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Hoebel AK, Drichel D, van de Vorst M, Böhmer AC, Sivalingam S, Ishorst N, Klamt J, Gölz L, Alblas M, Maaser A, Keppler K, Zink AM, Dixon MJ, Dixon J, Hemprich A, Kruse T, Graf I, Dunsche A, Schmidt G, Daratsianos N, Nowak S, Aldhorae KA, Nöthen MM, Knapp M, Thiele H, Gilissen C, Reutter H, Hoischen A, Mangold E, Ludwig KU. Candidate Genes for Nonsyndromic Cleft Palate Detected by Exome Sequencing. J Dent Res 2017; 96:1314-1321. [PMID: 28767323 DOI: 10.1177/0022034517722761] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Nonsyndromic cleft palate only (nsCPO) is a facial malformation that has a livebirth prevalence of 1 in 2,500. Research suggests that the etiology of nsCPO is multifactorial, with a clear genetic component. To date, genome-wide association studies have identified only 1 conclusive common variant for nsCPO, that is, a missense variant in the gene grainyhead-like-3 ( GRHL3). Thus, the underlying genetic causes of nsCPO remain largely unknown. The present study aimed at identifying rare variants that might contribute to nsCPO risk, via whole-exome sequencing (WES), in multiply affected Central European nsCPO pedigrees. WES was performed in 2 affected first-degree relatives from each family. Variants shared between both individuals were analyzed for their potential deleterious nature and a low frequency in the general population. Genes carrying promising variants were annotated for 1) reported associations with facial development, 2) multiple occurrence of variants, and 3) expression in mouse embryonic palatal shelves. This strategy resulted in the identification of a set of 26 candidate genes that were resequenced in 132 independent nsCPO cases and 623 independent controls of 2 different ethnicities, using molecular inversion probes. No rare loss-of-function mutation was identified in either WES or resequencing step. However, we identified 2 or more missense variants predicted to be deleterious in each of 3 genes ( ACACB, PTPRS, MIB1) in individuals from independent families. In addition, the analyses identified a novel variant in GRHL3 in 1 patient and a variant in CREBBP in 2 siblings. Both genes underlie different syndromic forms of CPO. A plausible hypothesis is that the apparently nonsyndromic clefts in these 3 patients might represent hypomorphic forms of the respective syndromes. In summary, the present study identified rare variants that might contribute to nsCPO risk and suggests candidate genes for further investigation.
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Affiliation(s)
- A K Hoebel
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - D Drichel
- 3 German Center for Neurodegenerative Diseases (DZNE), Bonn, Germany.,4 Cologne Center for Genomics, Department of Statistical Genetics and Bioinformatics, University of Cologne, Cologne, Germany
| | - M van de Vorst
- 5 Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands
| | - A C Böhmer
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - S Sivalingam
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - N Ishorst
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - J Klamt
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - L Gölz
- 6 Department of Orthodontics, University of Bonn, Bonn, Germany
| | - M Alblas
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - A Maaser
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - K Keppler
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - A M Zink
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany
| | - M J Dixon
- 7 Faculty of Biology, Medicine & Health, University of Manchester, Manchester, UK
| | - J Dixon
- 7 Faculty of Biology, Medicine & Health, University of Manchester, Manchester, UK
| | - A Hemprich
- 8 Department of Oral and Maxillo-Facial Surgery, University of Leipzig, Leipzig, Germany
| | - T Kruse
- 9 Department of Orthodontics, University of Cologne, Cologne, Germany
| | - I Graf
- 9 Department of Orthodontics, University of Cologne, Cologne, Germany
| | - A Dunsche
- 10 Clinics Karlsruhe, Department of Oral and Maxillo-Facial Surgery, Karlsruhe, Germany
| | - G Schmidt
- 11 Department of Cleft Lip and Cleft Palate Surgery, Humboldt University of Berlin, Berlin, Germany
| | - N Daratsianos
- 6 Department of Orthodontics, University of Bonn, Bonn, Germany
| | - S Nowak
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany
| | - K A Aldhorae
- 12 Department of Orthodontics, College of Dentistry, Dhamar University, Dhamar, Yemen
| | - M M Nöthen
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
| | - M Knapp
- 13 Institute of Medical Biometry, Informatics and Epidemiology, University of Bonn, Bonn, Germany
| | - H Thiele
- 14 Cologne Center for Genomics, University of Cologne, Cologne, Germany
| | - C Gilissen
- 5 Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands
| | - H Reutter
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,15 Department of Neonatology &Pediatric Intensive Care, Children's Hospital, University of Bonn, Bonn, Germany
| | - A Hoischen
- 5 Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands.,16 Department of Internal Medicine, Radboud University Medical Center, Nijmegen, The Netherlands.,17 Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, Nijmegen, The Netherlands
| | - E Mangold
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany
| | - K U Ludwig
- 1 Institute of Human Genetics, University of Bonn, Bonn, Germany.,2 Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany
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Mobascher A, Diaz-Lacava A, Wagner M, Gallinat J, Wienker TF, Drichel D, Becker T, Steffens M, Dahmen N, Gründer G, Thürauf N, Kiefer F, Kornhuber J, Toliat MR, Thiele H, Nürnberg P, Steinlein O, Winterer G. Association of Common Polymorphisms in the Nicotinic Acetylcholine Receptor Alpha4 Subunit Gene with an Electrophysiological Endophenotype in a Large Population-Based Sample. PLoS One 2016; 11:e0152984. [PMID: 27054571 PMCID: PMC4824511 DOI: 10.1371/journal.pone.0152984] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2015] [Accepted: 03/22/2016] [Indexed: 12/16/2022] Open
Abstract
Variation in genes coding for nicotinic acetylcholine receptor (nAChR) subunits affect cognitive processes and may contribute to the genetic architecture of neuropsychiatric disorders. Single nucleotide polymorphisms (SNPs) in the CHRNA4 gene that codes for the alpha4 subunit of alpha4/beta2-containing receptors have previously been implicated in aspects of (mostly visual) attention and smoking-related behavioral measures. Here we investigated the effects of six synonymous but functional CHRNA4 exon 5 SNPs on the N100 event-related potential (ERP), an electrophysiological endophenotype elicited by a standard auditory oddball. A total of N = 1,705 subjects randomly selected from the general population were studied with electroencephalography (EEG) as part of the German Multicenter Study on nicotine addiction. Two of the six variants, rs1044396 and neighboring rs1044397, were significantly associated with N100 amplitude. This effect was pronounced in females where we also observed an effect on reaction time. Sequencing of the complete exon 5 region in the population sample excluded the existence of additional/functional variants that may be responsible for the observed effects. This is the first large-scale population-based study investigation the effects of CHRNA4 SNPs on brain activity measures related to stimulus processing and attention. Our results provide further evidence that common synonymous CHRNA4 exon 5 SNPs affect cognitive processes and suggest that they also play a role in the auditory system. As N100 amplitude reduction is considered a schizophrenia-related endophenotype the SNPs studied here may also be associated with schizophrenia outcome measures.
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Affiliation(s)
- A. Mobascher
- Department of Psychiatry, Mainz University Hospital, Mainz, Germany
| | - A. Diaz-Lacava
- Cologne Center for Genomics, University of Cologne, Cologne, Germany
| | - M. Wagner
- Department of Psychiatry, Bonn University Hospital, Bonn, Germany
| | - J. Gallinat
- Department of Psychiatry and Psychotherapy, University Medical Center Hamburg Eppendorf (UKE), Hamburg, Germany
| | - T. F. Wienker
- Max-Planck Institute for Molecular Genetics, Berlin, Germany
| | - D. Drichel
- University of Greifswald, Greifswald, Germany
| | - T. Becker
- University of Greifswald, Greifswald, Germany
| | - M. Steffens
- Research Division, Federal Institute for Drugs and Medical Devices (BfArM), Bonn, Germany
| | - N. Dahmen
- Department of Psychiatry, Mainz University Hospital, Mainz, Germany
| | - G. Gründer
- Department of Psychiatry, Rheinisch-Westfälische Technische Hochschule (RWTH) Aachen, University Hospital, Aachen, Germany
| | - N. Thürauf
- Department of Psychiatry, Friedrich-Alexander University, University Hospital, Erlangen- Nürnberg, Erlangen, Germany
| | - F. Kiefer
- Department of Addictive Behavior and Addiction Medicine, Central Institute of Mental Health, Mannheim, Germany
| | - J. Kornhuber
- Department of Psychiatry, Friedrich-Alexander University, University Hospital, Erlangen- Nürnberg, Erlangen, Germany
| | - M. R. Toliat
- Cologne Center for Genomics, University of Cologne, Cologne, Germany
| | - H. Thiele
- Cologne Center for Genomics, University of Cologne, Cologne, Germany
| | - P. Nürnberg
- Cologne Center for Genomics, University of Cologne, Cologne, Germany
| | - O. Steinlein
- Department of Human Genetics, Ludwig-Maximilians University, Munich, Germany
| | - G. Winterer
- Experimental and Clinical Research Center (ECRC), Charité – University Medicine, Berlin, Germany
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Redler S, Birch P, Drichel D, Hofmann P, Dobson K, Böhmer A, Becker J, Giehl K, Tazi-Ahnini R, Kruse R, Wolff H, Miesel A, Fischer T, Böhm M, Nuwayhid R, Garcia Bartels N, Lutz G, Becker T, Blume-Peytavi U, Nöthen M, Messenger A, Betz R. The oestrogen receptor 2 (ESR2) gene in female-pattern hair loss: replication of association with rs10137185 in German patients. Br J Dermatol 2014; 170:982-5. [DOI: 10.1111/bjd.12756] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- S. Redler
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - P. Birch
- Department of Dermatology; Royal Hallamshire Hospital; Sheffield U.K
| | - D. Drichel
- German Center for Neurodegenerative Diseases (DZNE); Bonn Germany
| | - P. Hofmann
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
- Department of Genomics, Life & Brain Center; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - K. Dobson
- Department of Dermatology; Royal Hallamshire Hospital; Sheffield U.K
| | - A.C. Böhmer
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
- Department of Genomics, Life & Brain Center; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - J. Becker
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
- Department of Genomics, Life & Brain Center; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - K.A. Giehl
- Department of Dermatology; University of Munich; Munich Germany
| | - R. Tazi-Ahnini
- Department of Infection and Immunity; University of Sheffield; Sheffield U.K
| | - R. Kruse
- Dermatological Practice; Paderborn Germany
| | - H. Wolff
- Department of Dermatology; University of Munich; Munich Germany
| | - A. Miesel
- Department of Dermatology; University of Lübeck; Lübeck Germany
| | - T. Fischer
- Department of Dermatology; University of Lübeck; Lübeck Germany
| | - M. Böhm
- Department of Dermatology; Laboratory for Neuroendocrinology of the Skin and Interdisciplinary Endocrinology; University of Münster; Münster Germany
| | - R. Nuwayhid
- Clinical Research Center for Hair and Skin Science; Department of Dermatology and Allergy; Charité-Universitätsmedizin Berlin; Berlin Germany
| | - N. Garcia Bartels
- Clinical Research Center for Hair and Skin Science; Department of Dermatology and Allergy; Charité-Universitätsmedizin Berlin; Berlin Germany
| | - G. Lutz
- Dermatological Practice, Hair & Nail; Wesseling Germany
| | - T. Becker
- German Center for Neurodegenerative Diseases (DZNE); Bonn Germany
- Institute for Medical Biometry Informatics and Epidemiology; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - U. Blume-Peytavi
- Clinical Research Center for Hair and Skin Science; Department of Dermatology and Allergy; Charité-Universitätsmedizin Berlin; Berlin Germany
| | - M.M. Nöthen
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
- Department of Genomics, Life & Brain Center; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
| | - A.G. Messenger
- Department of Dermatology; Royal Hallamshire Hospital; Sheffield U.K
| | - R.C. Betz
- Institute of Human Genetics; University of Bonn; Sigmund-Freud-Street 25 D-53127 Bonn Germany
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Redler S, Brockschmidt FF, Tazi-Ahnini R, Drichel D, Birch MP, Dobson K, Giehl KA, Herms S, Refke M, Kluck N, Kruse R, Lutz G, Wolff H, Böhm M, Becker T, Nöthen MM, Messenger AG, Betz RC. Investigation of the male pattern baldness major genetic susceptibility loci AR/EDA2R and 20p11 in female pattern hair loss. Br J Dermatol 2012; 166:1314-8. [PMID: 22309448 DOI: 10.1111/j.1365-2133.2012.10877.x] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Abstract
BACKGROUND The aetiology of female pattern hair loss (FPHL) is largely unknown. However, it is hypothesized that FPHL and male pattern baldness (AGA) share common susceptibility alleles. The two major susceptibility loci for AGA are the androgen receptor (AR)/ectodysplasin A2 receptor (EDA2R) locus on the X-chromosome, and a locus on chromosome 20p11, for which no candidate gene has yet been identified. OBJECTIVES To examine the role of the AR/EDA2R and 20p11 loci in the development of FPHL using 145 U.K. and 85 German patients with FPHL, 179 U.K. supercontrols and 150 German blood donors. METHODS Patients and controls were genotyped for 25 single nucleotide polymorphisms (SNPs) at the AR/EDA2R locus and five SNPs at the 20p11 locus. RESULTS Analysis of the AR/EDA2R locus revealed no significant association in the German sample. However, a nominally significant association for a single SNP (rs1397631) was found in the U.K. sample. Subgroup analysis of the U.K. patients revealed significant association for seven markers in patients with an early onset (P = 0·047 after adjustment for the testing of multiple SNPs by Monte Carlo simulation). No significant association was obtained for the five 20p11 variants, either in the overall samples or in the analysis of subgroups. CONCLUSIONS The observed association suggests that the AR/EDA2R locus confers susceptibility to early-onset FHPL. Our results do not implicate the 20p11 locus in the aetiology of FPHL.
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Affiliation(s)
- S Redler
- Institute of Human Genetics, University of Bonn, Sigmund-Freud-Str. 25, D-53127 Bonn, Germany
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