The Role of Neurotrophic Factors in Autism T Nickl-Jockschat and TM Michel Department of Psychiatry and Psychotherapy, RWTH Aachen University, Aachen, Germany
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Microrna Function: Multiple Mechanisms for a Tiny RNA?
Downloaded from rnajournal.cshlp.org on September 26, 2021 - Published by Cold Spring Harbor Laboratory Press REVIEW MicroRNA function: Multiple mechanisms for a tiny RNA? RAMESH S. PILLAI Friedrich Miescher Institute for Biomedical Research, 4002 Basel, Switzerland ABSTRACT MicroRNAs are sequence-specific regulators of post-transcriptional gene expression in many eukaryotes. They are believed to control the expression of thousands of target mRNAs, with each mRNA believed to be targeted by multiple microRNAs. Recent studies have uncovered various mechanisms by which microRNAs down-regulate their target mRNAs and have linked a well- known subcellular structure, the cytoplasmic processing bodies (PBs) to the microRNA pathway. The finding that microRNAs are misexpressed in cancers has reinforced the idea that their regulatory roles are very important. Keywords: microRNAs; miRNPs; translational repression; P-bodies; Argonaute INTRODUCTION that the forced overexpression of miRNAs can lead to the development of tumors (He et al. 2005). MicroRNAs (miRNAs) have come a long way from being Another pathway that uses small RNAs as sequence-spe- an oddity of worms when they were first discovered over 10 cific regulators is the RNA interference (RNAi) pathway, years ago (Lee et al. 1993) to be recognized now as novel which is an evolutionarily conserved response to the pres- agents exercising post-transcriptional control over most ence of double-stranded RNA (dsRNA) in the cell (Meister eukaryotic genomes. They are a family of 21–25-nucleotides and Tuschl 2004; Filipowicz 2005). The dsRNAs are cleaved (nt)-long RNAs expressed in a wide variety of organisms into 20-base pair (bp) duplexes of small-interfering RNAs ranging from plants to worms and humans. -
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Downloaded from genome.cshlp.org on September 29, 2021 - Published by Cold Spring Harbor Laboratory Press Research Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch Angel Carlos Roma´n,1 Francisco J. Gonza´lez-Rico,1 Eduardo Molto´,2,3 Henar Hernando,4 Ana Neto,5 Cristina Vicente-Garcia,2,3 Esteban Ballestar,4 Jose´ L. Go´mez-Skarmeta,5 Jana Vavrova-Anderson,6 Robert J. White,6,7 Lluı´s Montoliu,2,3 and Pedro M. Ferna´ndez-Salguero1,8 1Departamento de Bioquı´mica y Biologı´a Molecular, Facultad de Ciencias, Universidad de Extremadura, 06071 Badajoz, Spain; 2Centro Nacional de Biotecnologı´a (CNB), Consejo Superior de Investigaciones Cientı´ficas (CSIC), Department of Molecular and Cellular Biology, Campus de Cantoblanco, C/Darwin 3, 28049 Madrid, Spain; 3Centro de Investigacio´n Biome´dica en Red de Enfermedades Raras (CIBERER), ISCIII, Madrid, Spain; 4Chromatin and Disease Group, Cancer Epigenetics and Biology Programme, Bellvitge Biomedical Research Institute (IDIBELL), Barcelona 08907, Spain; 5Centro Andaluz de Biologı´a del Desarrollo, CSIC-Universidad Pablo de Olavide, 41013 Sevilla, Spain; 6College of Medical, Veterinary and Life Sciences, University of Glasgow, Glasgow G12 8QQ, United Kingdom; 7Beatson Institute for Cancer Research, Glasgow, G61 1BD, United Kingdom Complex genomes utilize insulators and boundary elements to help define spatial and temporal gene expression patterns. We report that a genome-wide B1 SINE (Short Interspersed Nuclear Element) retrotransposon (B1-X35S) has potent in- trinsic insulator activity in cultured cells and live animals. This insulation is mediated by binding of the transcription factors dioxin receptor (AHR) and SLUG (SNAI2) to consensus elements present in the SINE. -
Activating Transcription Factor 6 Derepression Mediates Neuroprotection in Huntington Disease
Activating transcription factor 6 derepression mediates neuroprotection in Huntington disease José R. Naranjo, … , Jia-Yi Li, Britt Mellström J Clin Invest. 2016;126(2):627-638. https://doi.org/10.1172/JCI82670. Research Article Neuroscience Deregulated protein and Ca2+ homeostasis underlie synaptic dysfunction and neurodegeneration in Huntington disease (HD); however, the factors that disrupt homeostasis are not fully understood. Here, we determined that expression of downstream regulatory element antagonist modulator (DREAM), a multifunctional Ca2+-binding protein, is reduced in murine in vivo and in vitro HD models and in HD patients. DREAM downregulation was observed early after birth and was associated with endogenous neuroprotection. In the R6/2 mouse HD model, induced DREAM haplodeficiency or blockade of DREAM activity by chronic administration of the drug repaglinide delayed onset of motor dysfunction, reduced striatal atrophy, and prolonged life span. DREAM-related neuroprotection was linked to an interaction between DREAM and the unfolded protein response (UPR) sensor activating transcription factor 6 (ATF6). Repaglinide blocked this interaction and enhanced ATF6 processing and nuclear accumulation of transcriptionally active ATF6, improving prosurvival UPR function in striatal neurons. Together, our results identify a role for DREAM silencing in the activation of ATF6 signaling, which promotes early neuroprotection in HD. Find the latest version: https://jci.me/82670/pdf The Journal of Clinical Investigation RESEARCH ARTICLE Activating transcription factor 6 derepression mediates neuroprotection in Huntington disease José R. Naranjo,1,2 Hongyu Zhang,3 Diego Villar,1,2 Paz González,1,2 Xose M. Dopazo,1,2 Javier Morón-Oset,1,2 Elena Higueras,1,2 Juan C. -
Primate Specific Retrotransposons, Svas, in the Evolution of Networks That Alter Brain Function
Title: Primate specific retrotransposons, SVAs, in the evolution of networks that alter brain function. Olga Vasieva1*, Sultan Cetiner1, Abigail Savage2, Gerald G. Schumann3, Vivien J Bubb2, John P Quinn2*, 1 Institute of Integrative Biology, University of Liverpool, Liverpool, L69 7ZB, U.K 2 Department of Molecular and Clinical Pharmacology, Institute of Translational Medicine, The University of Liverpool, Liverpool L69 3BX, UK 3 Division of Medical Biotechnology, Paul-Ehrlich-Institut, Langen, D-63225 Germany *. Corresponding author Olga Vasieva: Institute of Integrative Biology, Department of Comparative genomics, University of Liverpool, Liverpool, L69 7ZB, [email protected] ; Tel: (+44) 151 795 4456; FAX:(+44) 151 795 4406 John Quinn: Department of Molecular and Clinical Pharmacology, Institute of Translational Medicine, The University of Liverpool, Liverpool L69 3BX, UK, [email protected]; Tel: (+44) 151 794 5498. Key words: SVA, trans-mobilisation, behaviour, brain, evolution, psychiatric disorders 1 Abstract The hominid-specific non-LTR retrotransposon termed SINE–VNTR–Alu (SVA) is the youngest of the transposable elements in the human genome. The propagation of the most ancient SVA type A took place about 13.5 Myrs ago, and the youngest SVA types appeared in the human genome after the chimpanzee divergence. Functional enrichment analysis of genes associated with SVA insertions demonstrated their strong link to multiple ontological categories attributed to brain function and the disorders. SVA types that expanded their presence in the human genome at different stages of hominoid life history were also associated with progressively evolving behavioural features that indicated a potential impact of SVA propagation on a cognitive ability of a modern human. -
An HMG I/Y-Containing Repressor Complex and Supercolled DNA Topology Are Critical for Long-Range Enhancer-Dependent Transcription in Vitro
Downloaded from genesdev.cshlp.org on September 26, 2021 - Published by Cold Spring Harbor Laboratory Press An HMG I/Y-containing repressor complex and supercolled DNA topology are critical for long-range enhancer-dependent transcription in vitro Rajesh Bagga and Beverly M. Emerson 1 Regulatory Biology Laboratory, The Salk Institute for Biological Studies, La Jolla, California 92037 USA The 3' enhancer of the T cell receptor s.chain (TCR~) gene directs the tissue- and stage-specific expression and V(D)Jrecombination of this gene locus. Using an in vitro system that reproduces TCRoL enhancer activity efficiently, we show that long-range promoter-enhancer regulation requires a T cell-specific repressor complex and is sensitive to DNA topology. In this system, the enhancer functions to derepress the promoter on supercoiled, but not relaxed, templates. We find that the TCRoL promoter is inactivated by a repressor complex that contains the architectural protein HMG I/Y. In the absence of this repressor complex, expression of the TCR~ gene is completely independent of the 3' enhancer and DNA topology. The interaction of the T cell-restricted protein LEF-1 with the TCR~ enhancer is required for promoter derepression. In this system, the TCR~ enhancer increases the number of active promoters rather than the rate of transcription. Thus, long-range enhancers function in a distinct manner from promoters and provide the regulatory link between repressors, DNA topology, and gene activity. [Key Words: TCR genes; transcription; enhancers; HMG I/Y; derepression; DNA topology] Received December 27, 1996; revised version accepted January 14, 1997. The widespread importance of long-range promoter- Giaever 1988; Rippe et al. -
Accurate Breakpoint Mapping in Apparently Balanced Translocation Families with Discordant Phenotypes Using Whole Genome Mate-Pair Sequencing
Accurate Breakpoint Mapping in Apparently Balanced Translocation Families with Discordant Phenotypes Using Whole Genome Mate-Pair Sequencing Aristidou, Constantia; Koufaris, Costas; Theodosiou, Athina; Bak, Mads; Mehrjouy, Mana M; Behjati, Farkhondeh; Tanteles, George; Christophidou-Anastasiadou, Violetta; Tommerup, Niels; Sismani, Carolina Published in: PLOS ONE DOI: 10.1371/journal.pone.0169935 Publication date: 2017 Document version Publisher's PDF, also known as Version of record Document license: CC BY Citation for published version (APA): Aristidou, C., Koufaris, C., Theodosiou, A., Bak, M., Mehrjouy, M. M., Behjati, F., Tanteles, G., Christophidou- Anastasiadou, V., Tommerup, N., & Sismani, C. (2017). Accurate Breakpoint Mapping in Apparently Balanced Translocation Families with Discordant Phenotypes Using Whole Genome Mate-Pair Sequencing. PLOS ONE, 12(1), [e0169935]. https://doi.org/10.1371/journal.pone.0169935 Download date: 29. sep.. 2021 RESEARCH ARTICLE Accurate Breakpoint Mapping in Apparently Balanced Translocation Families with Discordant Phenotypes Using Whole Genome Mate-Pair Sequencing Constantia Aristidou1,2, Costas Koufaris1, Athina Theodosiou1, Mads Bak3, Mana M. Mehrjouy3, Farkhondeh Behjati4, George Tanteles5, Violetta Christophidou- Anastasiadou6, Niels Tommerup3, Carolina Sismani1,2* a1111111111 a1111111111 1 Department of Cytogenetics and Genomics, The Cyprus Institute of Neurology and Genetics, Nicosia, Cyprus, 2 The Cyprus School of Molecular Medicine, The Cyprus Institute of Neurology and Genetics, a1111111111 -
Insulators Targets Pcg Proteins to a Downstream Promoter
Developmental Cell 11, 117–124, July, 2006 ª2006 Elsevier Inc. DOI 10.1016/j.devcel.2006.05.009 PRE-Mediated Bypass of Two Short Article Su(Hw) Insulators Targets PcG Proteins to a Downstream Promoter Itys Comet,1 Ekaterina Savitskaya,2,3 dependent on the chromatin surrounding the transgene Bernd Schuettengruber,1 Nicolas Ne`gre,1,4 (barrier activity). Second, when an insulator is placed Sergey Lavrov,1,5 Aleksander Parshikov,2 between an enhancer and a promoter, it can prevent Franc¸ois Juge,1,6 Elena Gracheva,2,7 the enhancer from activating the promoter (enhancer Pavel Georgiev,2,* and Giacomo Cavalli1,* blocking activity). 1 Institute of Human Genetics The Drosophila Su(Hw) insulator, from the gypsy retro- Centre National de la Recherche Scientifique transposon, contains 12 binding sites for the Su(Hw) 141 rue de la Cardonille protein and can block enhancer-promoter interactions F-34396 Montpellier Cedex 5 in a Su(Hw)-dependent manner when inserted between France them (Cai and Levine, 1995; Geyer and Corces, 1992; 2 Department of the Control of Genetic Processes Scott et al., 1999). On the other hand, two intervening Institute of Gene Biology Su(Hw) insulators restore enhancer access to down- Russian Academy of Sciences stream promoters (Cai and Shen, 2001; Muravyova Moscow 119334 et al., 2001). This ability, which is shared by other insula- Russia tor elements (Gruzdeva et al., 2005; Melnikova et al., 2004), was suggested to depend on pairing of the two in- sulators that might bring the upstream enhancer in the Summary vicinity of the downstream promoter. -
Identification of Potential Key Genes and Pathway Linked with Sporadic Creutzfeldt-Jakob Disease Based on Integrated Bioinformatics Analyses
medRxiv preprint doi: https://doi.org/10.1101/2020.12.21.20248688; this version posted December 24, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Identification of potential key genes and pathway linked with sporadic Creutzfeldt-Jakob disease based on integrated bioinformatics analyses Basavaraj Vastrad1, Chanabasayya Vastrad*2 , Iranna Kotturshetti 1. Department of Biochemistry, Basaveshwar College of Pharmacy, Gadag, Karnataka 582103, India. 2. Biostatistics and Bioinformatics, Chanabasava Nilaya, Bharthinagar, Dharwad 580001, Karanataka, India. 3. Department of Ayurveda, Rajiv Gandhi Education Society`s Ayurvedic Medical College, Ron, Karnataka 562209, India. * Chanabasayya Vastrad [email protected] Ph: +919480073398 Chanabasava Nilaya, Bharthinagar, Dharwad 580001 , Karanataka, India NOTE: This preprint reports new research that has not been certified by peer review and should not be used to guide clinical practice. medRxiv preprint doi: https://doi.org/10.1101/2020.12.21.20248688; this version posted December 24, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Abstract Sporadic Creutzfeldt-Jakob disease (sCJD) is neurodegenerative disease also called prion disease linked with poor prognosis. The aim of the current study was to illuminate the underlying molecular mechanisms of sCJD. The mRNA microarray dataset GSE124571 was downloaded from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were screened. -
REVIEW ARTICLE the Genetics of Autism
REVIEW ARTICLE The Genetics of Autism Rebecca Muhle, BA*; Stephanie V. Trentacoste, BA*; and Isabelle Rapin, MD‡ ABSTRACT. Autism is a complex, behaviorally de- tribution of a few well characterized X-linked disorders, fined, static disorder of the immature brain that is of male-to-male transmission in a number of families rules great concern to the practicing pediatrician because of an out X-linkage as the prevailing mode of inheritance. The astonishing 556% reported increase in pediatric preva- recurrence rate in siblings of affected children is ϳ2% to lence between 1991 and 1997, to a prevalence higher than 8%, much higher than the prevalence rate in the general that of spina bifida, cancer, or Down syndrome. This population but much lower than in single-gene diseases. jump is probably attributable to heightened awareness Twin studies reported 60% concordance for classic au- and changing diagnostic criteria rather than to new en- tism in monozygotic (MZ) twins versus 0 in dizygotic vironmental influences. Autism is not a disease but a (DZ) twins, the higher MZ concordance attesting to ge- syndrome with multiple nongenetic and genetic causes. netic inheritance as the predominant causative agent. By autism (the autistic spectrum disorders [ASDs]), we Reevaluation for a broader autistic phenotype that in- mean the wide spectrum of developmental disorders cluded communication and social disorders increased characterized by impairments in 3 behavioral domains: 1) concordance remarkably from 60% to 92% in MZ twins social interaction; 2) language, communication, and and from 0% to 10% in DZ pairs. This suggests that imaginative play; and 3) range of interests and activities. -
Derepression of Human Embryonic -Globin Promoter by a Locus-Control
Proc. Natl. Acad. Sci. USA Vol. 95, pp. 14669–14674, December 1998 Biochemistry Derepression of human embryonic z-globin promoter by a locus-control region sequence (transgenic miceyenhancerypassive repressionycompetitive factor bindingyglobin switch) B.-L. HUANG*†,I.R.FAN-CHIANG*†,S.C.WEN*, H.-C. KOO*, W. Y. KAO*, N. R. GAVVA‡, AND C.-K. JAMES SHEN*‡§ *Institute of Molecular Biology, Academia Sinica, Nankang, Taipei, Republic of China; and ‡Section of Molecular and Cellular Biology, University of California, Davis, CA 95616 Communicated by James C. Wang, Harvard University, Cambridge, MA, September 28, 1998 (received for review August 12, 1998) ABSTRACT A multiple protein–DNA complex formed at consist of six nuclear factor-binding motifs (10) that are a human a-globin locus-specific regulatory element, HS-40, occupied in vivo in an erythroid lineage-specific and develop- confers appropriate developmental expression pattern on mental stage-specific manner (11, 12). These include three human embryonic z-globin promoter activity in humans and GATA-1 motifs (b, c, and d), two NF-E2yAP1 motifs (59 and transgenic mice. We show here that introduction of a 1-bp 39), and a GT motif (Fig. 1A). In vitro binding studies indicated y mutation in an NF-E2 AP1 sequence motif converts HS-40 that the GT motif predominately binds the ubiquitous Sp1 into an erythroid-specific locus-control region. Cis-linkage factor (13). The GATA-1 motifs bind the GATA family of with this locus-control region, in contrast to the wild-type transcription factors, including the erythroid-enriched HS-40, allows erythroid lineage-specific derepression of the y z GATA-1 (14). -
CADPS2 (NM 001009571) Human Tagged ORF Clone – RC220606
OriGene Technologies, Inc. 9620 Medical Center Drive, Ste 200 Rockville, MD 20850, US Phone: +1-888-267-4436 [email protected] EU: [email protected] CN: [email protected] Product datasheet for RC220606 CADPS2 (NM_001009571) Human Tagged ORF Clone Product data: Product Type: Expression Plasmids Product Name: CADPS2 (NM_001009571) Human Tagged ORF Clone Tag: Myc-DDK Symbol: CADPS2 Synonyms: CAPS2 Vector: pCMV6-Entry (PS100001) E. coli Selection: Kanamycin (25 ug/mL) Cell Selection: Neomycin ORF Nucleotide >RC220606 representing NM_001009571 Sequence: Red=Cloning site Blue=ORF Green=Tags(s) TTTTGTAATACGACTCACTATAGGGCGGCCGGGAATTCGTCGACTGGATCCGGTACCGAGGAGATCTGCC GCCGCGATCGCC ATGCTGGACCCGTCTTCCAGCGAAGAGGAGTCGGACGAGGGGCTGGAAGAGGAAAGCCGCGATGTGCTGG TGGCAGCCGGCAGCTCGCAGCGAGCTCCTCCAGCCCCGACTCGGGAAGGGCGGCGGGACGCGCCGGGGCG CGCGGGCGGCGGCGGCGCGGCCAGATCTGTGAGCCCGAGCCCCTCTGTGCTCAGCGAGGGGCGAGACGAG CCCCAGCGGCAGCTGGACGATGAGCAGGAGCGGAGGATCCGCCTGCAGCTCTACGTCTTCGTCGTGAGGT GCATCGCGTACCCCTTCAACGCCAAGCAGCCCACCGACATGGCCCGGAGGCAGCAGAAGCTTAACAAACA ACAGTTGCAGTTACTGAAAGAACGGTTCCAGGCCTTCCTCAATGGGGAAACCCAAATTGTAGCTGACGAA GCATTTTGCAACGCAGTTCGGAGTTATTATGAGGTTTTTCTAAAGAGTGACCGAGTGGCCAGAATGGTAC AGAGTGGAGGGTGTTCTGCTAATGACTTCAGAGAAGTATTTAAGAAAAACATAGAAAAACGTGTGCGGAG TTTGCCAGAAATAGATGGCTTGAGCAAAGAGACAGTGTTGAGCTCATGGATAGCCAAATATGATGCCATT TACAGAGGTGAAGAGGACTTGTGCAAACAGCCAAATAGAATGGCCCTAAGTGCAGTGTCTGAACTTATTC TGAGCAAGGAACAACTCTATGAAATGTTTCAGCAGATTCTGGGTATTAAAAAACTGGAACACCAGCTCCT TTATAATGCATGTCAGCTGGATAACGCAGATGAACAAGCAGCCCAGATCAGAAGGGAACTTGATGGCCGG CTGCAATTGGCAGATAAAATGGCAAAGGAAAGAAAATTCCCCAAATTTATAGCAAAAGATATGGAGAATA -
Impaired Secretion of Brain-Derived Neurotrophic Factor and Neuropsy- Chiatric Diseases Naoki Adachi and Hiroshi Kunugi*
The Open Neuroscience Journal, 2008, 2, 59-64 59 Open Access Impaired Secretion of Brain-Derived Neurotrophic Factor and Neuropsy- chiatric Diseases Naoki Adachi and Hiroshi Kunugi* Department of Mental Disorder Research, National Institute of Neuroscience, National Center of Neurology and Psychiatry, Tokyo 187-8502, 4-1-1, Ogawahigashi, Tokyo, 187-8502, Japan Abstract: Recent studies have elucidated mechanisms of brain-derived neurotrophic factor (BDNF) secretion, and im- paired secretion of BDNF may be involved in the pathogenesis of several neuropsychiatric diseases. The huntingtin gene, for example, has been shown to regulate vesicular transport of BDNF, which may play a role in the neurodegeneration present in Huntington's disease. In animal studies, mice lacking calcium-dependent activator protein for secretion 2 (CADPS2), which is involved in the activity-dependent release of BDNF, showed several phenotypes including autistic behavior. A single nucleotide polymorphism that results in an amino-acid change (Val66Met) in the BDNF gene has been shown to cause a decline in the function of BDNF vesicular sorting and has been reported to be associated with behavioral and intermediate phenotypes (e.g., episodic memory) in humans. In this review, we introduce recent progress in the mo- lecular mechanisms of BDNF secretion and discuss its possible role in the pathophysiology and treatment of neuropsy- chiatric diseases. INTRODUCTION of transmembrane receptor proteins: the tyrosine kinase Trk (tropomyosin-related kinase) receptors and the low affinity Brain-derived neurotrophic factor (BDNF), a member of common neurotrophin receptor (p75NTR). Neurotrophins the neurotrophin family, has been implicated in a broad are expressed in a precursor form (pro-neurotrophins) and range of processes that are important for neuronal survival are proteolytically processed to a mature form.