Protein-altering and regulatory genetic variants near GATA4 implicated in bicuspid aortic valve

Bicuspid aortic valve (BAV) is a heritable congenital heart defect and an important risk factor for valvulopathy and aortopathy. Here we report a genome-wide association scan of 466 BAV cases and 4,660 age, sex and ethnicity-matched controls with replication in up to 1,326 cases and 8,103 controls. We identify association with a noncoding variant 151 kb from the gene encoding the cardiac-specific transcription factor, GATA4, and near-significance for p.Ser377Gly in GATA4. GATA4 was interrupted by CRISPR-Cas9 in induced pluripotent stem cells from healthy donors. The disruption of GATA4 significantly impaired the transition from endothelial cells into mesenchymal cells, a critical step in heart valve development.

[1]  C. Liew,et al.  Identification of a GATA motif in the cardiac alpha-myosin heavy-chain-encoding gene and isolation of a human GATA-4 cDNA. , 1995, Gene.

[2]  K Sigrist,et al.  GATA4 transcription factor is required for ventral morphogenesis and heart tube formation. , 1997, Genes & development.

[3]  E. Olson,et al.  Requirement of the transcription factor GATA4 for heart tube formation and ventral morphogenesis. , 1997, Genes & development.

[4]  S. Garrett,et al.  GATA4 haploinsufficiency in patients with interstitial deletion of chromosome region 8p23.1 and congenital heart disease. , 1999, American journal of medical genetics.

[5]  C. Ward Clinical significance of the bicuspid aortic valve , 2000, Heart.

[6]  A. Teebi,et al.  Inherited duplication, dup (8) (p23.1p23.1) pat, in a father and daughter with congenital heart defects. , 2001, American journal of medical genetics.

[7]  J. Hoffman,et al.  The incidence of congenital heart disease. , 2002, Journal of the American College of Cardiology.

[8]  Jonathan C. Cohen,et al.  GATA4 mutations cause human congenital heart defects and reveal an interaction with TBX5 , 2003, Nature.

[9]  W. Pu,et al.  GATA4 is a dosage-sensitive regulator of cardiac morphogenesis. , 2004, Developmental biology.

[10]  Robert H. Anderson,et al.  Lineage and Morphogenetic Analysis of the Cardiac Valves , 2004, Circulation research.

[11]  Lisa J. Martin,et al.  Bicuspid aortic valve is heritable. , 2004, Journal of the American College of Cardiology.

[12]  Katherine E Yutzey,et al.  Development of heart valve leaflets and supporting apparatus in chicken and mouse embryos , 2004, Developmental dynamics : an official publication of the American Association of Anatomists.

[13]  S. Atalay,et al.  The prevalence of bicuspid aortic valve in newborns by echocardiographic screening. , 2005, American heart journal.

[14]  M. Digilio,et al.  Spectrum of atrial septal defects associated with mutations of NKX2.5 and GATA4 transcription factors , 2005, Journal of Medical Genetics.

[15]  W. Roberts,et al.  Frequency by Decades of Unicuspid, Bicuspid, and Tricuspid Aortic Valves in Adults Having Isolated Aortic Valve Replacement for Aortic Stenosis, With or Without Associated Aortic Regurgitation , 2005, Circulation.

[16]  山田 佳代子,et al.  Phenotypes with GATA4 or NKX2.5 mutations in familial atrial septal defect , 2005 .

[17]  C. Tabin,et al.  Development of heart valves requires Gata4 expression in endothelial-derived cells , 2006, Development.

[18]  R. Hinton,et al.  Evidence in favor of linkage to human chromosomal regions 18q, 5q and 13q for bicuspid aortic valve and associated cardiovascular malformations , 2007, Human Genetics.

[19]  V. Garg,et al.  Molecular genetics of aortic valve disease , 2006, Current opinion in cardiology.

[20]  P. Donnelly,et al.  A new multipoint method for genome-wide association studies by imputation of genotypes , 2007, Nature Genetics.

[21]  C. Maslen,et al.  GATA4 sequence variants in patients with congenital heart disease , 2007, Journal of Medical Genetics.

[22]  Thoralf M Sundt,et al.  Evidence of genetic locus heterogeneity for familial bicuspid aortic valve. , 2007, The Journal of surgical research.

[23]  Manuel A. R. Ferreira,et al.  PLINK: a tool set for whole-genome association and population-based linkage analyses. , 2007, American journal of human genetics.

[24]  Xiaofeng Li,et al.  GATA4 mutations in 486 Chinese patients with congenital heart disease. , 2008, European journal of medical genetics.

[25]  J. Belmont,et al.  NOTCH1 mutations in individuals with left ventricular outflow tract malformations reduce ligand-induced signaling. , 2008, Human molecular genetics.

[26]  R. Dietz,et al.  Mutations in GATA4, NKX2.5, CRELD1, and BMP4 are infrequently found in patients with congenital cardiac septal defects , 2008, American journal of medical genetics. Part A.

[27]  M. Enriquez-Sarano,et al.  Natural History of Asymptomatic Patients With Normally Functioning or Minimally Dysfunctional Bicuspid Aortic Valve in the Community , 2008, Circulation.

[28]  P. Donnelly,et al.  A Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies , 2009, PLoS genetics.

[29]  S. Henikoff,et al.  Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm , 2009, Nature Protocols.

[30]  S. Siu,et al.  Bicuspid aortic valve disease. , 2010, Journal of the American College of Cardiology.

[31]  D. Housman,et al.  Application of Gene Network Analysis Techniques Identifies AXIN1/PDIA2 and Endoglin Haplotypes Associated with Bicuspid Aortic Valve , 2010, PloS one.

[32]  W. Edwards,et al.  Incidence of aortic complications in patients with bicuspid aortic valves. , 2011, JAMA.

[33]  W. Fang,et al.  A novel GATA4 mutation responsible for congenital ventricular septal defects. , 2011, International journal of molecular medicine.

[34]  G. Andelfinger,et al.  Loss of Gata5 in mice leads to bicuspid aortic valve. , 2011, The Journal of clinical investigation.

[35]  K. McElreavey,et al.  Loss-of-function mutation in GATA4 causes anomalies of human testicular development , 2011, Proceedings of the National Academy of Sciences.

[36]  M. Andreassi,et al.  Sequencing of NOTCH1, GATA5, TGFBR1 and TGFBR2 genes in familial cases of bicuspid aortic valve , 2013, BMC Medical Genetics.

[37]  C. Semsarian,et al.  Rare non-synonymous variations in the transcriptional activation domains of GATA5 in bicuspid aortic valve disease. , 2012, Journal of molecular and cellular cardiology.

[38]  R. Goodman,et al.  Bicuspid Aortic Valve Disease and Ascending Aortic Aneurysms: Gaps in Knowledge , 2012, Cardiology research and practice.

[39]  Data production leads,et al.  An integrated encyclopedia of DNA elements in the human genome , 2012 .

[40]  Raymond K. Auerbach,et al.  An Integrated Encyclopedia of DNA Elements in the Human Genome , 2012, Nature.

[41]  Bin Zhou,et al.  Partitioning the heart: mechanisms of cardiac septation and valve development , 2012, Development.

[42]  W. Fang,et al.  Novel GATA4 mutations in patients with congenital ventricular septal defects , 2010, Medical science monitor : international medical journal of experimental and clinical research.

[43]  Eurie L. Hong,et al.  Annotation of functional variation in personal genomes using RegulomeDB , 2012, Genome research.

[44]  O. Delaneau,et al.  A linear complexity phasing method for thousands of genomes , 2011, Nature Methods.

[45]  Martin Renqiang Min,et al.  An integrated encyclopedia of DNA elements in the human genome , 2012 .

[46]  Manolis Kellis,et al.  ChromHMM: automating chromatin-state discovery and characterization , 2012, Nature Methods.

[47]  Manolis Kellis,et al.  HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants , 2011, Nucleic Acids Res..

[48]  Jiao Jiao,et al.  Promoting Reprogramming by FGF2 Reveals that the Extracellular Matrix Is a Barrier for Reprogramming Fibroblasts to Pluripotency , 2013, Stem cells.

[49]  Salvatore Pasta,et al.  Difference in hemodynamic and wall stress of ascending thoracic aortic aneurysms with bicuspid and tricuspid aortic valve. , 2013, Journal of biomechanics.

[50]  Jiao Jiao,et al.  Modeling Dravet syndrome using induced pluripotent stem cells (iPSCs) and directly converted neurons. , 2013, Human molecular genetics.

[51]  Lei Xu,et al.  GATA4 Loss‐of‐Function Mutations Underlie Familial Tetralogy of Fallot , 2013, Human mutation.

[52]  David A. Scott,et al.  Genome engineering using the CRISPR-Cas9 system , 2013, Nature Protocols.

[53]  D. Gridley,et al.  Efficient Generation of Integration-Free iPS Cells from Human Adult Peripheral Blood Using BCL-XL Together with Yamanaka Factors , 2013, PloS one.

[54]  I. Adzhubei,et al.  Predicting Functional Effect of Human Missense Mutations Using PolyPhen‐2 , 2013, Current protocols in human genetics.

[55]  S. Heath,et al.  Genome-wide association study identifies loci on 12q24 and 13q32 associated with Tetralogy of Fallot , 2013, Human molecular genetics.

[56]  Ellen T. Gelfand,et al.  The Genotype-Tissue Expression (GTEx) project , 2013, Nature Genetics.

[57]  Xing-yuan Liu,et al.  Mutation spectrum of GATA4 associated with congenital atrial septal defects , 2013, Archives of medical science : AMS.

[58]  Shuhua Xu,et al.  Identification of Functional Mutations in GATA4 in Patients with Congenital Heart Disease , 2013, PloS one.

[59]  Jason Piper,et al.  Wellington: a novel method for the accurate identification of digital genomic footprints from DNase-seq data , 2013, Nucleic acids research.

[60]  K. McBride,et al.  Rare GATA5 sequence variants identified in individuals with bicuspid aortic valve , 2014, Pediatric Research.

[61]  K. Yutzey,et al.  Conserved transcriptional regulatory mechanisms in aortic valve development and disease. , 2014, Arteriosclerosis, thrombosis, and vascular biology.

[62]  J. Shendure,et al.  A general framework for estimating the relative pathogenicity of human genetic variants , 2014, Nature Genetics.

[63]  Neva C. Durand,et al.  A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping , 2014, Cell.

[64]  Kari Stefansson,et al.  Rare mutations associating with serum creatinine and chronic kidney disease. , 2014, Human molecular genetics.

[65]  K. S. Murthy,et al.  c.620C>T mutation in GATA4 is associated with congenital heart disease in South India , 2015, BMC Medical Genetics.

[66]  Gabor T. Marth,et al.  A global reference for human genetic variation , 2015, Nature.

[67]  Gonçalo R. Abecasis,et al.  Minimac2: Faster Genotype Imputation , 2015, Bioinform..

[68]  Michael P. Snyder,et al.  Mango: a bias-correcting ChIA-PET analysis pipeline , 2015, Bioinform..

[69]  James Y. Zou Analysis of protein-coding genetic variation in 60,706 humans , 2015, Nature.

[70]  Beth L. Pruitt,et al.  Disease Model of GATA4 Mutation Reveals Transcription Factor Cooperativity in Human Cardiogenesis , 2016, Cell.

[71]  Alan M. Kwong,et al.  A reference panel of 64,976 haplotypes for genotype imputation , 2015, Nature Genetics.

[72]  Peter White,et al.  Utilization of Whole Exome Sequencing to Identify Causative Mutations in Familial Congenital Heart Disease , 2016, Circulation. Cardiovascular genetics.