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Abstract
Oculocutaneous albinism, Menkes syndrome, tuberous sclerosis, neurofibromatosis type 1, dyskeratosis congenita, lentiginosis profusa syndrome, incontinentia pigmenti, and Waardenburg syndrome all are genodermatoses that have well established gene mutations affecting multiple biological pathways, including melanin synthesis, copper transport, cellular proliferation, telomerase function, apoptosis, and melanocyte biology. Onchocerciasis results from a systemic inflammatory response to a nematode infection. Hypomelanosis of Ito is caused by chromosomal mosaicism, which underlies its phenotypic heterogeneity. Incomplete migration of melanocytes to the epidermis and other organs is the underlying feature of nevus of Ota. Vogt-Koyangi-Harada and vitiligo have an autoimmune etiology; the former is associated with considerable multiorgan involvement, while the latter is predominantly skin-limited.
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Affiliation(s)
- Syril Keena T Que
- Department of Dermatology, University of Connecticut Health Center, 21 South Road, Farmington, CT 06032
| | - Gillian Weston
- Department of Dermatology, University of Connecticut Health Center, 21 South Road, Farmington, CT 06032
| | - Jeanine Suchecki
- Department of Ophthalmology, University of Connecticut Health Center, 21 South Road, Farmington, CT 06032
| | - Janelle Ricketts
- Department of Dermatology, University of Connecticut Health Center, 21 South Road, Farmington, CT 06032.
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152
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Ando R, Shima H, Tamahara T, Sato Y, Watanabe-Matsui M, Kato H, Sax N, Motohashi H, Taguchi K, Yamamoto M, Nio M, Maeda T, Ochiai K, Muto A, Igarashi K. The Transcription Factor Bach2 Is Phosphorylated at Multiple Sites in Murine B Cells but a Single Site Prevents Its Nuclear Localization. J Biol Chem 2015; 291:1826-1840. [PMID: 26620562 DOI: 10.1074/jbc.m115.661702] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2015] [Indexed: 12/22/2022] Open
Abstract
The transcription factor Bach2 regulates the immune system at multiple points, including class switch recombination (CSR) in activated B cells and the function of T cells in part by restricting their terminal differentiation. However, the regulation of Bach2 expression and its activity in the immune cells are still unclear. Here, we demonstrated that Bach2 mRNA expression decreased in Pten-deficient primary B cells. Bach2 was phosphorylated in primary B cells, which was increased upon the activation of the B cell receptor by an anti-immunoglobulin M (IgM) antibody or CD40 ligand. Using specific inhibitors of kinases, the phosphorylation of Bach2 in activated B cells was shown to depend on the phosphatidylinositol 3-kinase (PI3K)-Akt-mammalian target of rapamycin (mTOR) pathway. The complex of mTOR and Raptor phosphorylated Bach2 in vitro. We identified multiple new phosphorylation sites of Bach2 by mass spectrometry analysis of epitope-tagged Bach2 expressed in the mature B cell line BAL17. Among the sites identified, serine 535 (Ser-535) was critical for the regulation of Bach2 because a single mutation of Ser-535 abolished cytoplasmic accumulation of Bach2, promoting its nuclear accumulation in pre-B cells, whereas Ser-509 played an auxiliary role. Bach2 repressor activity was enhanced by the Ser-535 mutation in B cells. These results suggest that the PI3K-Akt-mTOR pathway inhibits Bach2 by both repressing its expression and inducing its phosphorylation in B cells.
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Affiliation(s)
- Ryo Ando
- From the Departments of Biochemistry,; Pediatric Surgery, and
| | - Hiroki Shima
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and
| | - Toru Tamahara
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and; the Department of Preventive Dentistry, Tohoku University Graduate School of Dentistry, Seiryo-machi 4-1, Sendai 980-8575
| | | | | | | | - Nicolas Sax
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and
| | - Hozumi Motohashi
- Department of Gene Expression Regulation, Institute of Development, Aging, and Cancer, Tohoku University, Seiryo-machi 4-1, Sendai 980-8575
| | - Keiko Taguchi
- Medical Biochemistry, Tohoku University Graduate School of Medicine, Seiryo-machi 2-1, Sendai 980-8575
| | - Masayuki Yamamoto
- Medical Biochemistry, Tohoku University Graduate School of Medicine, Seiryo-machi 2-1, Sendai 980-8575
| | | | - Tatsuya Maeda
- the Laboratory of Membrane Proteins, Institute of Molecular and Cellular Biosciences, University of Tokyo, 1-1-1 Yayoi, Tokyo 113-0032, Japan
| | - Kyoko Ochiai
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and; Center for Regulatory Epigenome and Diseases, Tohoku University Graduate School of Medicine, Seiryo-machi 2-1, Sendai 980-8575
| | - Akihiko Muto
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and
| | - Kazuhiko Igarashi
- From the Departments of Biochemistry,; CREST, Japan Science and Technology Agency, Seiryo-machi 2-1, Sendai 980-8575, and; Center for Regulatory Epigenome and Diseases, Tohoku University Graduate School of Medicine, Seiryo-machi 2-1, Sendai 980-8575,.
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153
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Dey-Rao R, Sinha AA. Interactome analysis of gene expression profile reveals potential novel key transcriptional regulators of skin pathology in vitiligo. Genes Immun 2015; 17:30-45. [DOI: 10.1038/gene.2015.48] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Revised: 09/25/2015] [Accepted: 09/29/2015] [Indexed: 12/13/2022]
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154
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Timofeeva MN, Kinnersley B, Farrington SM, Whiffin N, Palles C, Svinti V, Lloyd A, Gorman M, Ooi LY, Hosking F, Barclay E, Zgaga L, Dobbins S, Martin L, Theodoratou E, Broderick P, Tenesa A, Smillie C, Grimes G, Hayward C, Campbell A, Porteous D, Deary IJ, Harris SE, Northwood EL, Barrett JH, Smith G, Wolf R, Forman D, Morreau H, Ruano D, Tops C, Wijnen J, Schrumpf M, Boot A, Vasen HFA, Hes FJ, van Wezel T, Franke A, Lieb W, Schafmayer C, Hampe J, Buch S, Propping P, Hemminki K, Försti A, Westers H, Hofstra R, Pinheiro M, Pinto C, Teixeira M, Ruiz-Ponte C, Fernández-Rozadilla C, Carracedo A, Castells A, Castellví-Bel S, Campbell H, Bishop DT, Tomlinson IPM, Dunlop MG, Houlston RS. Recurrent Coding Sequence Variation Explains Only A Small Fraction of the Genetic Architecture of Colorectal Cancer. Sci Rep 2015; 5:16286. [PMID: 26553438 PMCID: PMC4639776 DOI: 10.1038/srep16286] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2015] [Accepted: 09/21/2015] [Indexed: 12/21/2022] Open
Abstract
Whilst common genetic variation in many non-coding genomic regulatory regions are known to impart risk of colorectal cancer (CRC), much of the heritability of CRC remains unexplained. To examine the role of recurrent coding sequence variation in CRC aetiology, we genotyped 12,638 CRCs cases and 29,045 controls from six European populations. Single-variant analysis identified a coding variant (rs3184504) in SH2B3 (12q24) associated with CRC risk (OR = 1.08, P = 3.9 × 10(-7)), and novel damaging coding variants in 3 genes previously tagged by GWAS efforts; rs16888728 (8q24) in UTP23 (OR = 1.15, P = 1.4 × 10(-7)); rs6580742 and rs12303082 (12q13) in FAM186A (OR = 1.11, P = 1.2 × 10(-7) and OR = 1.09, P = 7.4 × 10(-8)); rs1129406 (12q13) in ATF1 (OR = 1.11, P = 8.3 × 10(-9)), all reaching exome-wide significance levels. Gene based tests identified associations between CRC and PCDHGA genes (P < 2.90 × 10(-6)). We found an excess of rare, damaging variants in base-excision (P = 2.4 × 10(-4)) and DNA mismatch repair genes (P = 6.1 × 10(-4)) consistent with a recessive mode of inheritance. This study comprehensively explores the contribution of coding sequence variation to CRC risk, identifying associations with coding variation in 4 genes and PCDHG gene cluster and several candidate recessive alleles. However, these findings suggest that recurrent, low-frequency coding variants account for a minority of the unexplained heritability of CRC.
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Affiliation(s)
- Maria N. Timofeeva
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Ben Kinnersley
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Susan M. Farrington
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Nicola Whiffin
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Claire Palles
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
| | - Victoria Svinti
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Amy Lloyd
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Maggie Gorman
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
| | - Li-Yin Ooi
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Fay Hosking
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Ella Barclay
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
| | - Lina Zgaga
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Sara Dobbins
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Lynn Martin
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
| | - Evropi Theodoratou
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
- Centre for Population Health Sciences, University of Edinburgh, Teviot Place, Edinburgh EH8 9AG, United Kingdom
| | - Peter Broderick
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
| | - Albert Tenesa
- Roslin Institute, University of Edinburgh, Easter Bush, Roslin EH25 9RG, United Kingdom
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Claire Smillie
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Graeme Grimes
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Caroline Hayward
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Archie Campbell
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
- Generation Scotland, Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - David Porteous
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
- Generation Scotland, Institute of Genetics and Molecular Medicine, University of Edinburgh, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Ian J. Deary
- University of Edinburgh Centre for Cognitive Ageing and Cognitive Epidemiology, Department of Psychology, University of Edinburgh, Edinburgh EH8 9JZ, United Kingdom
| | - Sarah E. Harris
- Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
- University of Edinburgh Centre for Cognitive Ageing and Cognitive Epidemiology, Department of Psychology, University of Edinburgh, Edinburgh EH8 9JZ, United Kingdom
| | - Emma L. Northwood
- Section of Epidemiology & Biostatistics, Leeds Institute of Cancer and Pathology, University of Leeds, St James’s University Hospital, Leeds, UK
| | - Jennifer H. Barrett
- Section of Epidemiology & Biostatistics, Leeds Institute of Cancer and Pathology, University of Leeds, St James’s University Hospital, Leeds, UK
| | - Gillian Smith
- Medical Research Institute, University of Dundee, Dundee, UK
| | - Roland Wolf
- Medical Research Institute, University of Dundee, Dundee, UK
| | | | - Hans Morreau
- Department of Pathology, Leiden University Medical Center, The Netherlands
| | - Dina Ruano
- Department of Pathology, Leiden University Medical Center, The Netherlands
| | - Carli Tops
- Department of Clinical Genetics, Leiden University Medical Center, The Netherlands
| | - Juul Wijnen
- Department of Human Genetics, Leiden University Medical Center, The Netherlands
| | - Melanie Schrumpf
- Department of Pathology, Leiden University Medical Center, The Netherlands
| | - Arnoud Boot
- Department of Pathology, Leiden University Medical Center, The Netherlands
| | - Hans F A Vasen
- Department of Gastroenterology, Leiden University Medical Center, The Netherlands
| | - Frederik J. Hes
- Department of Clinical Genetics, Leiden University Medical Center, The Netherlands
| | - Tom van Wezel
- Department of Pathology, Leiden University Medical Center, The Netherlands
| | - Andre Franke
- Institute of Clinical Molecular Biology, University Hospital Schleswig-Holstein, Campus Kiel, Kiel, Germany
| | - Wolgang Lieb
- Institute of Epidemiology, Christian-Albrechts-University Kiel, Kiel
| | - Clemens Schafmayer
- Department of General and Thoracic Surgery, University Hospital Schleswig-Holstein, Campus Kiel, Kiel, Germany
| | - Jochen Hampe
- Medical Department 1, University Hospital Dresden, TU Dresden, Dresden, Germany
| | - Stephan Buch
- Medical Department 1, University Hospital Dresden, TU Dresden, Dresden, Germany
| | - Peter Propping
- Institute of Human Genetics, University Hospital Bonn, Bonn, Germany
| | - Kari Hemminki
- Division of Molecular Genetic Epidemiology, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany
- Center for Primary Health Care Research, Lund University, 205 02 Malmö, Sweden
| | - Asta Försti
- Division of Molecular Genetic Epidemiology, German Cancer Research Center (DKFZ), Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany
- Center for Primary Health Care Research, Lund University, 205 02 Malmö, Sweden
| | - Helga Westers
- University of Groningen, University Medical Centre Groningen, Department of Genetics, PO Box 30001, 9700 RB Groningen, the Netherlands
| | - Robert Hofstra
- University of Groningen, University Medical Centre Groningen, Department of Genetics, PO Box 30001, 9700 RB Groningen, the Netherlands
- Department of Clinical Genetics, Erasmus Medical Center, Dr. Molewaterplein 50, 3015 GE Rotterdam, the Netherlands
| | - Manuela Pinheiro
- Department of Genetics, Portuguese Oncology Institute and Biomedical Sciences Institute (ICBAS), University of Porto, Porto, Portugal
| | - Carla Pinto
- Department of Genetics, Portuguese Oncology Institute and Biomedical Sciences Institute (ICBAS), University of Porto, Porto, Portugal
| | - Manuel Teixeira
- Department of Genetics, Portuguese Oncology Institute and Biomedical Sciences Institute (ICBAS), University of Porto, Porto, Portugal
| | - Clara Ruiz-Ponte
- Fundación Pública Galega de Medicina Xenómica (FPGMX), Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), Genomics Medicine Group, Hospital Clínico, 15706 Santiago de Compostela, University of Santiago de Compostela, Galicia, Spain
| | - Ceres Fernández-Rozadilla
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
- Fundación Pública Galega de Medicina Xenómica (FPGMX), Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), Genomics Medicine Group, Hospital Clínico, 15706 Santiago de Compostela, University of Santiago de Compostela, Galicia, Spain
| | - Angel Carracedo
- Fundación Pública Galega de Medicina Xenómica (FPGMX), Centro de Investigación Biomédica en Red de Enfermedades Raras (CIBERER), Genomics Medicine Group, Hospital Clínico, 15706 Santiago de Compostela, University of Santiago de Compostela, Galicia, Spain
| | - Antoni Castells
- Servei de Gastroenterologia, Hospital Clínic, Institut d’Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), University of Barcelona, 08036 Barcelona, Catalonia, Spain
| | - Sergi Castellví-Bel
- Servei de Gastroenterologia, Hospital Clínic, Institut d’Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), University of Barcelona, 08036 Barcelona, Catalonia, Spain
| | - Harry Campbell
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
- Centre for Population Health Sciences, University of Edinburgh, Teviot Place, Edinburgh EH8 9AG, United Kingdom
| | - D. Timothy Bishop
- Section of Epidemiology & Biostatistics, Leeds Institute of Cancer and Pathology, University of Leeds, St James’s University Hospital, Leeds, UK
| | - Ian P M Tomlinson
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
| | - Malcolm G. Dunlop
- Colon Cancer Genetics Group, Institute of Genetics and Molecular Medicine, University of Edinburgh and MRC Human Genetics Unit, Western General Hospital Edinburgh, Crewe Road, Edinburgh, EH4 2XU, United Kingdom
| | - Richard S. Houlston
- Division of Genetics and Epidemiology, The Institute of Cancer Research, Sutton, Surrey SM2 5NG, United Kingdom
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Nagui NA, Mahmoud SB, Abdel Hay RM, Hassieb MM, Rashed LA. Assessment of gene expression levels of proopiomelanocortin (POMC) and melanocortin-1 receptor (MC1R) in vitiligo. Australas J Dermatol 2015; 58:e36-e39. [DOI: 10.1111/ajd.12408] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2015] [Accepted: 09/08/2015] [Indexed: 11/28/2022]
Affiliation(s)
- Noha A Nagui
- Dermatology Department; Cairo University; Cairo Egypt
| | | | | | - May M Hassieb
- Dermatology Department; Cairo University; Cairo Egypt
| | - Laila A Rashed
- Clinical Biochemistry Department; Faculty of Medicine; Cairo University; Cairo Egypt
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156
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Schunter JA, Löffler D, Wiesner T, Kovacs P, Badenhoop K, Aust G, Tönjes A, Müller P, Baber R, Simon JC, Führer D, Pfäffle RW, Thiery J, Stumvoll M, Kiess W, Kratzsch J, Körner A. A novel FoxD3 Variant Is Associated With Vitiligo and Elevated Thyroid Auto-Antibodies. J Clin Endocrinol Metab 2015; 100:E1335-42. [PMID: 26267147 DOI: 10.1210/jc.2015-2126] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
CONTEXT Vitiligo frequently coincides with autoimmune endocrinopathies, particularly Hashimoto's thyroiditis (HT). Genetic susceptibility may underlie this coincident occurrence. One candidate region is the autoimmunity susceptibility locus on chromosome 1, which encompasses forkhead transcription factor D3 (FoxD3), a gene involved in embryonal melanogenesis. We identified a promotor variant (rs78645479) in an index case of vitiligo + HT + candidiasis and evaluated its clinical and functional relevance. DESIGN We genotyped 281 patients with variable autoimmune endocrinopathies: HT, Graves' disease (GD), type 1 diabetes (T1D), Addison's disease (AD), autoimmune polyglandular syndrome (APS), and/or vitiligo and 1858 controls. Furthermore, we experimentally assessed the effect of the variant on promotor activity and assessed the expression of FoxD3 in human thyroid tissue samples. RESULTS Patients with vitiligo had a higher frequency of the risk allele (30%) compared with healthy controls (18.2%). In addition, the variant was associated with the incidence of elevated anti-TPO antibodies and anti-Tg antibodies, but not with TSH, FT3, or FT4 levels and also not with GD, T1D, AD, or APS. Functionally, the variant increased transcriptional activity in Jurkat and in Hek293 cells. We confirmed gene expression of FoxD3 in human thyroid tissue, which seemed elevated in thyroid tissue samples of some patients with GD and nonautoimmune goiter but not in patients with HT. CONCLUSION In addition to a possible association of rs78645479 in FoxD3 with vitiligo, our data on the association of this FoxD3 variant with thyroid autoantibodies suggest a potential involvement of FoxD3 in thyroid immunoregulation.
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Affiliation(s)
- Jo Ana Schunter
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Dennis Löffler
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Tobias Wiesner
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Peter Kovacs
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Klaus Badenhoop
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Gabriela Aust
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Anke Tönjes
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Peter Müller
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Ronny Baber
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Jan C Simon
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Dagmar Führer
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Roland W Pfäffle
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Joachim Thiery
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Michael Stumvoll
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Wieland Kiess
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Jürgen Kratzsch
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
| | - Antje Körner
- Center for Paediatric Research Leipzig (J.A.S., D.L., R.W.P., W.K., A.K.), University Hospital for Children & Adolescents, 04103 Leipzig, Germany; Ambulatory Health Care Center Metabolic Medicine (T.W., P.M.), 04103 Leipzig, Germany; Integrated Research and Treatment Center (P.K., M.S., A.K.), University of Leipzig, Leipzig, Germany; Department of Internal Medicine 1, Division of Endocrinology & Metabolism (K.B.), Goethe-University Hospital, 60590 Frankfurt, Germany; Department of Surgery, Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery (G.A.), University of Leipzig, 04103 Leipzig, Germany; Deptartment of Medicine, Division of Endocrinology and Nephrology (A.T., D.F., M.S.), University of Leipzig, 04103 Leipzig Germany; Institute of Laboratory Medicine, Clinical Chemistry and Molecular Diagnostics (R.B., J.T., J.K.), University Hospital Leipzig, 04103 Leipzig, Germany; and Department of Dermatology, Venereology, and Allergology (J.C.S.), University of Leipzig, 04103 Leipzig Germany
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157
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Abstract
There have been significant advances in our understanding of human autoimmunity that have led to improvements in classification and diagnosis and, most importantly, research advances in new therapies. The importance of autoimmunity and the mechanisms that lead to clinical disease were first recognized about 50 years ago following the pioneering studies of Macfarlane Burnett and his Nobel Prize-winning hypothesis of the 'forbidden clone'. Such pioneering efforts led to a better understanding not only of autoimmunity, but also of lymphoid cell development, thymic education, apoptosis and deletion of autoreactive cells. Contemporary theories suggest that the development of an autoimmune disease requires a genetic predisposition and environmental factors that trigger the immune pathways that lead, ultimately, to tissue destruction. Despite extensive research, there are no genetic tools that can be used clinically to predict the risk of autoimmune disease. Indeed, the concordance of autoimmune disease in identical twins is 12-67%, highlighting not only a role for environmental factors, but also the potential importance of stochastic or epigenetic phenomena. On the other hand, the identification of cytokines and chemokines, and their cognate receptors, has led to novel therapies that block pathological inflammatory responses within the target organ and have greatly improved the therapeutic effect in patients with autoimmune disease, particularly rheumatoid arthritis. Further advances involving the use of multiplex platforms for diagnosis and identification of new therapeutic agents should lead to major breakthroughs within the next decade.
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Affiliation(s)
- Lifeng Wang
- Research Center for Biological Therapy, The Institute of Translational Hepatology, Beijing 302 Hospital, Beijing, China
| | - Fu-Sheng Wang
- Research Center for Biological Therapy, The Institute of Translational Hepatology, Beijing 302 Hospital, Beijing, China
| | - M Eric Gershwin
- Division of Rheumatology, Allergy and Clinical Immunology, University of California at Davis School of Medicine, Davis, CA, USA
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158
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Rothwell S, Cooper RG, Lundberg IE, Miller FW, Gregersen PK, Bowes J, Vencovsky J, Danko K, Limaye V, Selva-O'Callaghan A, Hanna MG, Machado PM, Pachman LM, Reed AM, Rider LG, Cobb J, Platt H, Molberg Ø, Benveniste O, Mathiesen P, Radstake T, Doria A, De Bleecker J, De Paepe B, Maurer B, Ollier WE, Padyukov L, O'Hanlon TP, Lee A, Amos CI, Gieger C, Meitinger T, Winkelmann J, Wedderburn LR, Chinoy H, Lamb JA. Dense genotyping of immune-related loci in idiopathic inflammatory myopathies confirms HLA alleles as the strongest genetic risk factor and suggests different genetic background for major clinical subgroups. Ann Rheum Dis 2015; 75:1558-66. [PMID: 26362759 DOI: 10.1136/annrheumdis-2015-208119] [Citation(s) in RCA: 105] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2015] [Accepted: 08/28/2015] [Indexed: 12/20/2022]
Abstract
OBJECTIVES The idiopathic inflammatory myopathies (IIMs) are a heterogeneous group of rare autoimmune diseases characterised by muscle weakness and extramuscular manifestations such as skin rashes and interstitial lung disease. We genotyped 2566 IIM cases of Caucasian descent using the Immunochip; a custom array covering 186 established autoimmune susceptibility loci. The cohort was predominantly comprised of patients with dermatomyositis (DM, n=879), juvenile DM (JDM, n=481), polymyositis (PM, n=931) and inclusion body myositis (n=252) collected from 14 countries through the Myositis Genetics Consortium. RESULTS The human leucocyte antigen (HLA) and PTPN22 regions reached genome-wide significance (p<5×10(-8)). Nine regions were associated at a significance level of p<2.25×10(-5), including UBE2L3, CD28 and TRAF6, with evidence of independent effects within STAT4. Analysis of clinical subgroups revealed distinct differences between PM, and DM and JDM. PTPN22 was associated at genome-wide significance with PM, but not DM and JDM, suggesting this effect is driven by PM. Additional suggestive associations including IL18R1 and RGS1 in PM and GSDMB in DM were identified. HLA imputation confirmed that alleles HLA-DRB1*03:01 and HLA-B*08:01 of the 8.1 ancestral haplotype (8.1AH) are most strongly associated with IIM, and provides evidence that amino acids within the HLA, such as HLA-DQB1 position 57 in DM, may explain part of the risk in this locus. Associations with alleles outside the 8.1AH reveal differences between PM, DM and JDM. CONCLUSIONS This work represents the largest IIM genetic study to date, reveals new insights into the genetic architecture of these rare diseases and suggests different predominating pathophysiology in different clinical subgroups.
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Affiliation(s)
- Simon Rothwell
- Centre for Genetics and Genomics, Arthritis Research UK, University of Manchester, Manchester, UK
| | - Robert G Cooper
- Department of Musculoskeletal Biology, Institute of Ageing and Chronic Disease, University of Liverpool, Liverpool, UK
| | - Ingrid E Lundberg
- Rheumatology Unit, Department of Medicine, Karolinska University Hospital, Karolinska Institutet, Stockholm, Sweden
| | - Frederick W Miller
- Environmental Autoimmunity Group, Clinical Research Branch, National Institute of Environmental Health Science, National Institutes of Health, Bethesda, Maryland, USA
| | - Peter K Gregersen
- The Robert S Boas Center for Genomics and Human Genetics, Feinstein Institute for Medical Research, Manhasset, New York, USA
| | - John Bowes
- Centre for Genetics and Genomics, Arthritis Research UK, University of Manchester, Manchester, UK
| | - Jiri Vencovsky
- Institute of Rheumatology and Department of Rheumatology, 1st Faculty of Medicine, Charles University, Prague, Czech Republic
| | - Katalin Danko
- Division of Clinical Immunology, Department of Internal Medicine, University of Debrecen, Debrecen, Hungary
| | - Vidya Limaye
- Royal Adelaide Hospital and University of Adelaide, Adelaide, South Australia, Australia
| | | | - Michael G Hanna
- MRC Centre for Neuromuscular Diseases, UCL Institute of Neurology, London, UK
| | - Pedro M Machado
- MRC Centre for Neuromuscular Diseases, UCL Institute of Neurology, London, UK
| | - Lauren M Pachman
- Northwestern University Feinberg School of Medicine and Ann & Robert H. Lurie Children's Hospital of Chicago, Chicago, Illinois, USA
| | - Ann M Reed
- Department of Pediatrics, Duke University, Durham, North Carolina, USA
| | - Lisa G Rider
- Environmental Autoimmunity Group, Clinical Research Branch, National Institute of Environmental Health Science, National Institutes of Health, Bethesda, Maryland, USA
| | - Joanna Cobb
- Arthritis Research UK, NIHR Manchester Musculoskeletal Biomedical Research Unit, Central Manchester NHS Foundation Trust, Manchester Academic Health Science Centre, University of Manchester, Manchester, UK
| | - Hazel Platt
- Centre for Integrated Genomic Medical Research, University of Manchester, Manchester, UK
| | - Øyvind Molberg
- Department of Rheumatology, Oslo University Hospital, Oslo, Norway
| | | | | | - Timothy Radstake
- Department of Rheumatology and Clinical Immunology, University Medical Center Utrecht, Utrecht, The Netherlands
| | - Andrea Doria
- Department of Medicine, University of Padova, Padova, Italy
| | - Jan De Bleecker
- Department of Neurology, Neuromuscular Reference Centre, Ghent University Hospital, Ghent, Belgium
| | - Boel De Paepe
- Department of Neurology, Neuromuscular Reference Centre, Ghent University Hospital, Ghent, Belgium
| | - Britta Maurer
- Department of Rheumatology and Center of Experimental Rheumatology, University Hospital Zurich, Zurich, Switzerland
| | - William E Ollier
- Centre for Integrated Genomic Medical Research, University of Manchester, Manchester, UK
| | - Leonid Padyukov
- Rheumatology Unit, Department of Medicine, Karolinska University Hospital, Karolinska Institutet, Stockholm, Sweden
| | - Terrance P O'Hanlon
- Environmental Autoimmunity Group, Clinical Research Branch, National Institute of Environmental Health Science, National Institutes of Health, Bethesda, Maryland, USA
| | - Annette Lee
- The Robert S Boas Center for Genomics and Human Genetics, Feinstein Institute for Medical Research, Manhasset, New York, USA
| | - Christopher I Amos
- Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire, USA
| | - Christian Gieger
- Helmholtz Zentrum München, Deutsches Forschungszentrum für Gesundheit und Umwelt (GmbH), Neuherberg, Germany
| | - Thomas Meitinger
- Institute of Human Genetics, Technische Universität München, Munich, Germany Institute of Human Genetics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg, Germany
| | - Juliane Winkelmann
- Neurologische Klinik und Poliklinik, Klinikum rechts der Isar, Technische Universität München, Munich, Germany Institute of Neurogenomics, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg, Germany
| | - Lucy R Wedderburn
- Arthritis Research UK Centre for Adolescent Rheumatology, and Institute of Child Health, University College London, London, UK
| | - Hector Chinoy
- National Institute of Health Research Manchester Musculoskeletal Biomedical Research Unit, Centre for Musculoskeletal Research, University of Manchester, Manchester, UK
| | - Janine A Lamb
- Centre for Integrated Genomic Medical Research, University of Manchester, Manchester, UK
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159
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Picardo M, Bastonini E. A New View of Vitiligo: Looking at Normal-Appearing Skin. J Invest Dermatol 2015; 135:1713-1714. [PMID: 26066890 DOI: 10.1038/jid.2015.92] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
Debate over the pathogenesis of vitiligo is still ongoing among scientists, with several hypotheses currently under consideration. The study by Wagner et al. in this issue focuses on the role of E-cadherin-mediated cell adhesion in vitiliginous epidermis under oxidative and mechanical stress. Their work highlights how alterations in cell-cell adhesion across nonlesional melanocyte membranes in patients with vitiligo argue for primary intrinsic defects in the melanocytes.
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Affiliation(s)
- Mauro Picardo
- Cutaneous Physiopathology and Integrated Center of Metabolomics Research, San Gallicano Dermatologic Institute, IRCCS, Rome, Italy.
| | - Emanuela Bastonini
- Cutaneous Physiopathology and Integrated Center of Metabolomics Research, San Gallicano Dermatologic Institute, IRCCS, Rome, Italy
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160
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Mascarenhas R, Pietrzak M, Smith RM, Webb A, Wang D, Papp AC, Pinsonneault JK, Seweryn M, Rempala G, Sadee W. Allele-Selective Transcriptome Recruitment to Polysomes Primed for Translation: Protein-Coding and Noncoding RNAs, and RNA Isoforms. PLoS One 2015; 10:e0136798. [PMID: 26331722 PMCID: PMC4558023 DOI: 10.1371/journal.pone.0136798] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2015] [Accepted: 08/07/2015] [Indexed: 11/19/2022] Open
Abstract
mRNA translation into proteins is highly regulated, but the role of mRNA isoforms, noncoding RNAs (ncRNAs), and genetic variants remains poorly understood. mRNA levels on polysomes have been shown to correlate well with expressed protein levels, pointing to polysomal loading as a critical factor. To study regulation and genetic factors of protein translation we measured levels and allelic ratios of mRNAs and ncRNAs (including microRNAs) in lymphoblast cell lines (LCL) and in polysomal fractions. We first used targeted assays to measure polysomal loading of mRNA alleles, confirming reported genetic effects on translation of OPRM1 and NAT1, and detecting no effect of rs1045642 (3435C>T) in ABCB1 (MDR1) on polysomal loading while supporting previous results showing increased mRNA turnover of the 3435T allele. Use of high-throughput sequencing of complete transcript profiles (RNA-Seq) in three LCLs revealed significant differences in polysomal loading of individual RNA classes and isoforms. Correlated polysomal distribution between protein-coding and non-coding RNAs suggests interactions between them. Allele-selective polysome recruitment revealed strong genetic influence for multiple RNAs, attributable either to differential expression of RNA isoforms or to differential loading onto polysomes, the latter defining a direct genetic effect on translation. Genes identified by different allelic RNA ratios between cytosol and polysomes were enriched with published expression quantitative trait loci (eQTLs) affecting RNA functions, and associations with clinical phenotypes. Polysomal RNA-Seq combined with allelic ratio analysis provides a powerful approach to study polysomal RNA recruitment and regulatory variants affecting protein translation.
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Affiliation(s)
- Roshan Mascarenhas
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Maciej Pietrzak
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
- Division of Biostatistics, College of Public Health, The Ohio State University, Columbus, Ohio, United States of America
| | - Ryan M. Smith
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Amy Webb
- Department of Biomedical Informatics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Danxin Wang
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Audrey C. Papp
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Julia K. Pinsonneault
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
| | - Michal Seweryn
- Division of Biostatistics, College of Public Health, The Ohio State University, Columbus, Ohio, United States of America
- Department of Mathematics and Computer Science, University of Lodz, Lodz, Poland
- Mathematical Biosciences Institute, The Ohio State University, Columbus, Ohio, United States of America
| | - Grzegorz Rempala
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
- Division of Biostatistics, College of Public Health, The Ohio State University, Columbus, Ohio, United States of America
- Mathematical Biosciences Institute, The Ohio State University, Columbus, Ohio, United States of America
| | - Wolfgang Sadee
- Center for Pharmacogenomics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
- Department of Medical Genetics, College of Medicine, The Ohio State University Wexner Medical Center, Columbus, Ohio, United States of America
- * E-mail:
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161
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Transcriptional Analysis of Vitiligo Skin Reveals the Alteration of WNT Pathway: A Promising Target for Repigmenting Vitiligo Patients. J Invest Dermatol 2015; 135:3105-3114. [PMID: 26322948 DOI: 10.1038/jid.2015.335] [Citation(s) in RCA: 118] [Impact Index Per Article: 13.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2015] [Revised: 07/01/2015] [Accepted: 07/19/2015] [Indexed: 02/06/2023]
Abstract
Vitiligo affects 1% of the worldwide population. Halting disease progression and repigmenting the lesional skin represent the two faces of therapeutic challenge in vitiligo. We performed transcriptome analysis on lesional, perilesional, and non-depigmented skin from vitiligo patients and on matched skin from healthy subjects. We found a significant increase in CXCL10 in non-depigmented and perilesional vitiligo skin compared with levels in healthy control skin; however, neither CXCL10 nor other immune factors were deregulated in depigmented vitiligo skin. Interestingly, the WNT pathway, which is involved in melanocyte differentiation, was altered specifically in vitiligo skin. We demonstrated that oxidative stress decreases WNT expression/activation in keratinocytes and melanocytes. We developed an ex vivo skin model and confirmed the decrease activation of the WNT pathway in human skin subjected to oxidative stress. Finally, using pharmacological agents that activate the WNT pathway, we treated ex vivo depigmented skin from vitiligo patients and successfully induced differentiation of resident stem cells into pre-melanocytes. Our results shed light on the previously unrecognized role of decreased WNT activation in the prevention of melanocyte differentiation in depigmented vitiligo skin. Furthermore, these results support further clinical exploration of WNT agonists to repigment vitiligo lesions.
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162
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Oxidative stress-induced overexpression of miR-25: the mechanism underlying the degeneration of melanocytes in vitiligo. Cell Death Differ 2015; 23:496-508. [PMID: 26315342 DOI: 10.1038/cdd.2015.117] [Citation(s) in RCA: 74] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Revised: 06/23/2015] [Accepted: 07/21/2015] [Indexed: 12/13/2022] Open
Abstract
Oxidative stress has a critical role in the pathogenesis of vitiligo. However, the specific molecular mechanism involved in oxidative stress-induced melanocyte death is not well characterized. Given the powerful role of microRNAs (miRNAs) in the regulation of cell survival as well as the fact that the generation of miRNAs can be affected by oxidative stress, we hypothesized that miRNAs may participate in vitiligo pathogenesis by modulating the expression of vital genes in melanocytes. In the present study, we initially found that miR-25 was increased in both serum and lesion samples from vitiligo patients, and its serum level was correlated with the activity of vitiligo. Moreover, restoration of miR-25 promoted the H2O2-induced melanocyte destruction and led to the dysfunction of melanocytes. Further experiments proved that MITF, a master regulator in melanocyte survival and function, accounted for the miR-25-caused damaging impact on melanocytes. Notably, other than the direct role on melanocytes, we observed that miR-25 inhibited the production and secretion of SCF and bFGF from keratinocytes, thus impairing their paracrine protective effect on the survival of melanocytes under oxidative stress. At last, we verified that oxidative stress could induce the overexpression of miR-25 in both melanocytes and keratinocytes possibly by demethylating the promoter region of miR-25. Taken together, our study demonstrates that oxidative stress-induced overexpression of miR-25 in vitiligo has a crucial role in promoting the degeneration of melanocytes by not only suppressing MITF in melanocytes but also impairing the paracrine protective effect of keratinocytes. Therefore, it is worthy to investigate the possibility of miR-25 as a potential drug target for anti-oxidative therapy in vitiligo.
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163
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Gao F, Chang D, Biddanda A, Ma L, Guo Y, Zhou Z, Keinan A. XWAS: A Software Toolset for Genetic Data Analysis and Association Studies of the X Chromosome. J Hered 2015; 106:666-71. [PMID: 26268243 PMCID: PMC4567842 DOI: 10.1093/jhered/esv059] [Citation(s) in RCA: 88] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2015] [Accepted: 07/20/2015] [Indexed: 12/21/2022] Open
Abstract
XWAS is a new software suite for the analysis of the X chromosome in association studies and similar genetic studies. The X chromosome plays an important role in human disease and traits of many species, especially those with sexually dimorphic characteristics. Special attention needs to be given to its analysis due to the unique inheritance pattern, which leads to analytical complications that have resulted in the majority of genome-wide association studies (GWAS) either not considering X or mishandling it with toolsets that had been designed for non-sex chromosomes. We hence developed XWAS to fill the need for tools that are specially designed for analysis of X. Following extensive, stringent, and X-specific quality control, XWAS offers an array of statistical tests of association, including: 1) the standard test between a SNP (single nucleotide polymorphism) and disease risk, including after first stratifying individuals by sex, 2) a test for a differential effect of a SNP on disease between males and females, 3) motivated by X-inactivation, a test for higher variance of a trait in heterozygous females as compared with homozygous females, and 4) for all tests, a version that allows for combining evidence from all SNPs across a gene. We applied the toolset analysis pipeline to 16 GWAS datasets of immune-related disorders and 7 risk factors of coronary artery disease, and discovered several new X-linked genetic associations. XWAS will provide the tools and incentive for others to incorporate the X chromosome into GWAS and similar studies in any species with an XX/XY system, hence enabling discoveries of novel loci implicated in many diseases and in their sexual dimorphism.
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Affiliation(s)
- Feng Gao
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Diana Chang
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Arjun Biddanda
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Li Ma
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Yingjie Guo
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Zilu Zhou
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo)
| | - Alon Keinan
- From the Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14853 (Gao, Chang, Biddanda, Ma, Guo, Zhou, and Keinan); Program in Computational Biology and Medicine, Cornell University, Ithaca, NY 14853 (Chang and Keinan); Department of Animal and Avian Sciences, University of Maryland, College Park, MD 20740 (Ma); and School of Computer Science and Technology, Harbin Institute of Technology, Harbin, Heilongjiang 150001, China (Guo).
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164
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Wu D, Shi D, Zhu X. The association between tumor necrosis factor-α-308 G/A polymorphism and risk for vitiligo: a meta-analysis. Int J Dermatol 2015. [PMID: 26224639 DOI: 10.1111/ijd.12866] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
BACKGROUND The contribution of tumor necrosis factor-α (TNF-α)-308 G/A gene polymorphism (rs1800629) to risk for vitiligo is subject to controversy. OBJECTIVES The fundamental purpose of the present meta-analysis was to investigate large-scale evidence to determine the overall association between TNF-α-308 G/A polymorphism and susceptibility to vitiligo. METHODS A literature search of the PubMed, EMBASE, Web of Science, and China National Knowledge Infrastructure (CNKI) databases was conducted to identify all studies referring to an association between TNF-α-308 G/A polymorphism and vitiligo published to June 1, 2014. The principal outcome measure for evaluating the strength of the association was the crude odds ratio (OR) along with the corresponding 95% confidence interval (CI). Data were extracted, and statistical analyses were implemented using stata Version 12.0. RESULTS Data for a total of 1505 vitiligo cases and 2253 controls from five case-control studies concentrating on the association between TNF-α-308 G/A polymorphism and vitiligo were included in this meta-analysis. Combined analysis revealed there to be no association between this polymorphism and susceptibility to vitiligo in five genetic models under random-effects models. A subgroup analysis by clinical type also demonstrated the absence of any association between TNF-α-308 G/A polymorphism and generalized vitiligo. However, a significant association was detected in the miscellaneous subgroup under the dominant model (fixed-effects model: OR 5.69, 95% CI 4.70-6.88; P = 0.000) and overdominant model (random-effects model: OR 5.24, 95% CI 2.26-12.17; P = 0.000). CONCLUSIONS This meta-analysis indicates that TNF-α-308 G/A polymorphism is not a genetic risk factor for vitiligo.
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Affiliation(s)
- Dongze Wu
- Department of Dermatology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong, China
| | - Deshun Shi
- Department of Dermatology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong, China
| | - Xiaoliang Zhu
- Department of Dermatology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong, China
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165
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Abstract
Vitiligo, an acquired pigmentary disorder of unknown origin, is the most frequent cause of depigmentation worldwide, with an estimated prevalence of 1%. The disorder can be psychologically devastating and stigmatising, especially in dark skinned individuals. Vitiligo is clinically characterised by the development of white macules due to the loss of functioning melanocytes in the skin or hair, or both. Two forms of the disease are well recognised: segmental and non-segmental vitiligo (the commonest form). To distinguish between these two forms is of prime importance because therapeutic options and prognosis are quite different. The importance of early treatment and understanding of the profound psychosocial effect of vitiligo will be emphasised throughout this Seminar.
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Affiliation(s)
- Khaled Ezzedine
- Department of Dermatology and Paediatric Dermatology, National Centre for Rare Skin disorders, Hôpital Pellegrin, Bordeaux, France; Institut National de la Santé et de la Recherche Médicale. U1035, University of Bordeaux, Bordeaux, France.
| | | | - Maxine Whitton
- Centre of Evidence Based Dermatology, University of Nottingham, Nottingham, UK
| | - Nanja van Geel
- Department of Dermatology, Ghent University Hospital, Ghent, Belgium
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166
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Mitochondrial DNA copy number in peripheral blood and melanoma risk. PLoS One 2015; 10:e0131649. [PMID: 26110424 PMCID: PMC4482392 DOI: 10.1371/journal.pone.0131649] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2015] [Accepted: 06/05/2015] [Indexed: 02/07/2023] Open
Abstract
Mitochondrial DNA (mtDNA) copy number in peripheral blood has been suggested as risk modifier in various types of cancer. However, its influence on melanoma risk is unclear. We evaluated the association between mtDNA copy number in peripheral blood and melanoma risk in 500 melanoma cases and 500 healthy controls from an ongoing melanoma study. The mtDNA copy number was measured using real-time polymerase chain reaction. Overall, mean mtDNA copy number was significantly higher in cases than in controls (1.15 vs 0.99, P<0.001). Increased mtDNA copy number was associated with a 1.45-fold increased risk of melanoma (95% confidence interval: 1.12-1.97). Significant joint effects between mtDNA copy number and variables related to pigmentation and history of sunlight exposure were observed. This study supports an association between increased mtDNA copy number and melanoma risk that is independent on the known melanoma risk factors (pigmentation and history of sunlight exposure).
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167
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A method to predict the impact of regulatory variants from DNA sequence. Nat Genet 2015; 47:955-61. [PMID: 26075791 PMCID: PMC4520745 DOI: 10.1038/ng.3331] [Citation(s) in RCA: 302] [Impact Index Per Article: 33.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2015] [Accepted: 03/08/2015] [Indexed: 12/15/2022]
Abstract
Most variants implicated in common human disease by genome-wide association studies (GWAS) lie in noncoding sequence intervals. Despite the suggestion that regulatory element disruption represents a common theme, identifying causal risk variants within implicated genomic regions remains a major challenge. Here we present a new sequence-based computational method to predict the effect of regulatory variation, using a classifier (gkm-SVM) that encodes cell type-specific regulatory sequence vocabularies. The induced change in the gkm-SVM score, deltaSVM, quantifies the effect of variants. We show that deltaSVM accurately predicts the impact of SNPs on DNase I sensitivity in their native genomic contexts and accurately predicts the results of dense mutagenesis of several enhancers in reporter assays. Previously validated GWAS SNPs yield large deltaSVM scores, and we predict new risk-conferring SNPs for several autoimmune diseases. Thus, deltaSVM provides a powerful computational approach to systematically identify functional regulatory variants.
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168
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Plugis NM, Khosla C. Therapeutic approaches for celiac disease. Best Pract Res Clin Gastroenterol 2015; 29:503-21. [PMID: 26060114 PMCID: PMC4465084 DOI: 10.1016/j.bpg.2015.04.005] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Revised: 04/23/2015] [Accepted: 04/26/2015] [Indexed: 02/06/2023]
Abstract
Celiac disease is a common, lifelong autoimmune disorder for which dietary control is the only accepted form of therapy. A strict gluten-free diet is burdensome to patients and can be limited in efficacy, indicating there is an unmet need for novel therapeutic approaches to supplement or supplant dietary therapy. Many molecular events required for disease pathogenesis have been recently characterized and inspire most current and emerging drug-discovery efforts. Genome-wide association studies (GWAS) confirm the importance of human leukocyte antigen genes in our pathogenic model and identify a number of new risk loci in this complex disease. Here, we review the status of both emerging and potential therapeutic strategies in the context of disease pathophysiology. We conclude with a discussion of how genes identified during GWAS and follow-up studies that enhance susceptibility may offer insight into developing novel therapies.
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169
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Dai W, Zhou FB, Wei C, Wang XW, Guo S, Yi XL, Li K, Gao TW, Liu L, Li CY. A functional single-nucleotide polymorphism in the ERCC1 gene alters the efficacy of narrowband ultraviolet B therapy in patients with active vitiligo in a Chinese population. Br J Dermatol 2015; 173:457-63. [PMID: 25965418 DOI: 10.1111/bjd.13892] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 04/27/2015] [Indexed: 11/29/2022]
Abstract
BACKGROUND T lymphocytes have been shown to cause the destruction of melanocytes in vitiligo pathogenesis. Narrowband ultraviolet B (NB-UVB), as an effective therapeutic strategy in vitiligo, can lead to the formation of DNA photoproducts such as cyclobutane pyrimidine dimers (CPDs) in perilesional lymphocytes and thus induce skin immunosuppression. The repair of DNA photoproducts is performed mainly through the nucleotide excision repair (NER) pathway. We hypothesized that single-nucleotide polymorphisms (SNPs) in NER genes might influence the repair capacity of CPDs and thus contribute to variations in phototherapy efficiency. OBJECTIVES To detect genetic polymorphisms in NER genes and their relationship with the efficacy of NB-UVB therapy in patients with active vitiligo. METHODS We investigated the association of NER SNPs (XPA A23G, XPC Ci11A, XPC C2919A and ERCC1 C118T) with phototherapy efficacy in 86 patients with vitiligo who received NB-UVB treatment. Furthermore, we examined the impact of ERCC1 C118T on the apoptosis of T lymphocytes and CPD accumulation after NB-UVB irradiation. RESULTS We found that patients with vitiligo with the ERCC1 codon 118 CC genotype showed better efficacy after NB-UVB irradiation than those with the ERCC1 118 TT and CT genotypes, whereas no such association was documented among the genotypes of XPA A23G, XPC Ci11A or XPC C2919A. Additionally, the apoptosis rates and CPD levels of lymphocytes after NB-UVB irradiation in patients with the ERCC1 118 CC genotype were significantly higher than those in patients with the ERCC1 118 TT and CT genotypes. CONCLUSIONS The ERCC1 118 CC genotype confers better efficacy of NB-UVB therapy in patients with active vitiligo.
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Affiliation(s)
- W Dai
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - F-B Zhou
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - C Wei
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - X-W Wang
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - S Guo
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - X-L Yi
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - K Li
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - T-W Gao
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - L Liu
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
| | - C-Y Li
- Department of Dermatology, Xijing Hospital, Fourth Military Medical University, 127 Changlexi Road, Xi'an, Shaanxi, 710032, China
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170
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Association analysis revealed one susceptibility locus for vitiligo with immune-related diseases in the Chinese Han population. Immunogenetics 2015; 67:347-54. [PMID: 25952005 DOI: 10.1007/s00251-015-0843-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2015] [Accepted: 04/29/2015] [Indexed: 01/10/2023]
Abstract
Generalized vitiligo is an autoimmune disease characterized by melanocyte loss, which results in patchy depigmentation of skin and hair, and is associated with an elevated risk of other immune-related diseases. However, there is no reported study on the associations between immune susceptibility polymorphisms and the risk of vitiligo with immune-related diseases. The aim of this study was to evaluate the potential influence of 10 single-nucleotide polymorphisms (SNPs) at 18q21.31 (rs10503019), 4p16.1 (rs11940117), 3q28 (rs1464510), 14q12 (rs2273844), 12q13.2 (rs2456973), 16q12.2 (rs3213758), 10q25.3 (rs4353229), 3q13.33 (rs59374417), and 10p15.1 (rs706779 and rs7090530) on vitiligo with immune-related diseases in the Chinese Han population. All SNPs were genotyped in 552 patients with vitiligo-associated immune-related diseases and 1656 controls using the Sequenom MassArray system. Data were analyzed with PLINK 1.07 software. The C allele of rs2456973 at 12q13.2 was observed to be significantly associated with vitiligo-associated immune-related diseases (autoimmune diseases and allergic diseases) (P = 0.0028, odds ratio (OR) = 1.27). In subphenotype analysis, the rs2456973 C allele was also significantly associated with early-onset vitiligo by comparing with controls (P = 0.0001) and in the case-only analysis (P = 0.0114). We confirmed that 12q13.2 was an important candidate locus for vitiligo with immune-related diseases (autoimmune diseases and allergic diseases) and affected disease phenotypes with early onset.
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171
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Gao X, Tan X, Qin J, Lv S, Hou S, Kijlstra A, Yang P. No association between Bach2 gene polymorphisms with Vogt–Koyanagi–Harada syndrome (VKH) and Behcet's disease (BD) in a Chinese Han population. Br J Ophthalmol 2015; 99:1150-4. [DOI: 10.1136/bjophthalmol-2014-306163] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2014] [Accepted: 03/22/2015] [Indexed: 12/15/2022]
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172
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Medici M, Visser WE, Visser TJ, Peeters RP. Genetic determination of the hypothalamic-pituitary-thyroid axis: where do we stand? Endocr Rev 2015; 36:214-44. [PMID: 25751422 DOI: 10.1210/er.2014-1081] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
For a long time it has been known that both hypo- and hyperthyroidism are associated with an increased risk of morbidity and mortality. In recent years, it has also become clear that minor variations in thyroid function, including subclinical dysfunction and variation in thyroid function within the reference range, can have important effects on clinical endpoints, such as bone mineral density, depression, metabolic syndrome, and cardiovascular mortality. Serum thyroid parameters show substantial interindividual variability, whereas the intraindividual variability lies within a narrow range. This suggests that every individual has a unique hypothalamus-pituitary-thyroid axis setpoint that is mainly determined by genetic factors, and this heritability has been estimated to be 40-60%. Various mutations in thyroid hormone pathway genes have been identified in persons with thyroid dysfunction or altered thyroid function tests. Because these causes are rare, many candidate gene and linkage studies have been performed over the years to identify more common variants (polymorphisms) associated with thyroid (dys)function, but only a limited number of consistent associations have been found. However, in the past 5 years, advances in genetic research have led to the identification of a large number of new candidate genes. In this review, we provide an overview of the current knowledge about the polygenic basis of thyroid (dys)function. This includes new candidate genes identified by genome-wide approaches, what insights these genes provide into the genetic basis of thyroid (dys)function, and which new techniques will help to further decipher the genetic basis of thyroid (dys)function in the near future.
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Affiliation(s)
- Marco Medici
- Rotterdam Thyroid Center, Department of Internal Medicine, Erasmus Medical Center, 3015 GE Rotterdam, The Netherlands
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Whitton ME, Pinart M, Batchelor J, Leonardi-Bee J, González U, Jiyad Z, Eleftheriadou V, Ezzedine K. Interventions for vitiligo. Cochrane Database Syst Rev 2015; 2015:CD003263. [PMID: 25710794 PMCID: PMC10887429 DOI: 10.1002/14651858.cd003263.pub5] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
BACKGROUND Vitiligo is a chronic skin disorder characterised by patchy loss of skin colour. Some people experience itching before the appearance of a new patch. It affects people of any age or ethnicity, more than half of whom develop it before the age of 20 years. There are two main types: generalised vitiligo, the common symmetrical form, and segmental, affecting only one side of the body. Around 1% of the world's population has vitiligo, a disease causing white patches on the skin. Several treatments are available. Some can restore pigment but none can cure the disease. OBJECTIVES To assess the effects of all therapeutic interventions used in the management of vitiligo. SEARCH METHODS We updated our searches of the following databases to October 2013: the Cochrane Skin Group Specialised Register, CENTRAL in The Cochrane Library (2013, Issue 10), MEDLINE, Embase, AMED, PsycINFO, CINAHL and LILACS. We also searched five trials databases, and checked the reference lists of included studies for further references to relevant randomised controlled trials (RCTs). SELECTION CRITERIA Randomised controlled trials (RCTs) assessing the effects of treatments for vitiligo. DATA COLLECTION AND ANALYSIS At least two review authors independently assessed study eligibility and methodological quality, and extracted data. MAIN RESULTS This update of the 2010 review includes 96 studies, 57 from the previous update and 39 new studies, totalling 4512 participants. Most of the studies, covering a wide range of interventions, had fewer than 50 participants. All of the studies assessed repigmentation, however only five reported on all of our three primary outcomes which were quality of life, > 75% repigmentation and adverse effects. Of our secondary outcomes, six studies measured cessation of spread but none assessed long-term permanence of repigmentation resulting from treatment at two years follow-up.Most of the studies assessed combination therapies which generally reported better results. New interventions include seven new surgical interventions.We analysed the data from 25 studies which assessed our primary outcomes. We used the effect measures risk ratio (RR), and odds ratio (OR) with their 95% confidence intervals (CI) and where N is the number of participants in the study.We were only able to analyse one of nine studies assessing quality of life and this showed no statistically significant improvement between the comparators.Nine analyses from eight studies reported >75% repigmentation. In the following studies the repigmentation was better in the combination therapy group: calcipotriol plus PUVA (psoralen with UVA light) versus PUVA (paired OR 4.25, 95% CI 1.43 to 12.64, one study, N = 27); hydrocortisone-17-butyrate plus excimer laser versus excimer laser alone (RR 2.57, 95% CI 1.20 to 5.50, one study, N = 84); oral minipulse of prednisolone (OMP) plus NB-UVB (narrowband UVB) versus OMP alone (RR 7.41, 95% CI 1.03 to 53.26, one study, N = 47); azathioprine with PUVA versus PUVA alone (RR 17.77, 95% CI 1.08 to 291.82, one study, N = 58) and 8-Methoxypsoralen (8-MOP ) plus sunlight versus psoralen (RR 2.50, 95% CI 1.06 to 5.91, one study, N = 168). In these three studies ginkgo biloba was better than placebo (RR 4.40, 95% CI 1.08 to 17.95, one study, N = 47); clobetasol propionate was better than PUVAsol (PUVA with sunlight) (RR 4.70, 95% CI 1.14 to 19.39, one study, N = 45); split skin grafts with PUVAsol was better than minipunch grafts with PUVAsol (RR 1.89, 95% CI 1.25 to 2.85, one study, N = 64).We performed one meta-analysis of three studies, in which we found a non-significant 60% increase in the proportion of participants achieving >75% repigmentation in favour of NB-UVB compared to PUVA (RR 1.60, 95% CI 0.74 to 3.45; I² = 0%).Studies assessing topical preparations, in particular topical corticosteroids, reported most adverse effects. However, in combination studies it was difficult to ascertain which treatment caused these effects. We performed two analyses from a pooled analysis of three studies on adverse effects. Where NB-UVB was compared to PUVA, the NB-UVB group reported less observations of nausea in three studies (RR 0.13, 95% CI 0.02 to 0.69; I² = 0% three studies, N = 156) and erythema in two studies (RR 0.73, 95% CI 0.55 to 0.98; I² = 0%, two studies, N = 106), but not itching in two studies (RR 0.57, 95% CI 0.20 to 1.60; I² = 0%, two studies, N = 106).Very few studies only assessed children or included segmental vitiligo. We found one study of psychological interventions but we could not include the outcomes in our statistical analyses. We found no studies evaluating micropigmentation, depigmentation, or cosmetic camouflage. AUTHORS' CONCLUSIONS This review has found some evidence from individual studies to support existing therapies for vitiligo, but the usefulness of the findings is limited by the different designs and outcome measurements and lack of quality of life measures. There is a need for follow-up studies to assess permanence of repigmentation as well as high- quality randomised trials using standardised measures and which also address quality of life.
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Affiliation(s)
- Maxine E Whitton
- c/o Cochrane Skin Group, The University of Nottingham, Room A103, King's Meadow Campus, Lenton Lane, Nottingham, UK, NG7 2NR. .
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Zhou L, Shi YL, Li K, Hamzavi I, Gao TW, Huggins RH, Lim HW, Mi QS. Increased circulating Th17 cells and elevated serum levels of TGF-beta and IL-21 are correlated with human non-segmental vitiligo development. Pigment Cell Melanoma Res 2015; 28:324-9. [DOI: 10.1111/pcmr.12355] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2014] [Accepted: 01/06/2015] [Indexed: 11/26/2022]
Affiliation(s)
- Li Zhou
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
- Department of Internal Medicine; Henry Ford Health System; Detroit MI USA
| | - Yu-Ling Shi
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Shanghai Tenth Peoples Hospital; Tongji University School of Medicine; Shanghai China
| | - Kai Li
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Xijing Hospital; Fourth Military Medical University; Xian China
| | - Iltefat Hamzavi
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
| | - Tian-Wen Gao
- Department of Dermatology; Xijing Hospital; Fourth Military Medical University; Xian China
| | - Richard H. Huggins
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
| | - Henry W. Lim
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
| | - Qing-Sheng Mi
- Henry Ford Immunology Program; Henry Ford Health System; Detroit MI USA
- Department of Dermatology; Vitiligo Treatment and Research Center; Henry Ford Health System; Detroit MI USA
- Department of Internal Medicine; Henry Ford Health System; Detroit MI USA
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175
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Wagner RY, Luciani F, Cario-André M, Rubod A, Petit V, Benzekri L, Ezzedine K, Lepreux S, Steingrimsson E, Taieb A, Gauthier Y, Larue L, Delmas V. Altered E-Cadherin Levels and Distribution in Melanocytes Precede Clinical Manifestations of Vitiligo. J Invest Dermatol 2015; 135:1810-1819. [PMID: 25634357 DOI: 10.1038/jid.2015.25] [Citation(s) in RCA: 83] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2014] [Revised: 12/26/2014] [Accepted: 01/14/2015] [Indexed: 12/26/2022]
Abstract
Vitiligo is the most common depigmenting disorder resulting from the loss of melanocytes from the basal epidermal layer. The pathogenesis of the disease is likely multifactorial and involves autoimmune causes, as well as oxidative and mechanical stress. It is important to identify early events in vitiligo to clarify pathogenesis, improve diagnosis, and inform therapy. Here, we show that E-cadherin (Ecad), which mediates the adhesion between melanocytes and keratinocytes in the epidermis, is absent from or discontinuously distributed across melanocyte membranes of vitiligo patients long before clinical lesions appear. This abnormality is associated with the detachment of the melanocytes from the basal to the suprabasal layers in the epidermis. Using human epidermal reconstructed skin and mouse models with normal or defective Ecad expression in melanocytes, we demonstrated that Ecad is required for melanocyte adhesiveness to the basal layer under oxidative and mechanical stress, establishing a link between silent/preclinical, cell-autonomous defects in vitiligo melanocytes and known environmental stressors accelerating disease expression. Our results implicate a primary predisposing skin defect affecting melanocyte adhesiveness that, under stress conditions, leads to disappearance of melanocytes and clinical vitiligo. Melanocyte adhesiveness is thus a potential target for therapy aiming at disease stabilization.
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Affiliation(s)
- Roselyne Y Wagner
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France
| | - Flavie Luciani
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France
| | - Muriel Cario-André
- Department of Dermatology and Pediatric Dermatology, National Reference Centre for Rare Skin Disorders, Hôpital Saint-André Bordeaux, Bordeaux, France; INSERM U1035, University of Bordeaux, Bordeaux, France
| | - Alain Rubod
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France
| | - Valérie Petit
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France
| | - Laila Benzekri
- Department of Dermatology, Mohammed V University, UFR of Dermatology, Rabat, Morocco
| | - Khaled Ezzedine
- Department of Dermatology and Pediatric Dermatology, National Reference Centre for Rare Skin Disorders, Hôpital Saint-André Bordeaux, Bordeaux, France; INSERM U1035, University of Bordeaux, Bordeaux, France
| | - Sébastien Lepreux
- Department of Pathology, Bordeaux University Hospital, Bordeaux, France
| | - Eirikur Steingrimsson
- Department of Biochemistry and Molecular Biology, Faculty of Medicine, University of Iceland, Reykjavik, Iceland
| | - A Taieb
- Department of Dermatology and Pediatric Dermatology, National Reference Centre for Rare Skin Disorders, Hôpital Saint-André Bordeaux, Bordeaux, France; INSERM U1035, University of Bordeaux, Bordeaux, France
| | - Yvon Gauthier
- Department of Dermatology and Pediatric Dermatology, National Reference Centre for Rare Skin Disorders, Hôpital Saint-André Bordeaux, Bordeaux, France
| | - Lionel Larue
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France.
| | - Véronique Delmas
- Institut Curie, Normal and Pathological Development of Melanocytes, Orsay, France; CNRS UMR3347, Orsay, France; INSERM U1021, Orsay, France; Equipe labellisée, Ligue Nationale contre le Cancer, Orsay, France
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176
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Flister MJ, Hoffman MJ, Lemke A, Prisco SZ, Rudemiller N, O'Meara CC, Tsaih SW, Moreno C, Geurts AM, Lazar J, Adhikari N, Hall JL, Jacob HJ. SH2B3 Is a Genetic Determinant of Cardiac Inflammation and Fibrosis. ACTA ACUST UNITED AC 2015; 8:294-304. [PMID: 25628389 DOI: 10.1161/circgenetics.114.000527] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2014] [Accepted: 01/14/2015] [Indexed: 01/11/2023]
Abstract
BACKGROUND Genome-wide association studies are powerful tools for nominating pathogenic variants, but offer little insight as to how candidate genes affect disease outcome. Such is the case for SH2B adaptor protein 3 (SH2B3), which is a negative regulator of multiple cytokine signaling pathways and is associated with increased risk of myocardial infarction (MI), but its role in post-MI inflammation and fibrosis is completely unknown. METHODS AND RESULTS Using an experimental model of MI (left anterior descending artery occlusion/reperfusion injury) in wild-type and Sh2b3 knockout rats (Sh2b3(em2Mcwi)), we assessed the role of Sh2b3 in post-MI fibrosis, leukocyte infiltration, angiogenesis, left ventricle contractility, and inflammatory gene expression. Compared with wild-type, Sh2b3(em2Mcwi) rats had significantly increased fibrosis (2.2-fold; P<0.05) and elevated leukocyte infiltration (>2-fold; P<0.05), which coincided with decreased left ventricle fractional shortening (-Δ11%; P<0.05) at 7 days post left anterior descending artery occlusion/reperfusion injury. Despite an increased angiogenic potential in Sh2b3(em2Mcwi) rats (1.7-fold; P<0.05), we observed no significant differences in left ventricle capillary density between wild-type and Sh2b3(em2Mcwi) rats. In total, 12 genes were significantly elevated in the post left anterior descending artery occluded/reperfused hearts of Sh2b3(em2Mcwi) rats relative to wild-type, of which 3 (NLRP12, CCR2, and IFNγ) were significantly elevated in the left ventricle of heart failure patients carrying the MI-associated rs3184504 [T] SH2B3 risk allele. CONCLUSIONS These data demonstrate for the first time that SH2B3 is a crucial mediator of post-MI inflammation and fibrosis.
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Affiliation(s)
- Michael J Flister
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Matthew J Hoffman
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Angela Lemke
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Sasha Z Prisco
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Nathan Rudemiller
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Caitlin C O'Meara
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Shirng-Wern Tsaih
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Carol Moreno
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Aron M Geurts
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Jozef Lazar
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Neeta Adhikari
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Jennifer L Hall
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.)
| | - Howard J Jacob
- From the Human and Molecular Genetics Center (M.J.F., M.J.H., A.L., S.Z.P., S.-W.T., A.M.G., J.L., H.J.J.), Departments of Physiology (M.J.F., M.J.H., A.L., S.Z.P., N.R., A.M.G., H.J.J.), Dermatology (J.L.), and Pediatrics (H.J.J.), Medical College of Wisconsin, Milwaukee; Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA (C.C.O'M.); Department of Cardiovascular and Metabolic Disease at MedImmune, Cambridge, United Kingdom (C.M.); and Lillehei Heart Institute, Department of Medicine, University of Minnesota, Minneapolis (N.A., J.L.H.).
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Gautam P, Chaurasia A, Bhattacharya A, Grover R, Mukerji M, Natarajan VT. Population diversity and adaptive evolution in keratinization genes: impact of environment in shaping skin phenotypes. Mol Biol Evol 2014; 32:555-73. [PMID: 25534032 DOI: 10.1093/molbev/msu342] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Several studies have demonstrated the role of climatic factors in shaping skin phenotypes, particularly pigmentation. Keratinization is another well-designed feature of human skin, which is involved in modulating transepidermal water loss (TEWL). Although this physiological process is closely linked to climate, presently it is not clear whether genetic diversity is observed in keratinization and whether this process also responds to the environmental pressure. To address this, we adopted a multipronged approach, which involved analysis of 1) copy number variations in diverse Indian and HapMap populations from varied geographical regions; 2) genetic association with geoclimatic parameters in 61 populations of dbCLINE database in a set of 549 genes from four processes namely keratinization, pigmentation, epidermal differentiation, and housekeeping functions; 3) sequence divergence in 4,316 orthologous promoters and corresponding exonic regions of human and chimpanzee with macaque as outgroup, and 4) protein sequence divergence (Ka/Ks) across nine vertebrate classes, which differ in their extent of TEWL. Our analyses demonstrate that keratinization and epidermal differentiation genes are under accelerated evolution in the human lineage, relative to pigmentation and housekeeping genes. We show that this entire pathway may have been driven by environmental selection pressure through concordant functional polymorphisms across several genes involved in skin keratinization. Remarkably, this underappreciated function of skin may be a crucial determinant of adaptation to diverse environmental pressures across world populations.
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Affiliation(s)
- Pramod Gautam
- Genomics and Molecular Medicine, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India
| | - Amit Chaurasia
- Genomics and Molecular Medicine, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India
| | - Aniket Bhattacharya
- Genomics and Molecular Medicine, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India Academy of Scientific and Innovative Research, Delhi, India
| | - Ritika Grover
- Academy of Scientific and Innovative Research, Delhi, India Systems Biology Group, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India
| | | | - Mitali Mukerji
- Genomics and Molecular Medicine, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India Academy of Scientific and Innovative Research, Delhi, India
| | - Vivek T Natarajan
- Academy of Scientific and Innovative Research, Delhi, India Systems Biology Group, Council for Scientific and Industrial Research-Institute of Genomics and Integrative Biology, Delhi, India
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178
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Mukherjee S, Kong J, Brat DJ. Cancer stem cell division: when the rules of asymmetry are broken. Stem Cells Dev 2014; 24:405-16. [PMID: 25382732 DOI: 10.1089/scd.2014.0442] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Asymmetric division of stem cells is a highly conserved and tightly regulated process by which a single stem cell produces two daughter cells and simultaneously directs the differential fate of both: one retains its stem cell identity while the other becomes specialized and loses stem cell properties. Coordinating these events requires control over numerous intra- and extracellular biological processes and signaling networks. In the initial stages, critical events include the compartmentalization of fate determining proteins within the mother cell and their subsequent passage to the appropriate daughter cell. Disturbance of these events results in an altered dynamic of self-renewing and differentiation within the cell population, which is highly relevant to the growth and progression of cancer. Other critical events include proper asymmetric spindle assembly, extrinsic regulation through micro-environmental cues, and noncanonical signaling networks that impact cell division and fate determination. In this review, we discuss mechanisms that maintain the delicate balance of asymmetric cell division in normal tissues and describe the current understanding how some of these mechanisms are deregulated in cancer. The universe is asymmetric and I am persuaded that life, as it is known to us, is a direct result of the asymmetry of the universe or of its indirect consequences. The universe is asymmetric. -Louis Pasteur.
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Affiliation(s)
- Subhas Mukherjee
- 1 Department of Pathology and Laboratory Medicine, Emory University , Atlanta, Georgia
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179
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Chang D, Gao F, Slavney A, Ma L, Waldman YY, Sams AJ, Billing-Ross P, Madar A, Spritz R, Keinan A. Accounting for eXentricities: analysis of the X chromosome in GWAS reveals X-linked genes implicated in autoimmune diseases. PLoS One 2014; 9:e113684. [PMID: 25479423 PMCID: PMC4257614 DOI: 10.1371/journal.pone.0113684] [Citation(s) in RCA: 84] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2014] [Accepted: 10/30/2014] [Indexed: 12/12/2022] Open
Abstract
Many complex human diseases are highly sexually dimorphic, suggesting a potential contribution of the X chromosome to disease risk. However, the X chromosome has been neglected or incorrectly analyzed in most genome-wide association studies (GWAS). We present tailored analytical methods and software that facilitate X-wide association studies (XWAS), which we further applied to reanalyze data from 16 GWAS of different autoimmune and related diseases (AID). We associated several X-linked genes with disease risk, among which (1) ARHGEF6 is associated with Crohn's disease and replicated in a study of ulcerative colitis, another inflammatory bowel disease (IBD). Indeed, ARHGEF6 interacts with a gastric bacterium that has been implicated in IBD. (2) CENPI is associated with three different AID, which is compelling in light of known associations with AID of autosomal genes encoding centromere proteins, as well as established autosomal evidence of pleiotropy between autoimmune diseases. (3) We replicated a previous association of FOXP3, a transcription factor that regulates T-cell development and function, with vitiligo; and (4) we discovered that C1GALT1C1 exhibits sex-specific effect on disease risk in both IBDs. These and other X-linked genes that we associated with AID tend to be highly expressed in tissues related to immune response, participate in major immune pathways, and display differential gene expression between males and females. Combined, the results demonstrate the importance of the X chromosome in autoimmunity, reveal the potential of extensive XWAS, even based on existing data, and provide the tools and incentive to properly include the X chromosome in future studies.
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Affiliation(s)
- Diana Chang
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
- Program in Computational Biology and Medicine, Cornell University, Ithaca, New York, United States of America
| | - Feng Gao
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
| | - Andrea Slavney
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
- Graduate Field of Genetics, Genomics and Development, Cornell University, Ithaca, New York, United States of America
| | - Li Ma
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
- Department of Animal and Avian Sciences, University of Maryland, College Park, Maryland, United States of America
| | - Yedael Y. Waldman
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
| | - Aaron J. Sams
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
| | - Paul Billing-Ross
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
- Graduate Field of Genetics, Genomics and Development, Cornell University, Ithaca, New York, United States of America
| | - Aviv Madar
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
| | - Richard Spritz
- Human Medical Genetics and Genomics Program, University of Colorado School of Medicine, Aurora, Colorado, United States of America
| | - Alon Keinan
- Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York, United States of America
- Program in Computational Biology and Medicine, Cornell University, Ithaca, New York, United States of America
- Graduate Field of Genetics, Genomics and Development, Cornell University, Ithaca, New York, United States of America
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180
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Zhang Z, Xiang LF. Genetic susceptibility to vitiligo: Recent progress from genome-wide association studies. DERMATOL SIN 2014. [DOI: 10.1016/j.dsi.2014.09.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
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181
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Kuiper JJW, Van Setten J, Ripke S, Van 'T Slot R, Mulder F, Missotten T, Baarsma GS, Francioli LC, Pulit SL, De Kovel CGF, Ten Dam-Van Loon N, Den Hollander AI, Huis in het Veld P, Hoyng CB, Cordero-Coma M, Martín J, Llorenç V, Arya B, Thomas D, Bakker SC, Ophoff RA, Rothova A, De Bakker PIW, Mutis T, Koeleman BPC. A genome-wide association study identifies a functional ERAP2 haplotype associated with birdshot chorioretinopathy. Hum Mol Genet 2014; 23:6081-7. [PMID: 24957906 PMCID: PMC4204766 DOI: 10.1093/hmg/ddu307] [Citation(s) in RCA: 89] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2014] [Revised: 06/05/2014] [Accepted: 06/12/2014] [Indexed: 12/19/2022] Open
Abstract
Birdshot chorioretinopathy (BSCR) is a rare form of autoimmune uveitis that can lead to severe visual impairment. Intriguingly, >95% of cases carry the HLA-A29 allele, which defines the strongest documented HLA association for a human disease. We have conducted a genome-wide association study in 96 Dutch and 27 Spanish cases, and 398 unrelated Dutch and 380 Spanish controls. Fine-mapping the primary MHC association through high-resolution imputation at classical HLA loci, identified HLA-A*29:02 as the principal MHC association (odds ratio (OR) = 157.5, 95% CI 91.6-272.6, P = 6.6 × 10(-74)). We also identified two novel susceptibility loci at 5q15 near ERAP2 (rs7705093; OR = 2.3, 95% CI 1.7-3.1, for the T allele, P = 8.6 × 10(-8)) and at 14q32.31 in the TECPR2 gene (rs150571175; OR = 6.1, 95% CI 3.2-11.7, for the A allele, P = 3.2 × 10(-8)). The association near ERAP2 was confirmed in an independent British case-control samples (combined meta-analysis P = 1.7 × 10(-9)). Functional analyses revealed that the risk allele of the polymorphism near ERAP2 is strongly associated with high mRNA and protein expression of ERAP2 in B cells. This study further defined an extremely strong MHC risk component in BSCR, and detected evidence for a novel disease mechanism that affects peptide processing in the endoplasmic reticulum.
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Affiliation(s)
- Jonas J W Kuiper
- Department of Ophthalmology, Department of Clinical Chemistry and Hematology
| | | | - Stephan Ripke
- Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA, Center for Human Genetic Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA
| | | | | | - Tom Missotten
- The Rotterdam Eye Hospital, Rotterdam, The Netherlands
| | | | | | | | | | | | - Anneke I Den Hollander
- Department of Ophthalmology and Department of Human Genetics, Radboud University Nijmegen Medical Centre, Nijmegen, the Netherlands
| | | | | | - Miguel Cordero-Coma
- Unidad de Uveitis. Servicio de Oftalmología, Hospital Universitario de León, León, Spain
| | - Javier Martín
- Instituto de Parasitología y Biomedicina López-Neyra, IPBLN, CSIC, Granada, Spain
| | - Victor Llorenç
- Institut Clinic d'Oftalmologia (ICOF), Hospital Clinic de Barcelona, Barcelona, Spain
| | - Bharti Arya
- Moorfields Eye Hospital NHS Foundation Trust, London, UK
| | - Dhanes Thomas
- Moorfields Eye Hospital NHS Foundation Trust, London, UK
| | - Steven C Bakker
- Department of Psychiatry, Rudolph Magnus Institute of Neuroscience
| | - Roel A Ophoff
- Department of Psychiatry, Rudolph Magnus Institute of Neuroscience, Center for Neurobehavioral Genetics, Semel Institute for Neuroscience & Human Behavior, Department of Human Genetics, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA, USA and
| | - Aniki Rothova
- Department of Ophthalmology, Erasmus University Medical Center, Rotterdam, The Netherlands
| | - Paul I W De Bakker
- Department of Medical Genetics, Department of Epidemiology, University Medical Center Utrecht, Utrecht, The Netherlands
| | - Tuna Mutis
- Department of Clinical Chemistry and Hematology
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182
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Haddadeen C, Lai C, Cho SY, Healy E. Variants of the melanocortin-1 receptor: do they matter clinically? Exp Dermatol 2014; 24:5-9. [DOI: 10.1111/exd.12540] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/06/2014] [Indexed: 01/04/2023]
Affiliation(s)
- Ciara Haddadeen
- Dermatopharmacology; Sir Henry Wellcome Laboratories; Faculty of Medicine; University of Southampton; Southampton UK
- Dermatology; University Hospital Southampton NHS Foundation Trust; Southampton UK
| | - Chester Lai
- Dermatopharmacology; Sir Henry Wellcome Laboratories; Faculty of Medicine; University of Southampton; Southampton UK
- Dermatology; University Hospital Southampton NHS Foundation Trust; Southampton UK
| | - Shin-Young Cho
- Dermatopharmacology; Sir Henry Wellcome Laboratories; Faculty of Medicine; University of Southampton; Southampton UK
- Dermatology; University Hospital Southampton NHS Foundation Trust; Southampton UK
| | - Eugene Healy
- Dermatopharmacology; Sir Henry Wellcome Laboratories; Faculty of Medicine; University of Southampton; Southampton UK
- Dermatology; University Hospital Southampton NHS Foundation Trust; Southampton UK
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183
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Alkan C, Kavak P, Somel M, Gokcumen O, Ugurlu S, Saygi C, Dal E, Bugra K, Güngör T, Sahinalp SC, Özören N, Bekpen C. Whole genome sequencing of Turkish genomes reveals functional private alleles and impact of genetic interactions with Europe, Asia and Africa. BMC Genomics 2014; 15:963. [PMID: 25376095 PMCID: PMC4236450 DOI: 10.1186/1471-2164-15-963] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2014] [Accepted: 10/14/2014] [Indexed: 12/30/2022] Open
Abstract
Background Turkey is a crossroads of major population movements throughout history and has been a hotspot of cultural interactions. Several studies have investigated the complex population history of Turkey through a limited set of genetic markers. However, to date, there have been no studies to assess the genetic variation at the whole genome level using whole genome sequencing. Here, we present whole genome sequences of 16 Turkish individuals resequenced at high coverage (32 × -48×). Results We show that the genetic variation of the contemporary Turkish population clusters with South European populations, as expected, but also shows signatures of relatively recent contribution from ancestral East Asian populations. In addition, we document a significant enrichment of non-synonymous private alleles, consistent with recent observations in European populations. A number of variants associated with skin color and total cholesterol levels show frequency differentiation between the Turkish populations and European populations. Furthermore, we have analyzed the 17q21.31 inversion polymorphism region (MAPT locus) and found increased allele frequency of 31.25% for H1/H2 inversion polymorphism when compared to European populations that show about 25% of allele frequency. Conclusion This study provides the first map of common genetic variation from 16 western Asian individuals and thus helps fill an important geographical gap in analyzing natural human variation and human migration. Our data will help develop population-specific experimental designs for studies investigating disease associations and demographic history in Turkey. Electronic supplementary material The online version of this article (doi:10.1186/1471-2164-15-963) contains supplementary material, which is available to authorized users.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | - Nesrin Özören
- Department of Molecular Biology and Genetics, Boğaziçi University, İstanbul 34342, Turkey.
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184
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van Geel N, Depaepe L, Speeckaert R. Laser (755 nm) and cryotherapy as depigmentation treatments for vitiligo: a comparative study. J Eur Acad Dermatol Venereol 2014; 29:1121-7. [DOI: 10.1111/jdv.12762] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2014] [Accepted: 09/05/2014] [Indexed: 02/02/2023]
Affiliation(s)
- N. van Geel
- Department of Dermatology; Ghent University Hospital; Ghent Belgium
| | - L. Depaepe
- Department of Dermatology; Ghent University Hospital; Ghent Belgium
| | - R. Speeckaert
- Department of Dermatology; Ghent University Hospital; Ghent Belgium
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185
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Abstract
The skin is composed of a variety of cell types expressing specific molecules and possessing different properties that facilitate the complex interactions and intercellular communication essential for maintaining the structural integrity of the skin. Importantly, a single mutation in one of these molecules can disrupt the entire organization and function of these essential networks, leading to cell separation, blistering, and other striking phenotypes observed in inherited skin diseases. Over the past several decades, the genetic basis of many monogenic skin diseases has been elucidated using classical genetic techniques. Importantly, the findings from these studies has shed light onto the many classes of molecules and essential genetic as well as molecular interactions that lend the skin its rigid, yet flexible properties. With the advent of the human genome project, next-generation sequencing techniques, as well as several other recently developed methods, tremendous progress has been made in dissecting the genetic architecture of complex, non-Mendelian skin diseases.
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Affiliation(s)
- Gina M DeStefano
- Department of Genetics and Development, Columbia University, New York, New York 10032
| | - Angela M Christiano
- Department of Genetics and Development, Columbia University, New York, New York 10032 Department of Dermatology, Columbia University, New York, New York 10032
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186
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Chang D, Keinan A. Principal component analysis characterizes shared pathogenetics from genome-wide association studies. PLoS Comput Biol 2014; 10:e1003820. [PMID: 25211452 PMCID: PMC4161298 DOI: 10.1371/journal.pcbi.1003820] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2013] [Accepted: 07/19/2014] [Indexed: 01/04/2023] Open
Abstract
Genome-wide association studies (GWASs) have recently revealed many genetic associations that are shared between different diseases. We propose a method, disPCA, for genome-wide characterization of shared and distinct risk factors between and within disease classes. It flips the conventional GWAS paradigm by analyzing the diseases themselves, across GWAS datasets, to explore their "shared pathogenetics". The method applies principal component analysis (PCA) to gene-level significance scores across all genes and across GWASs, thereby revealing shared pathogenetics between diseases in an unsupervised fashion. Importantly, it adjusts for potential sources of heterogeneity present between GWAS which can confound investigation of shared disease etiology. We applied disPCA to 31 GWASs, including autoimmune diseases, cancers, psychiatric disorders, and neurological disorders. The leading principal components separate these disease classes, as well as inflammatory bowel diseases from other autoimmune diseases. Generally, distinct diseases from the same class tend to be less separated, which is in line with their increased shared etiology. Enrichment analysis of genes contributing to leading principal components revealed pathways that are implicated in the immune system, while also pointing to pathways that have yet to be explored before in this context. Our results point to the potential of disPCA in going beyond epidemiological findings of the co-occurrence of distinct diseases, to highlighting novel genes and pathways that unsupervised learning suggest to be key players in the variability across diseases.
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Affiliation(s)
- Diana Chang
- Department of Biological Statistics & Computational Biology, Cornell University, Ithaca, New York, United States of America
- Program in Computational Biology and Medicine, Cornell University, Ithaca, New York, United States of America
- * E-mail: (DC); (AK)
| | - Alon Keinan
- Department of Biological Statistics & Computational Biology, Cornell University, Ithaca, New York, United States of America
- Program in Computational Biology and Medicine, Cornell University, Ithaca, New York, United States of America
- * E-mail: (DC); (AK)
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187
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Jang HM, Erf GF, Rowland KC, Kong BW. Genome resequencing and bioinformatic analysis of SNP containing candidate genes in the autoimmune vitiligo Smyth line chicken model. BMC Genomics 2014; 15:707. [PMID: 25151476 PMCID: PMC4152579 DOI: 10.1186/1471-2164-15-707] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2013] [Accepted: 08/18/2014] [Indexed: 12/23/2022] Open
Abstract
BACKGROUND The Smyth line (SL) chicken is the only animal model for autoimmune vitiligo that spontaneously displays all clinical and biological manifestations of the human disorder. To understand the genetic components underlying the susceptibility to develop SL vitiligo (SLV), whole genome resequencing analysis was performed in SLV chickens compared with non-vitiliginous parental Brown line (BL) chickens, which maintain a very low incidence rate of vitiligo. RESULTS Illumina sequencing technology and reference based assembly on Red Jungle Fowl genome sequences were used. Results of genome resequencing of pooled DNA of each 10 BL and SL chickens reached 5.1x and 7.0x coverage, respectively. The total number of SNPs was 4.8 and 5.5 million in BL and SL genome, respectively. Through a series of filtering processes, a total of ~1 million unique SNPs were found in the SL alone. Eventually of the 156 reliable marker SNPs, which can induce non-synonymous-, frameshift-, nonsense-, and no-start mutations in amino acid sequences in proteins, 139 genes were chosen for further analysis. Of these, 14 randomly chosen SNPs were examined for SNP verification by PCR and Sanger sequencing to detect SNP positions in 20 BL and 70 SL chickens. The results of the analysis of the 14 SNPs clearly showed differential frequencies of nucleotide bases in the SNP positions between BL and SL chickens. Bioinformatic analysis showed that the 156 most reliable marker SNPs included genes involved in dermatological diseases/conditions such as ADAMTS13, ASPM, ATP6V0A2, BRCA2, COL12A1, GRM5, LRP2, OBSCN, PLAU, RNF168, STAB2, and XIRP1. Intermolecular gene network analysis revealed that candidate genes identified in SLV play a role in networks centered on protein kinases (MAPK, ERK1/2, PKC, PRKDC), phosphatase (PPP1CA), ubiquitinylation (UBC) and amyloid production (APP). CONCLUSIONS Various potential genetic markers showing amino acid changes and potential roles in vitiligo development were identified in the SLV chicken through genome resequencing. The genetic markers and bioinformatic interpretations of amino acid mutations found in SLV chickens may provide insight into the genetic component responsible for the onset and the progression of autoimmune vitiligo and serve as valuable markers to develop diagnostic tools to detect vitiligo susceptibility.
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Affiliation(s)
- Hyeon-Min Jang
- Department of Poultry Science, Center of Excellence for Poultry Science, University of Arkansas, POSC O-404, 1260 West Maple, Fayetteville, AR 72701 USA
| | - Gisela F Erf
- Department of Poultry Science, Center of Excellence for Poultry Science, University of Arkansas, POSC O-404, 1260 West Maple, Fayetteville, AR 72701 USA
| | - Kaylee C Rowland
- Department of Poultry Science, Center of Excellence for Poultry Science, University of Arkansas, POSC O-404, 1260 West Maple, Fayetteville, AR 72701 USA
| | - Byung-Whi Kong
- Department of Poultry Science, Center of Excellence for Poultry Science, University of Arkansas, POSC O-404, 1260 West Maple, Fayetteville, AR 72701 USA
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188
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Current aspects of vitiligo genetics. Postepy Dermatol Alergol 2014; 31:247-55. [PMID: 25254010 PMCID: PMC4171675 DOI: 10.5114/pdia.2014.43497] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2014] [Revised: 05/17/2014] [Accepted: 05/27/2014] [Indexed: 12/24/2022] Open
Abstract
Vitiligo is a common acquired depigmentation disorder of the skin manifested by the presence of white macules. The disease occurs at a frequency of approximately 1–4% of the world population. Currently, the most popular theory of vitiligo development is a multifactorial hypothesis according to which genetic conditions predispose vitiligo macules to occur as a result of specific environmental factors. According to the genetic hypothesis, vitiligo inheritance is multigenic. Genetic studies conducted so far concern patients with non-segmental vitiligo. There are three basic techniques of genetic studies: candidate gene association studies, genomewide linkage studies and genome-wide association studies (GWAS). The GWAS are the “gold standard” for detecting susceptibility genes. Up to now, approximately 36 convincing non-segmental vitiligo susceptibility loci have been identified. Approximately 90% of them encode immunoregulatory proteins, while approximately 10% encode melanocyte proteins. The existence of various associations between vitiligo and other autoimmune diseases may provide new knowledge on the causes of many disorders. Examples include the inverse relationship between vitiligo and melanoma and association of vitiligo with other autoimmune diseases. The main goal of all researches is to find new, optimal therapeutic strategies for vitiligo and other autoimmune diseases.
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189
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He J, Li X, Li Y, Ren B, Sun J, Zhang W, Li W. Lack of association between the 389C>T polymorphism (rs769217) in the catalase (CAT) gene and the risk of vitiligo: An update by meta-analysis. Australas J Dermatol 2014; 56:180-5. [PMID: 25139332 DOI: 10.1111/ajd.12204] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2013] [Accepted: 06/02/2014] [Indexed: 02/03/2023]
Affiliation(s)
- Jie He
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Xiaoyan Li
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Yunhui Li
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Bocheng Ren
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Jian Sun
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Wei Zhang
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
| | - Wancheng Li
- First Affiliated Hospital of Chengdu Medical College; Chengdu China
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190
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Igarashi K, Ochiai K, Itoh-Nakadai A, Muto A. Orchestration of plasma cell differentiation by Bach2 and its gene regulatory network. Immunol Rev 2014; 261:116-25. [DOI: 10.1111/imr.12201] [Citation(s) in RCA: 54] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Kazuhiko Igarashi
- Department of Biochemistry; Tohoku University Graduate School of Medicine; Sendai Japan
- CREST; Japan Science and Technology Agency; Sendai Japan
| | - Kyoko Ochiai
- Department of Biochemistry; Tohoku University Graduate School of Medicine; Sendai Japan
- CREST; Japan Science and Technology Agency; Sendai Japan
| | - Ari Itoh-Nakadai
- Department of Biochemistry; Tohoku University Graduate School of Medicine; Sendai Japan
- CREST; Japan Science and Technology Agency; Sendai Japan
| | - Akihiko Muto
- Department of Biochemistry; Tohoku University Graduate School of Medicine; Sendai Japan
- CREST; Japan Science and Technology Agency; Sendai Japan
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191
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Chambers JC, Abbott J, Zhang W, Turro E, Scott WR, Tan ST, Afzal U, Afaq S, Loh M, Lehne B, O'Reilly P, Gaulton KJ, Pearson RD, Li X, Lavery A, Vandrovcova J, Wass MN, Miller K, Sehmi J, Oozageer L, Kooner IK, Al-Hussaini A, Mills R, Grewal J, Panoulas V, Lewin AM, Northwood K, Wander GS, Geoghegan F, Li Y, Wang J, Aitman TJ, McCarthy MI, Scott J, Butcher S, Elliott P, Kooner JS. The South Asian genome. PLoS One 2014; 9:e102645. [PMID: 25115870 PMCID: PMC4130493 DOI: 10.1371/journal.pone.0102645] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Accepted: 06/21/2014] [Indexed: 12/15/2022] Open
Abstract
The genetic sequence variation of people from the Indian subcontinent who comprise one-quarter of the world's population, is not well described. We carried out whole genome sequencing of 168 South Asians, along with whole-exome sequencing of 147 South Asians to provide deeper characterisation of coding regions. We identify 12,962,155 autosomal sequence variants, including 2,946,861 new SNPs and 312,738 novel indels. This catalogue of SNPs and indels amongst South Asians provides the first comprehensive map of genetic variation in this major human population, and reveals evidence for selective pressures on genes involved in skin biology, metabolism, infection and immunity. Our results will accelerate the search for the genetic variants underlying susceptibility to disorders such as type-2 diabetes and cardiovascular disease which are highly prevalent amongst South Asians.
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Affiliation(s)
- John C. Chambers
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
- Imperial College Healthcare NHS Trust, London, United Kingdom
- MRC-HPA Centre for Environment and Health, Imperial College London, Norfolk Place, London, United Kingdom
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | - James Abbott
- Centre for Integrative Systems Biology and Bioinformatics, Imperial College London, London, United Kingdom
| | - Weihua Zhang
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | - Ernest Turro
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
- Computational Biology and Statistics, University of Cambridge, Cambridge, United Kingdom
| | - William R. Scott
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Sian-Tsung Tan
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
- NHLI, Imperial College London, Hammersmith Hospital, London, United Kingdom
| | - Uzma Afzal
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Saima Afaq
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Marie Loh
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Benjamin Lehne
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Paul O'Reilly
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Kyle J. Gaulton
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
| | - Richard D. Pearson
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
| | - Xinzhong Li
- Institute of Clinical Sciences, Imperial College London, London, United Kingdom
- Royal Brompton and Harefield Hospitals NHS Trust, London, United Kingdom
| | - Anita Lavery
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Jana Vandrovcova
- MRC Clinical Sciences Centre, Imperial College London, London, United Kingdom
| | - Mark N. Wass
- Centre for Integrative Systems Biology and Bioinformatics, Imperial College London, London, United Kingdom
| | - Kathryn Miller
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | - Joban Sehmi
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
- NHLI, Imperial College London, Hammersmith Hospital, London, United Kingdom
| | | | | | - Abtehale Al-Hussaini
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Rebecca Mills
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | - Jagvir Grewal
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | | | - Alexandra M. Lewin
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
| | - Korrinne Northwood
- MRC Clinical Sciences Centre, Imperial College London, London, United Kingdom
| | - Gurpreet S. Wander
- Hero DMC Heart Institute, Dayanand Medical College and Hospital, Ludhiana, India
| | - Frank Geoghegan
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
| | | | | | - Timothy J. Aitman
- MRC Clinical Sciences Centre, Imperial College London, London, United Kingdom
| | - Mark I. McCarthy
- Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
- Oxford Centre for Diabetes, Endocrinology & Metabolism, University of Oxford, Churchill Hospital, Oxford, United Kingdom
- Oxford NIHR Biomedical Research Centre, Churchill Hospital, Oxford, United Kingdom
| | - James Scott
- NHLI, Imperial College London, Hammersmith Hospital, London, United Kingdom
| | - Sarah Butcher
- Centre for Integrative Systems Biology and Bioinformatics, Imperial College London, London, United Kingdom
| | - Paul Elliott
- Epidemiology and Biostatistics, Imperial College London, Norfolk Place, London, United Kingdom
- Imperial College Healthcare NHS Trust, London, United Kingdom
- MRC-HPA Centre for Environment and Health, Imperial College London, Norfolk Place, London, United Kingdom
| | - Jaspal S. Kooner
- Imperial College Healthcare NHS Trust, London, United Kingdom
- Ealing Hospital NHS Trust, Southall, Middlesex, United Kingdom
- NHLI, Imperial College London, Hammersmith Hospital, London, United Kingdom
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192
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Oda H, Nakagawa K, Abe J, Awaya T, Funabiki M, Hijikata A, Nishikomori R, Funatsuka M, Ohshima Y, Sugawara Y, Yasumi T, Kato H, Shirai T, Ohara O, Fujita T, Heike T. Aicardi-Goutières syndrome is caused by IFIH1 mutations. Am J Hum Genet 2014; 95:121-5. [PMID: 24995871 DOI: 10.1016/j.ajhg.2014.06.007] [Citation(s) in RCA: 159] [Impact Index Per Article: 15.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2014] [Accepted: 06/11/2014] [Indexed: 10/25/2022] Open
Abstract
Aicardi-Goutières syndrome (AGS) is a rare, genetically determined early-onset progressive encephalopathy. To date, mutations in six genes have been identified as etiologic for AGS. Our Japanese nationwide AGS survey identified six AGS-affected individuals without a molecular diagnosis; we performed whole-exome sequencing on three of these individuals. After removal of the common polymorphisms found in SNP databases, we were able to identify IFIH1 heterozygous missense mutations in all three. In vitro functional analysis revealed that IFIH1 mutations increased type I interferon production, and the transcription of interferon-stimulated genes were elevated. IFIH1 encodes MDA5, and mutant MDA5 lacked ligand-specific responsiveness, similarly to the dominant Ifih1 mutation responsible for the SLE mouse model that results in type I interferon overproduction. This study suggests that the IFIH1 mutations are responsible for the AGS phenotype due to an excessive production of type I interferon.
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193
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Jin Y, Sharma A, Bai S, Davis C, Liu H, Hopkins D, Barriga K, Rewers M, She JX. Risk of type 1 diabetes progression in islet autoantibody-positive children can be further stratified using expression patterns of multiple genes implicated in peripheral blood lymphocyte activation and function. Diabetes 2014; 63:2506-15. [PMID: 24595351 PMCID: PMC4066338 DOI: 10.2337/db13-1716] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
There is tremendous scientific and clinical value to further improving the predictive power of autoantibodies because autoantibody-positive (AbP) children have heterogeneous rates of progression to clinical diabetes. This study explored the potential of gene expression profiles as biomarkers for risk stratification among 104 AbP subjects from the Diabetes Autoimmunity Study in the Young (DAISY) using a discovery data set based on microarray and a validation data set based on real-time RT-PCR. The microarray data identified 454 candidate genes with expression levels associated with various type 1 diabetes (T1D) progression rates. RT-PCR analyses of the top-27 candidate genes confirmed 5 genes (BACH2, IGLL3, EIF3A, CDC20, and TXNDC5) associated with differential progression and implicated in lymphocyte activation and function. Multivariate analyses of these five genes in the discovery and validation data sets identified and confirmed four multigene models (BI, ICE, BICE, and BITE, with each letter representing a gene) that consistently stratify high- and low-risk subsets of AbP subjects with hazard ratios >6 (P < 0.01). The results suggest that these genes may be involved in T1D pathogenesis and potentially serve as excellent gene expression biomarkers to predict the risk of progression to clinical diabetes for AbP subjects.
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Affiliation(s)
- Yulan Jin
- Sino-American Institute of Translational Medicine, School of Pharmaceutical Sciences, Nanjing University of Technology, Nanjing, ChinaCenter for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GADepartment of Pathology, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Ashok Sharma
- Center for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GADepartment of Pathology, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Shan Bai
- Center for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Colleen Davis
- Center for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Haitao Liu
- Sino-American Institute of Translational Medicine, School of Pharmaceutical Sciences, Nanjing University of Technology, Nanjing, ChinaCenter for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Diane Hopkins
- Center for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GA
| | - Kathy Barriga
- Barbara Davis Center for Childhood Diabetes, Aurora, CO
| | - Marian Rewers
- Barbara Davis Center for Childhood Diabetes, Aurora, CO
| | - Jin-Xiong She
- Sino-American Institute of Translational Medicine, School of Pharmaceutical Sciences, Nanjing University of Technology, Nanjing, ChinaCenter for Biotechnology and Genomic Medicine, Medical College of Georgia, Georgia Regents University, Augusta, GADepartment of Pathology, Medical College of Georgia, Georgia Regents University, Augusta, GA
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195
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Marroquí L, Santin I, Dos Santos RS, Marselli L, Marchetti P, Eizirik DL. BACH2, a candidate risk gene for type 1 diabetes, regulates apoptosis in pancreatic β-cells via JNK1 modulation and crosstalk with the candidate gene PTPN2. Diabetes 2014; 63:2516-27. [PMID: 24608439 DOI: 10.2337/db13-1443] [Citation(s) in RCA: 83] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Type 1 diabetes is a chronic autoimmune disease characterized by specific destruction of pancreatic β-cells by the immune system. Linkage and genome-wide association studies have identified more than 50 loci across the human genome associated with risk of type 1 diabetes. Recently, basic leucine zipper transcription factor 2 (BACH2) has been associated with genetic risk to develop type 1 diabetes, in an effect ascribed to the immune system. We evaluated whether BACH2 may also play a role in immune-mediated pancreatic β-cell apoptosis. BACH2 inhibition exacerbated cytokine-induced β-cell apoptosis in human and rodent β-cells by the mitochondrial pathway of cell death, whereas BACH2 overexpression had protective effects. BACH2 silencing and exposure to proinflammatory cytokines increased phosphorylation of the proapoptotic protein JNK1 by upregulation of mitogen-activated protein kinase kinase 7 (MKK7) and downregulation of PTPN2. JNK1 increased phosphorylation of the proapoptotic protein BIM, and both JNK1 and BIM knockdown protected β-cells against cytokine-induced apoptosis in BACH2-silenced cells. The present findings suggest that the type 1 diabetes candidate gene BACH2 regulates proinflammatory cytokine-induced apoptotic pathways in pancreatic β-cells by crosstalk with another candidate gene, PTPN2, and activation of JNK1 and BIM. This clarifies an unexpected and relevant mechanism by which BACH2 may contribute to diabetes.
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Affiliation(s)
- Laura Marroquí
- Laboratory of Experimental Medicine, Université Libre de Bruxelles Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
| | - Izortze Santin
- Laboratory of Experimental Medicine, Université Libre de Bruxelles Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, BelgiumEndocrinology and Diabetes Research Group, BioCruces Health Research Institute and Spanish Biomedical Research Centre in Diabetes and Associated Metabolic Disorders, Barakaldo, Spain
| | - Reinaldo Sousa Dos Santos
- Laboratory of Experimental Medicine, Université Libre de Bruxelles Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
| | - Lorella Marselli
- Department of Endocrinology and Metabolism, Metabolic Unit, University of Pisa, Pisa, Italy
| | - Piero Marchetti
- Department of Endocrinology and Metabolism, Metabolic Unit, University of Pisa, Pisa, Italy
| | - Decio L Eizirik
- Laboratory of Experimental Medicine, Université Libre de Bruxelles Center for Diabetes Research, Medical Faculty, Université Libre de Bruxelles, Brussels, Belgium
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196
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Alzolibani AA, Al Robaee A, Al-Shobaili H, Al-Saif F, Al-Mekhadab E, Settin AA. Association of CYP2C9 Genetic Variants with Vitiligo. Ann Dermatol 2014; 26:343-8. [PMID: 24966634 PMCID: PMC4069645 DOI: 10.5021/ad.2014.26.3.343] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2012] [Revised: 07/01/2013] [Accepted: 07/09/2013] [Indexed: 11/08/2022] Open
Abstract
BACKGROUND Vitiligo is a depigmenting skin disorder in which genetic factors play an important role. OBJECTIVE To examine the association of CYP2C9 (*) 1/(*) 2/(*) 3 gene polymorphism with vitiligo. METHODS In this case controlled study, 95 Saudi patients with vitiligo (50 men and 45 women), with a mean age of 27.3 years, were analyzed. Patients were compared to 86 healthy controls from the same locality (76 men and 10 women), with a mean age of 20.1 years. In all participants, DNA was extracted and processed for characterization of 2C9 (*) 1/(*) 2/(*) 3 gene variants using real time-polymerase chain reaction. RESULTS Vitiligo patients have a significantly higher CYP2C9 (*) 3 allele carriage rate compared to controls (32.7% versus 4.7%, p=0.00, odds ratio=9.9, 95% confidence interval=3.3~29.6). On the other hand, frequencies of CYP2C9 (*) 2 genotypes and alleles did not show any significant difference between vitiligo cases and controls. When the frequencies of CYP2C9 genotypes were compared among subgroups of age, gender, family history, and disease patterns, the cases with positive consanguinity had significantly higher frequencies of homozygous genotypes than others (p=0.029). CONCLUSION CYP2C9 (*) 3 allele carriage is probably associated with vitiligo susceptibility.
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Affiliation(s)
| | - Ahmad Al Robaee
- Department of Dermatology, College of Medicine, Qassim University, Buraidah, Saudi Arabia
| | - Hani Al-Shobaili
- Department of Dermatology, College of Medicine, Qassim University, Buraidah, Saudi Arabia
| | - Fahad Al-Saif
- Department of Dermatology, College of Medicine, King Saud University, Riyadh, Saudi Arabia
| | - Eman Al-Mekhadab
- Department of Dermatology, College of Medicine, King Saud University, Riyadh, Saudi Arabia
| | - Ahmed A Settin
- Research Centre, College of Medicine, Qassim University, Buraidah, Saudi Arabia
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Natarajan VT, Ganju P, Ramkumar A, Grover R, Gokhale RS. Multifaceted pathways protect human skin from UV radiation. Nat Chem Biol 2014; 10:542-51. [DOI: 10.1038/nchembio.1548] [Citation(s) in RCA: 144] [Impact Index Per Article: 14.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2014] [Accepted: 05/02/2014] [Indexed: 02/07/2023]
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198
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Auburger G, Gispert S, Lahut S, Ömür &O, Damrath E, Heck M, Başak N. 12q24 locus association with type 1 diabetes: SH2B3 or ATXN2? World J Diabetes 2014; 5:316-327. [PMID: 24936253 PMCID: PMC4058736 DOI: 10.4239/wjd.v5.i3.316] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/29/2013] [Revised: 03/13/2014] [Accepted: 04/11/2014] [Indexed: 02/05/2023] Open
Abstract
Genetic linkage analyses, genome-wide association studies of single nucleotide polymorphisms, copy number variation surveys, and mutation screenings found the human chromosomal 12q24 locus, with the genes SH2B3 and ATXN2 in its core, to be associated with an exceptionally wide spectrum of disease susceptibilities. Hematopoietic traits of red and white blood cells (like erythrocytosis and myeloproliferative disease), autoimmune disorders (like type 1 diabetes, coeliac disease, juvenile idiopathic arthritis, rheumatoid arthritis, thrombotic antiphospholipid syndrome, lupus erythematosus, multiple sclerosis, hypothyroidism and vitiligo), also vascular pathology (like kidney glomerular filtration rate deficits, serum urate levels, plasma beta-2-microglobulin levels, retinal microcirculation problems, diastolic and systolic blood pressure and hypertension, cardiovascular infarction), furthermore obesity, neurodegenerative conditions (like the polyglutamine-expansion disorder spinocerebellar ataxia type 2, Parkinson’s disease, the motor-neuron disease amyotrophic lateral sclerosis, and progressive supranuclear palsy), and finally longevity were reported. Now it is important to clarify, in which ways the loss or gain of function of the locally encoded proteins SH2B3/LNK and ataxin-2, respectively, contribute to these polygenic health problems. SH2B3/LNK is known to repress the JAK2/ABL1 dependent proliferation of white blood cells. Its null mutations in human and mouse are triggers of autoimmune traits and leukemia (acute lymphoblastic leukemia or chronic myeloid leukemia-like), while missense mutations were found in erythrocytosis-1 patients. Ataxin-2 is known to act on RNA-processing and trophic receptor internalization. While its polyglutamine-expansion mediated gain-of-function causes neuronal atrophy in human and mouse, its deletion leads to obesity and insulin resistance in mice. Thus, it is conceivable that the polygenic pathogenesis of type 1 diabetes is enhanced by an SH2B3-dysregulation-mediated predisposition to autoimmune diseases that conspires with an ATXN2-deficiency-mediated predisposition to lipid and glucose metabolism pathology.
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Abstract
Human melanocytes are distributed not only in the epidermis and in hair follicles but also in mucosa, cochlea (ear), iris (eye), and mesencephalon (brain) among other tissues. Melanocytes, which are derived from the neural crest, are unique in that they produce eu-/pheo-melanin pigments in unique membrane-bound organelles termed melanosomes, which can be divided into four stages depending on their degree of maturation. Pigmentation production is determined by three distinct elements: enzymes involved in melanin synthesis, proteins required for melanosome structure, and proteins required for their trafficking and distribution. Many genes are involved in regulating pigmentation at various levels, and mutations in many of them cause pigmentary disorders, which can be classified into three types: hyperpigmentation (including melasma), hypopigmentation (including oculocutaneous albinism [OCA]), and mixed hyper-/hypopigmentation (including dyschromatosis symmetrica hereditaria). We briefly review vitiligo as a representative of an acquired hypopigmentation disorder.
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Spritz RA. Modern vitiligo genetics sheds new light on an ancient disease. J Dermatol 2014; 40:310-8. [PMID: 23668538 DOI: 10.1111/1346-8138.12147] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2013] [Accepted: 02/20/2013] [Indexed: 01/08/2023]
Abstract
Vitiligo is a complex disorder in which autoimmune destruction of melanocytes results in white patches of skin and overlying hair. Over the past several years, extensive genetic studies have outlined a biological framework of vitiligo pathobiology that underscores its relationship to other autoimmune diseases. This biological framework offers insight into both vitiligo pathogenesis and perhaps avenues towards more effective approaches to treatment and even disease prevention.
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Affiliation(s)
- Richard A Spritz
- Human Medical Genetics and Genomics Program, University of Colorado School of Medicine, Aurora, Colorado 80045, USA.
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