Junctophilin-2 Physically Interacts with Ryanodine Receptor Type 2 for Peripheral Coupling of Mouse Cardiomyocytes
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Cooperativity of Imprinted Genes Inactivated by Acquired Chromosome 20Q Deletions
Cooperativity of imprinted genes inactivated by acquired chromosome 20q deletions Athar Aziz, … , Anne C. Ferguson-Smith, Anthony R. Green J Clin Invest. 2013;123(5):2169-2182. https://doi.org/10.1172/JCI66113. Research Article Oncology Large regions of recurrent genomic loss are common in cancers; however, with a few well-characterized exceptions, how they contribute to tumor pathogenesis remains largely obscure. Here we identified primate-restricted imprinting of a gene cluster on chromosome 20 in the region commonly deleted in chronic myeloid malignancies. We showed that a single heterozygous 20q deletion consistently resulted in the complete loss of expression of the imprinted genes L3MBTL1 and SGK2, indicative of a pathogenetic role for loss of the active paternally inherited locus. Concomitant loss of both L3MBTL1 and SGK2 dysregulated erythropoiesis and megakaryopoiesis, 2 lineages commonly affected in chronic myeloid malignancies, with distinct consequences in each lineage. We demonstrated that L3MBTL1 and SGK2 collaborated in the transcriptional regulation of MYC by influencing different aspects of chromatin structure. L3MBTL1 is known to regulate nucleosomal compaction, and we here showed that SGK2 inactivated BRG1, a key ATP-dependent helicase within the SWI/SNF complex that regulates nucleosomal positioning. These results demonstrate a link between an imprinted gene cluster and malignancy, reveal a new pathogenetic mechanism associated with acquired regions of genomic loss, and underline the complex molecular and cellular consequences of “simple” cancer-associated chromosome deletions. Find the latest version: https://jci.me/66113/pdf Research article Cooperativity of imprinted genes inactivated by acquired chromosome 20q deletions Athar Aziz,1,2 E. Joanna Baxter,1,2,3 Carol Edwards,4 Clara Yujing Cheong,5 Mitsuteru Ito,4 Anthony Bench,3 Rebecca Kelley,1,2 Yvonne Silber,1,2 Philip A. -
A Private 16Q24.2Q24.3 Microduplication in a Boy with Intellectual Disability, Speech Delay and Mild Dysmorphic Features
G C A T T A C G G C A T genes Article A Private 16q24.2q24.3 Microduplication in a Boy with Intellectual Disability, Speech Delay and Mild Dysmorphic Features Orazio Palumbo * , Pietro Palumbo , Ester Di Muro, Luigia Cinque, Antonio Petracca, Massimo Carella and Marco Castori Division of Medical Genetics, Fondazione IRCCS-Casa Sollievo della Sofferenza, San Giovanni Rotondo, 71013 Foggia, Italy; [email protected] (P.P.); [email protected] (E.D.M.); [email protected] (L.C.); [email protected] (A.P.); [email protected] (M.C.); [email protected] (M.C.) * Correspondence: [email protected]; Tel.: +39-088-241-6350 Received: 5 June 2020; Accepted: 24 June 2020; Published: 26 June 2020 Abstract: No data on interstitial microduplications of the 16q24.2q24.3 chromosome region are available in the medical literature and remain extraordinarily rare in public databases. Here, we describe a boy with a de novo 16q24.2q24.3 microduplication at the Single Nucleotide Polymorphism (SNP)-array analysis spanning ~2.2 Mb and encompassing 38 genes. The patient showed mild-to-moderate intellectual disability, speech delay and mild dysmorphic features. In DECIPHER, we found six individuals carrying a “pure” overlapping microduplication. Although available data are very limited, genomic and phenotype comparison of our and previously annotated patients suggested a potential clinical relevance for 16q24.2q24.3 microduplication with a variable and not (yet) recognizable phenotype predominantly affecting cognition. Comparing the cytogenomic data of available individuals allowed us to delineate the smallest region of overlap involving 14 genes. Accordingly, we propose ANKRD11, CDH15, and CTU2 as candidate genes for explaining the related neurodevelopmental manifestations shared by these patients. -
Huntington's Disease Like-2: Review and Update
Review Article 1 Huntington’s Disease Like-2: Review and Update Russell L. Margolis1,2,3, Dobrila D. Rudnicki1, and Susan E. Holmes1 Abstract- Huntington’s Disease-like 2 (HDL2), like Huntington’s disease (HD), is an adult onset, progres- sive, neurodegenerative autosomal dominant disorder clinically characterized by abnormal movements, dementia, and psychiatric syndromes. Like HD, the neuropathology of HDL2 features prominent cortical and striatal atrophy and intranuclear inclusions. HDL2 is generally rare, accounting for only a few percent of HD-like cases in which the HD mutation has already been excluded. However, the rate is considerably higher among individuals of African ancestry, and is almost as common as HD in Black South Africans. The disorder is caused by a CTG/CAG expansion mutation on chromosome 16q24.3, with normal and expanded repeat ranges similar to HD, and a correlation between repeat length and onset age very similar to HD. Surprisingly, the available evidence suggests that HDL2 is not a polyglutamine disease. Rather, the repeat expansion is located within Junctophilin-3 in the CTG orientation. The phenotypic similarities between HD and HDL2 suggest that understanding the pathobiology of HDL2 may shed new light on the pathogenesis of HD and other disorders of striatal neurodegeneration. Key Words: Huntington’s disease Like-2, Huntington disease, Neurodegeneration, Neurogenetic disease Acta Neurol Taiwan 2005;14:1-8 INTRODUCTION sis(3,4). Neuronal loss is also present in the cerebral cor- tex, particularly in layers III, V, and VI(5) and to a milder Huntington’s disease, first described by George degree in globus pallidus, thalamus, subthalamic nucle- Huntington in 1872 is characterized by a triad of move- us, and substantia nigra. -
1 Inventory of Supplemental Information Presented in Relation To
Inventory of Supplemental Information presented in relation to each of the main figures in the manuscript 1. Figure S1. Related to Figure 1. 2. Figure S2. Related to Figure 2. 3. Figure S3. Related to Figure 3. 4. Figure S4. Related to Figure 4. 5. Figure S5. Related to Figure 5. 6. Figure S6. Related to Figure 6. 7. Figure S7. Related to Figure 7. 8. Table S1. Related to Figures 1 and S1. 9. Table S2. Related to Figures 3, 4, 6 and 7. 10. Table S3. Related to Figure 3. Supplemental Experimental Procedures 1. Patients and samples 2. Cell culture 3. Long term culture-initiating cells (LTC-IC) assay 4. Differentiation of CD34+ cord blood cells 5. Bi-phasic erythroid differentiation assay 6. Clonal assay 7. Mutation and sequencing analysis 8. Bisulphite sequencing and quantitative pyrosequencing 9. Human SNP genotyping 10. Strand-specific cDNA synthesis and PCR 11. Chromatin Immuno-precipitation (ChIP) 12. Immunoprecipitation and western blot 13. Colony genotyping 14. shRNA generation and viral infection 15. Retrovirus generation and transduction 16. Study approval 17. Statistical Methods 18. Primers list Supplementary References (19) 1 Additional SGK2 families 2 3 4 ♂ ♀ ♂ ♀ ♂ ♀ C/G C/C C/C C/G C/C C/G ♀ ♀ ♂ ♀ C/G C/G C/G C/G T T C T G C T A G A T T C T C C T A G A T T C T C C T A G A T T C T C C T A G A T-Cells T-Cells T-Cells T-Cells Additional GDAP1L1 familiy 2 ♂ ♀ G/G A/A ♀ G/A A C A C G G T G Erythroblasts Figure S1 - . -
Genomic Analyses Implicate Noncoding De Novo Variants in Congenital Heart Disease
Lawrence Berkeley National Laboratory Recent Work Title Genomic analyses implicate noncoding de novo variants in congenital heart disease. Permalink https://escholarship.org/uc/item/1ps986vj Journal Nature genetics, 52(8) ISSN 1061-4036 Authors Richter, Felix Morton, Sarah U Kim, Seong Won et al. Publication Date 2020-08-01 DOI 10.1038/s41588-020-0652-z Peer reviewed eScholarship.org Powered by the California Digital Library University of California HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author Nat Genet Manuscript Author . Author manuscript; Manuscript Author available in PMC 2020 December 29. Published in final edited form as: Nat Genet. 2020 August ; 52(8): 769–777. doi:10.1038/s41588-020-0652-z. Genomic analyses implicate noncoding de novo variants in congenital heart disease Felix Richter1,31, Sarah U. Morton2,3,31, Seong Won Kim4,31, Alexander Kitaygorodsky5,31, Lauren K. Wasson4,31, Kathleen M. Chen6,31, Jian Zhou6,7,8, Hongjian Qi5, Nihir Patel9, Steven R. DePalma4, Michael Parfenov4, Jason Homsy4,10, Joshua M. Gorham4, Kathryn B. Manheimer11, Matthew Velinder12, Andrew Farrell12, Gabor Marth12, Eric E. Schadt9,11,13, Jonathan R. Kaltman14, Jane W. Newburger15, Alessandro Giardini16, Elizabeth Goldmuntz17,18, Martina Brueckner19, Richard Kim20, George A. Porter Jr.21, Daniel Bernstein22, Wendy K. Chung23, Deepak Srivastava24,32, Martin Tristani-Firouzi25,32, Olga G. Troyanskaya6,7,26,32, Diane E. Dickel27,32, Yufeng Shen5,32, Jonathan G. Seidman4,32, Christine E. Seidman4,28,32, Bruce D. Gelb9,29,30,32,* 1Graduate School of Biomedical Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA. 2Department of Pediatrics, Harvard Medical School, Boston, MA, USA. -
The DNA Sequence and Comparative Analysis of Human Chromosome 20
articles The DNA sequence and comparative analysis of human chromosome 20 P. Deloukas, L. H. Matthews, J. Ashurst, J. Burton, J. G. R. Gilbert, M. Jones, G. Stavrides, J. P. Almeida, A. K. Babbage, C. L. Bagguley, J. Bailey, K. F. Barlow, K. N. Bates, L. M. Beard, D. M. Beare, O. P. Beasley, C. P. Bird, S. E. Blakey, A. M. Bridgeman, A. J. Brown, D. Buck, W. Burrill, A. P. Butler, C. Carder, N. P. Carter, J. C. Chapman, M. Clamp, G. Clark, L. N. Clark, S. Y. Clark, C. M. Clee, S. Clegg, V. E. Cobley, R. E. Collier, R. Connor, N. R. Corby, A. Coulson, G. J. Coville, R. Deadman, P. Dhami, M. Dunn, A. G. Ellington, J. A. Frankland, A. Fraser, L. French, P. Garner, D. V. Grafham, C. Grif®ths, M. N. D. Grif®ths, R. Gwilliam, R. E. Hall, S. Hammond, J. L. Harley, P. D. Heath, S. Ho, J. L. Holden, P. J. Howden, E. Huckle, A. R. Hunt, S. E. Hunt, K. Jekosch, C. M. Johnson, D. Johnson, M. P. Kay, A. M. Kimberley, A. King, A. Knights, G. K. Laird, S. Lawlor, M. H. Lehvaslaiho, M. Leversha, C. Lloyd, D. M. Lloyd, J. D. Lovell, V. L. Marsh, S. L. Martin, L. J. McConnachie, K. McLay, A. A. McMurray, S. Milne, D. Mistry, M. J. F. Moore, J. C. Mullikin, T. Nickerson, K. Oliver, A. Parker, R. Patel, T. A. V. Pearce, A. I. Peck, B. J. C. T. Phillimore, S. R. Prathalingam, R. W. Plumb, H. Ramsay, C. M. -
Mutation of Junctophilin Type 2 Associated with Hypertrophic Cardiomyopathy
J Hum Genet (2007) 52:543–548 DOI 10.1007/s10038-007-0149-y ORIGINAL ARTICLE Mutation of junctophilin type 2 associated with hypertrophic cardiomyopathy Yoshihisa Matsushita Æ Toru Furukawa Æ Hiroshi Kasanuki Æ Makoto Nishibatake Æ Yachiyo Kurihara Æ Atsushi Ikeda Æ Naoyuki Kamatani Æ Hiroshi Takeshima Æ Rumiko Matsuoka Received: 1 March 2007 / Accepted: 31 March 2007 / Published online: 3 May 2007 Ó The Japan Society of Human Genetics and Springer 2007 Abstract Junctophilin subtypes, designated as JPH1~4, showed statistical significance (4/296 HCM patients and 0/ are protein components of junctional complexes and play 472 control individuals, P=0.022). This result was still essential roles in cellular Ca2+ signaling in excitable cells. significant after Bonferroni’s correction for multiple com- Knockout mice lacking the cardiac-type Jph2 die of parisons (P=0.044). To the best of our knowledge, this is embryonic cardiac arrest, and the mutant cardiac myocytes the first report on JPH2 mutation associated with HCM. exhibit impaired formation of peripheral couplings and arrhythmic Ca2+ signaling caused by functional uncoupling Keywords Junctophilin Á Hypertrophic cardiomyopathy Á between dihydropyridine and ryanodine receptor channels. Ca2+ signaling Á Ryanodine receptor Á Junctional membrane Based on these observations, we hypothesized that muta- complexes Á Ca2+-induced Ca2+ release tions of JPH2 could cause human genetic cardiac diseases. Among 195 Japanese patients (148 index cases and 47 affected family members) with hypertrophic cardiomyop- Introduction athy (HCM), two heterozygous nonsynonymous nucleotide transitions, G505S and R436C, were newly found in JPH2. Functional communications between cell-surface and When Fisher’s exact test was used to compare index cases intracellular channels are essential features of excitable with HCM to unrelated Japanese healthy controls in the cells (Berridge 2002). -
Using an Atlas of Gene Regulation Across 44 Human Tissues to Inform Complex Disease- and Trait-Associated Variation
ARTICLES https://doi.org/10.1038/s41588-018-0154-4 Using an atlas of gene regulation across 44 human tissues to inform complex disease- and trait-associated variation Eric R. Gamazon 1,2,21*, Ayellet V. Segrè 3,4,21*, Martijn van de Bunt 5,6,21, Xiaoquan Wen7, Hualin S. Xi8, Farhad Hormozdiari 9,10, Halit Ongen 11,12,13, Anuar Konkashbaev1, Eske M. Derks 14, François Aguet 3, Jie Quan8, GTEx Consortium15, Dan L. Nicolae16,17,18, Eleazar Eskin9, Manolis Kellis3,19, Gad Getz 3,20, Mark I. McCarthy 5,6, Emmanouil T. Dermitzakis 11,12,13, Nancy J. Cox1 and Kristin G. Ardlie3 We apply integrative approaches to expression quantitative loci (eQTLs) from 44 tissues from the Genotype-Tissue Expression project and genome-wide association study data. About 60% of known trait-associated loci are in linkage disequilibrium with a cis-eQTL, over half of which were not found in previous large-scale whole blood studies. Applying polygenic analyses to meta- bolic, cardiovascular, anthropometric, autoimmune, and neurodegenerative traits, we find that eQTLs are significantly enriched for trait associations in relevant pathogenic tissues and explain a substantial proportion of the heritability (40–80%). For most traits, tissue-shared eQTLs underlie a greater proportion of trait associations, although tissue-specific eQTLs have a greater contribution to some traits, such as blood pressure. By integrating information from biological pathways with eQTL target genes and applying a gene-based approach, we validate previously implicated causal genes and pathways, and propose new variant and gene associations for several complex traits, which we replicate in the UK BioBank and BioVU. -
Cardionext®: Analyses of 92 Genes Associated with Inherited Cardiomyopathies and Arrhythmias
SAMPLE REPORT Ordered By Contact ID:1332810 Org ID:8141 Patient Name: 8911, Test08 Medical Rhodarmer, Jake, MA Accession #: 00-135397 Specimen #: Professional: AP2 Order #: 614269 Specimen: Blood EDTA (Purple Client: MOCKORG44 (10829) top) Birthdate: 09/08/9999 Gender: U MRN #: N/A Collected: N/A Indication: Internal Testing Received: 11/20/2018 CardioNext®: Analyses of 92 Genes Associated with Inherited Cardiomyopathies and Arrhythmias RESULTS SCN5A Variant, Unknown Significance: p.P877R SUMMARY Variant of Unknown Significance Detected INTERPRETATION No known clinically actionable alterations were detected. One variant of unknown significance was detected in the SCN5A gene. Risk Estimate: should be based on clinical and family history, as the clinical significance of this result is unknown. Genetic testing for variants of unknown significance (VUSs) in family members may be pursued to help clarify VUS significance, but cannot be used to identify at-risk individuals at this time. Genetic counseling is a recommended option for all individuals undergoing genetic testing. This individual is heterozygous for the p.P877R (c.2630C>G) variant of unknown significance in the SCN5A gene, which may or may not contribute to this individual's clinical history. Refer to the supplementary pages for additional information on this variant. No additional pathogenic mutations, variants of unknown significance, or gross deletions or duplications were detected. Genes Analyzed (92 total): ABCC9, ACTC1, ACTN2, AKAP9, ALMS1, ALPK3, ANK2, ANKRD1, BAG3, CACNA1C, -
JPH3 Gene Junctophilin 3
JPH3 gene junctophilin 3 Normal Function The JPH3 gene provides instructions for making a protein called junctophilin-3, which is found primarily in the brain. Although the exact function of this protein is unclear, researchers believe that it plays a role in the formation of a structure called the junctional membrane complex. This complex connects certain channels inside cells with other channels at the cell surface. The junctional membrane complex appears to be involved in the release of charged calcium atoms (calcium ions), which are critical for transmitting signals within cells. As part of the junctional membrane complex, junctophilin-3 is probably involved in signaling within and between nerve cells (neurons) in the brain. One region of the JPH3 gene contains a particular DNA segment known as a CAG/CTG trinucleotide repeat. This segment is made up of a series of three DNA building blocks ( nucleotides) that appear multiple times in a row. Normally, the CAG/CTG segment is repeated 6 to 28 times within the gene. Health Conditions Related to Genetic Changes Huntington disease-like syndrome A particular type of mutation in the JPH3 gene has been found to cause signs and symptoms that resemble those of Huntington disease, including uncontrolled movements, emotional problems, and loss of thinking ability. Researchers have named this condition Huntington disease-like 2 (HDL2). The mutation associated with HDL2 increases the size of the CAG/CTG trinucleotide repeat in the JPH3 gene. People with this condition have 44 to 59 CAG/CTG repeats. People with 29 to about 43 CAG/CTG repeats may or may not develop the signs and symptoms of HDL2. -
Antisense Transcription Across Nucleotide Repeat Expansions in Neurodegenerative and Neuromuscular Diseases: Progress and Mysteries
G C A T T A C G G C A T genes Review Antisense Transcription across Nucleotide Repeat Expansions in Neurodegenerative and Neuromuscular Diseases: Progress and Mysteries Ana F. Castro 1,2,3, Joana R. Loureiro 1,2, José Bessa 2,4 and Isabel Silveira 1,2,* 1 Genetics of Cognitive Dysfunction Laboratory, i3S- Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal; [email protected] (A.F.C.); [email protected] (J.R.L.) 2 IBMC-Institute for Molecular and Cell Biology, Universidade do Porto, 4200-135 Porto, Portugal; [email protected] 3 ICBAS, Universidade do Porto, 4050-313 Porto, Portugal 4 Vertebrate Development and Regeneration Laboratory, i3S- Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal * Correspondence: [email protected]; Tel.: +351-2240-8800 Received: 30 October 2020; Accepted: 24 November 2020; Published: 27 November 2020 Abstract: Unstable repeat expansions and insertions cause more than 30 neurodegenerative and neuromuscular diseases. Remarkably, bidirectional transcription of repeat expansions has been identified in at least 14 of these diseases. More remarkably, a growing number of studies has been showing that both sense and antisense repeat RNAs are able to dysregulate important cellular pathways, contributing together to the observed clinical phenotype. Notably, antisense repeat RNAs from spinocerebellar ataxia type 7, myotonic dystrophy type 1, Huntington’s disease and frontotemporal dementia/amyotrophic lateral sclerosis associated genes have been implicated in transcriptional regulation of sense gene expression, acting either at a transcriptional or posttranscriptional level. The recent evidence that antisense repeat RNAs could modulate gene expression broadens our understanding of the pathogenic pathways and adds more complexity to the development of therapeutic strategies for these disorders. -
Emerging Roles of Junctophilin-2 in the Heart and Implications for Cardiac Diseases
Cardiovascular Research (2014) 103, 198–205 REVIEW doi:10.1093/cvr/cvu151 Emerging roles of junctophilin-2 in the heart and implications for cardiac diseases David L. Beavers1,2, Andrew P. Landstrom1,3, David Y. Chiang1,2, and Xander H.T. Wehrens1,4,5* 1Cardiovascular Research Institute, Baylor College of Medicine, Houston, TX, USA; 2Translational Biology and Molecular Medicine Program, Baylor College of Medicine, Houston, TX, USA; 3Department of Pediatrics, Baylor College of Medicine, Houston, TX, USA; 4Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, TX, USA; and 5Deptartment of Medicine (Cardiology), Baylor College of Medicine, Houston, TX, USA Downloaded from Received 19 February 2014; revised 30 May 2014; accepted 5 June 2014; online publish-ahead-of-print 15 June 2014 Cardiomyocytes rely on a highly specialized subcellular architecture to maintain normal cardiac function. In a little over a decade, junctophilin-2 (JPH2) has become recognized as a cardiac structural protein critical in forming junctional membrane complexes (JMCs), which are subcellular http://cardiovascres.oxfordjournals.org/ domains essential for excitation–contraction coupling within the heart. While initial studies described the structure of JPH2 and its role in anchoring junctional sarcoplasmic reticulum and transverse-tubule (T-tubule) membrane invaginations, recent research has an expanded role of JPH2 in JMC structure and function. Forexample, JPH2isnecessary for the developmentof postnatal T-tubule in mammals.Itis alsocriticalfor themaintenance of the complexJMCarchitectureand stabilizationoflocalionchannelsinmature cardiomyocytes. Lossofthisfunctionbymutationsordown-regulation of protein expression has been linked to hypertrophic cardiomyopathy, arrhythmias, and progression of disease in failing hearts. In this review, we summarize current views on the roles of JPH2 within the heart and how JPH2 dysregulation may contribute to a variety of cardiac diseases.