japan. 9RIKEN Center for Life Science TecHnologies, YokoHama, Japan. 10Division of Biosta&s&cs, Dalla Lana ScHool of PuBlic HealtH, University of Toronto, Toronto, Ontario, Canada. 11Department of Computer Science, University of Toronto, Toronto, Ontario, Canada. 12Advanced Medical ResearcH Center, YokoHama City University, YokoHama, Japan.
    [Show full text]
  • The Master Regulator Gene PRDM2 Controls C2C12 Myoblasts
    Open Access Insights in Biology and Medicine Research Article The master regulator gene PRDM2 controls C2C12 myoblasts proliferation ISSN 2639-6769 and Differentiation switch and PRDM4 and PRDM10 expression Di Zazzo Erika1#, Bartollino Silvia1*# and Moncharmont Bruno1 1Department of Medicine and Health Sciences “V. Tiberio”, University of Molise, Italy #These authors contributed equally to this work *Address for Correspondence: Silvia Bartollino, Abstract Department of Medicine and Health Sciences, “V. Tiberio”, University of Molise Via F. De Sanctis, The Positive Regulatory Domain (PRDM) protein family gene is involved in a spectrum variety of biological 86100 Campobasso, Italy, Tel.: +39 0874404886, processes, including proliferation, differentiation and apoptosis: its member seem to be transcriptional E-mail: [email protected] regulators highly cell type and tissue peculiar, towards histones modifi cations or recruitment of specifi c Submitted: 11 August 2017 interaction patters to modify the expression of target genes. In this study we analyzed the expression profi le of Approved: 20 September 2017 different member of PRDM gene family focusing our attention on the role of PRDM2, PRDM4 and PRDM10 genes Published: 25 September 2017 in mouse C2C12 cell line, during the differentiation of myoblasts into myotubes and speculate about the role of the protein Retinoblastoma protein-interacting zinc fi nger protein 1-RIZ1, coded by PRDM2 gene, as a regulator Copyright: 2017 Di Zazzo E, et al. This is an open access article distributed under the of the proliferation/differentiation switch. Creative Commons Attribution License, which permits unrestricted use, distribution, and Results showed a reduction of PRDM2, PRDM4 and PRDM10 expression level during the commitment of the reproduction in any medium, provided the differentiation of myoblasts into myotubes.
    [Show full text]
  • Transcriptional Repressor HIC1 Contributes to Suppressive Function of Human Induced Regulatory T Cells
    This is an electronic reprint of the original article. This reprint may differ from the original in pagination and typographic detail. Ubaid Ullah, Ullah; Andrabi, Syed Bilal Ahmad; Tripathi, Subhash Kumar; Dirasantha, Obaiah; Kanduri, Kartiek; Rautio, Sini; Gross, Catharina C.; Lehtimäki, Sari; Bala, Kanchan; Tuomisto, Johanna; Bhatia, Urvashi; Chakroborty, Deepankar; Elo, Laura L.; Lähdesmäki, Harri; Wiendl, Heinz; Rasool, Omid; Lahesmaa, Riitta Transcriptional Repressor HIC1 Contributes to Suppressive Function of Human Induced Regulatory T Cells Published in: Cell Reports DOI: 10.1016/j.celrep.2018.01.070 Published: 20/02/2018 Document Version Publisher's PDF, also known as Version of record Published under the following license: CC BY-NC-ND Please cite the original version: Ubaid Ullah, U., Andrabi, S. B. A., Tripathi, S. K., Dirasantha, O., Kanduri, K., Rautio, S., Gross, C. C., Lehtimäki, S., Bala, K., Tuomisto, J., Bhatia, U., Chakroborty, D., Elo, L. L., Lähdesmäki, H., Wiendl, H., Rasool, O., & Lahesmaa, R. (2018). Transcriptional Repressor HIC1 Contributes to Suppressive Function of Human Induced Regulatory T Cells. Cell Reports, 22(8), 2094-2106. https://doi.org/10.1016/j.celrep.2018.01.070 This material is protected by copyright and other intellectual property rights, and duplication or sale of all or part of any of the repository collections is not permitted, except that material may be duplicated by you for your research use or educational purposes in electronic or print form. You must obtain permission for any other use. Electronic or print copies may not be offered, whether for sale or otherwise to anyone who is not an authorised user.
    [Show full text]
  • Keep Your Fingers Off My DNA: Protein-Protein Interactions
    1 2 Keep your fingers off my DNA: 3 protein-protein interactions mediated by C2H2 zinc finger domains 4 5 6 a scholarly review 7 8 9 10 11 Kathryn J. Brayer1 and David J. Segal2* 12 13 14 15 16 17 1Department of Pharmacology and Toxicology, College of Pharmacy, University of Arizona, 18 Tucson, AZ, 85721. 19 2Genome Center and Department of Pharmacology, University of California, Davis, CA, 95616. 20 21 22 23 24 *To whom correspondence should be addressed: 25 David J. Segal, Ph.D. 26 University of California, Davis 27 Genome Center/Pharmacology 28 4513 GBSF 29 451 E. Health Sciences Dr. 30 Davis, CA 95616 31 Tel: 530-754-9134 32 Fax: 530-754-9658 33 Email: [email protected] 34 35 36 Running header: C2H2 ZF interactions with proteins 37 38 Keywords: transcription factors, protein-DNA interactions, protein chemistry, structural biology, 39 functional annotations 40 41 Abstract: 154 words 42 Body Text: 5863 words 43 Figures: 9 44 Tables: 5 45 References: 165 46 C2H2 ZF interactions with proteins Brayer and Segal - review 46 ABSTRACT 47 Cys2-His2 (C2H2) zinc finger domains were originally identified as DNA binding 48 domains, and uncharacterized domains are typically assumed to function in DNA binding. 49 However, a growing body of evidence suggests an important and widespread role for these 50 domains in protein binding. There are even examples of zinc fingers that support both DNA and 51 protein interactions, which can be found in well-known DNA-binding proteins such as Sp1, 52 Zif268, and YY1. C2H2 protein-protein interactions are proving to be more abundant than 53 previously appreciated, more plastic than their DNA-binding counterparts, and more variable and 54 complex in their interactions surfaces.
    [Show full text]
  • Conserved Human Effector Treg Signature Is Reflected in Transcriptomic and Epigenetic Landscape
    bioRxiv preprint doi: https://doi.org/10.1101/2020.09.30.319962; this version posted October 1, 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-ND 4.0 International license. Conserved human effector Treg signature is reflected in transcriptomic and epigenetic landscape Authors: Gerdien Mijnheer,1† Lisanne Lutter,1† Michal Mokry,1,2,3 Marlot van der Wal,1 Veerle Fleskens,4 Rianne Scholman,1 Aridaman Pandit,1 Weiyang Tao, 1 Mark Wekking,3 Stephin Vervoort,1,5 Ceri Roberts,4 Alessandra Petrelli,1 Janneke G.C. Peeters,1 Marthe Knijff,1 Sytze de Roock,1 Sebastiaan Vastert,1 Leonie S. Taams,4 Jorg van Loosdregt,1,5† Femke van Wijk1†* †Shared position Affiliations: 1Center for Translational Immunology, Pediatric Immunology & Rheumatology, Wilhelmina Children’s Hospital, University Medical Center Utrecht, Utrecht University, Utrecht 3508 AB, the Netherlands. 2Regenerative Medicine Center Utrecht, Department of Pediatrics, University Medical Center Utrecht, Utrecht 3508 AB, The Netherlands. 3Epigenomics facility, University Medical Center Utrecht, Utrecht 3508 AB, The Netherlands. 4Centre for Inflammation Biology and Cancer Immunology, School of Immunology & Microbial Sciences, King’s College London, London SE1 1UL, UK. 5Regenerative Medicine Center Utrecht, Center for Molecular Medicine, University Medical Center Utrecht, Utrecht 3508 AB, The Netherlands. *Corresponding author: Femke van Wijk, PhD Center for Translational Immunology, Wilhelmina Children’s Hospital, University Medical Center Utrecht, Lundlaan 6, 3584 EA Utrecht. Tel +31 88 75 542 75 Email: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.09.30.319962; this version posted October 1, 2020.
    [Show full text]
  • LSD1: More Than Demethylation of Histone Lysine Residues Bruno Perillo1, Alfonso Tramontano2, Antonio Pezone3 and Antimo Migliaccio 2
    Perillo et al. Experimental & Molecular Medicine (2020) 52:1936–1947 https://doi.org/10.1038/s12276-020-00542-2 Experimental & Molecular Medicine REVIEW ARTICLE Open Access LSD1: more than demethylation of histone lysine residues Bruno Perillo1, Alfonso Tramontano2, Antonio Pezone3 and Antimo Migliaccio 2 Abstract Lysine-specific histone demethylase 1 (LSD1) represents the first example of an identified nuclear protein with histone demethylase activity. In particular, it plays a special role in the epigenetic regulation of gene expression, as it removes methyl groups from mono- and dimethylated lysine 4 and/or lysine 9 on histone H3 (H3K4me1/2 and H3K9me1/2), behaving as a repressor or activator of gene expression, respectively. Moreover, it has been recently found to demethylate monomethylated and dimethylated lysine 20 in histone H4 and to contribute to the balance of several other methylated lysine residues in histone H3 (i.e., H3K27, H3K36, and H3K79). Furthermore, in recent years, a plethora of nonhistone proteins have been detected as targets of LSD1 activity, suggesting that this demethylase is a fundamental player in the regulation of multiple pathways triggered in several cellular processes, including cancer progression. In this review, we analyze the molecular mechanism by which LSD1 displays its dual effect on gene expression (related to the specific lysine target), placing final emphasis on the use of pharmacological inhibitors of its activity in future clinical studies to fight cancer. 4 1234567890():,; 1234567890():,; 1234567890():,; 1234567890():,; Introduction deacetylases (HDACs) , methylation of histones was Nucleosomal histones (H2A, H2B, H3, and H4) are considered an irreversible process for a long time. How- extensively involved in DNA supercoiling and chromo- ever, almost two decades ago, histone demethylating somal positioning within the nuclear space.
    [Show full text]
  • Notch Controls Multiple Pancreatic Cell Fate Regulators Through Direct Hes1-Mediated Repression
    bioRxiv preprint doi: https://doi.org/10.1101/336305; this version posted June 1, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Notch Controls Multiple Pancreatic Cell Fate Regulators Through Direct Hes1-mediated Repression by Kristian H. de Lichtenberg1, Philip A. Seymour1, Mette C. Jørgensen1, Yung-Hae Kim1, Anne Grapin-Botton1, Mark A. Magnuson2, Nikolina Nakic3,4, Jorge Ferrer3, Palle Serup1* 1 Novo Nordisk Foundation Center for Stem Cell Biology (Danstem), University of Copenhagen, Denmark. 2 Center for Stem Cell Biology, Vanderbilt University, Tennessee, USA. 3 Section on Epigenetics and Disease, Imperial College London, UK. 4 Current Address: GSK, Stevenage, UK. *Corresponding Author: [email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/336305; this version posted June 1, 2018. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. Abstract Notch signaling and its effector Hes1 regulate multiple cell fate choices in the developing pancreas, but few direct target genes are known. Here we use transcriptome analyses combined with chromatin immunoprecipitation with next-generation sequencing (ChIP-seq) to identify direct target genes of Hes1. ChIP-seq analysis of endogenous Hes1 in 266-6 cells, a model of multipotent pancreatic progenitor cells, revealed high-confidence peaks associated with 354 genes. Among these were genes important for tip/trunk segregation such as Ptf1a and Nkx6-1, genes involved in endocrine differentiation such as Insm1 and Dll4, and genes encoding non-pancreatic basic-Helic-Loop-Helix (bHLH) factors such as Neurog2 and Ascl1.
    [Show full text]
  • Interplay Between Cofactors and Transcription Factors in Hematopoiesis and Hematological Malignancies
    Signal Transduction and Targeted Therapy www.nature.com/sigtrans REVIEW ARTICLE OPEN Interplay between cofactors and transcription factors in hematopoiesis and hematological malignancies Zi Wang 1,2, Pan Wang2, Yanan Li2, Hongling Peng1, Yu Zhu2, Narla Mohandas3 and Jing Liu2 Hematopoiesis requires finely tuned regulation of gene expression at each stage of development. The regulation of gene transcription involves not only individual transcription factors (TFs) but also transcription complexes (TCs) composed of transcription factor(s) and multisubunit cofactors. In their normal compositions, TCs orchestrate lineage-specific patterns of gene expression and ensure the production of the correct proportions of individual cell lineages during hematopoiesis. The integration of posttranslational and conformational modifications in the chromatin landscape, nucleosomes, histones and interacting components via the cofactor–TF interplay is critical to optimal TF activity. Mutations or translocations of cofactor genes are expected to alter cofactor–TF interactions, which may be causative for the pathogenesis of various hematologic disorders. Blocking TF oncogenic activity in hematologic disorders through targeting cofactors in aberrant complexes has been an exciting therapeutic strategy. In this review, we summarize the current knowledge regarding the models and functions of cofactor–TF interplay in physiological hematopoiesis and highlight their implications in the etiology of hematological malignancies. This review presents a deep insight into the physiological and pathological implications of transcription machinery in the blood system. Signal Transduction and Targeted Therapy (2021) ;6:24 https://doi.org/10.1038/s41392-020-00422-1 1234567890();,: INTRODUCTION by their ATPase subunits into four major families, including the Hematopoiesisisacomplexhierarchicaldifferentiationprocessthat SWI/SNF, ISWI, Mi-2/NuRD, and INO80/SWR1 families.
    [Show full text]