A population-based study of autosomal-recessive disease-causing mutations in a founder population.

The decreasing cost of whole-genome and whole-exome sequencing has resulted in a renaissance for identifying Mendelian disease mutations, and for the first time it is possible to survey the distribution and characteristics of these mutations in large population samples. We conducted carrier screening for all autosomal-recessive (AR) mutations known to be present in members of a founder population and revealed surprisingly high carrier frequencies for many of these mutations. By utilizing the rich demographic, genetic, and phenotypic data available on these subjects and simulations in the exact pedigree that these individuals belong to, we show that the majority of mutations were most likely introduced into the population by a single founder and then drifted to the high carrier frequencies observed. We further show that although there is an increased incidence of AR diseases overall, the mean carrier burden is likely to be lower in the Hutterites than in the general population. Finally, on the basis of simulations, we predict the presence of 30 or more undiscovered recessive mutations among these subjects, and this would at least double the number of AR diseases that have been reported in this isolated population.

[1]  C. Greenberg,et al.  Limb-girdle muscular dystrophy type 2H associated with mutation in TRIM32, a putative E3-ubiquitin-ligase gene. , 2002, American journal of human genetics.

[2]  V. McKusick,et al.  Controversy in human genetics: founder effect in Tay-Sachs disease. , 1972, American journal of human genetics.

[3]  F. Bernier,et al.  Mutation of DNAJC19, a human homologue of yeast inner mitochondrial membrane co-chaperones, causes DCMA syndrome, a novel autosomal recessive Barth syndrome-like condition , 2005, Journal of Medical Genetics.

[4]  K. Entian,et al.  Mutation of a gene essential for ribosome biogenesis, EMG1, causes Bowen-Conradi syndrome. , 2009, American journal of human genetics.

[5]  Weimin Sun,et al.  Cystic fibrosis testing 8 years on: Lessons learned from carrier screening and sequencing analysis , 2011, Genetics in Medicine.

[6]  Colin A. Johnson,et al.  TMEM237 is mutated in individuals with a Joubert syndrome related disorder and expands the role of the TMEM family at the ciliary transition zone. , 2011, American journal of human genetics.

[7]  N. Risch,et al.  Geographic distribution of disease mutations in the Ashkenazi Jewish population supports genetic drift over selection. , 2003, American journal of human genetics.

[8]  R. Hegele,et al.  Phenotypic heterogeneity of sitosterolemia Published, JLR Papers in Press, September 16, 2004. DOI 10.1194/jlr.M400310-JLR200 , 2004, Journal of Lipid Research.

[9]  T. Scholl,et al.  Differences in SMN1 allele frequencies among ethnic groups within North America , 2009, Journal of Medical Genetics.

[10]  Jessica X Chong,et al.  Accurate Imputation of Rare and Common Variants in a Founder Population From a Small Number of Sequenced Individuals , 2012, Genetic epidemiology.

[11]  Ying Sun,et al.  Effect of variation in CHI3L1 on serum YKL-40 level, risk of asthma, and lung function. , 2008, The New England journal of medicine.

[12]  J. Crow,et al.  THE MUTATION LOAD IN SMALL POPULATIONS. , 1963, Genetics.

[13]  M. Muenke,et al.  Genetics of population isolates , 2002, Clinical genetics.

[14]  C. Ober,et al.  Variation in the HLA-G promoter region influences miscarriage rates. , 2003, American journal of human genetics.

[15]  V. Sheffield,et al.  Use of isolated inbred human populations for identification of disease genes. , 1998, Trends in genetics : TIG.

[16]  S. Schwartz,et al.  Mutations in the novel protocadherin PCDH15 cause Usher syndrome type 1F. , 2001, Human molecular genetics.

[17]  A. Martin The founder effect in a human isolate: evolutionary implications. , 1970, American journal of physical anthropology.

[18]  M. McPeek,et al.  Quantitative-trait homozygosity and association mapping and empirical genomewide significance in large, complex pedigrees: fasting serum-insulin level in the Hutterites. , 2002, American journal of human genetics.

[19]  C. Sabatti,et al.  Dissecting a population genome for targeted screening of disease mutations. , 2001, Human molecular genetics.

[20]  N. Morton,et al.  AN ESTIMATE OF THE MUTATIONAL DAMAGE IN MAN FROM DATA ON CONSANGUINEOUS MARRIAGES. , 1956, Proceedings of the National Academy of Sciences of the United States of America.

[21]  C. Ober,et al.  Studies of cystic fibrosis in Hutterite families by using linked DNA probes. , 1987, American journal of human genetics.

[22]  R. Myerowitz,et al.  The major defect in Ashkenazi Jews with Tay-Sachs disease is an insertion in the gene for the alpha-chain of beta-hexosaminidase. , 1988, The Journal of biological chemistry.

[23]  Alan R. Shuldiner,et al.  The CFTR Met 470 Allele Is Associated with Lower Birth Rates in Fertile Men from a Population Isolate , 2010, PLoS genetics.

[24]  P. Pramstaller,et al.  Drawing the history of the Hutterite population on a genetic landscape: inference from Y-chromosome and mtDNA genotypes , 2010, European Journal of Human Genetics.

[25]  K. Klinger,et al.  Identification of the M1101K mutation in the cystic fibrosis transmembrane conductance regulator (CFTR) gene and complete detection of cystic fibrosis mutations in the Hutterite population. , 1993, American journal of human genetics.

[26]  Ryan W. Kim,et al.  Carrier Testing for Severe Childhood Recessive Diseases by Next-Generation Sequencing , 2011, Science Translational Medicine.

[27]  Christer Holmberg,et al.  Mutations of the Down–regulated in adenoma (DRA) gene cause congenital chloride diarrhoea , 1996, Nature Genetics.

[28]  N. Morton The mutational load due to detrimental genes in man. , 1960, American journal of human genetics.

[29]  C. Ober,et al.  A shared founder mutation underlies restrictive dermopathy in Old Colony (Dutch‐German) Mennonite and Hutterite patients in North America , 2012, American journal of medical genetics. Part A.

[30]  Mary Sara McPeek,et al.  Testing for Hardy-weinberg Equilibium in Samples with Related Individuals Testing for Hardy-weinberg Equilibrium in Samples with Related Individuals , 2022 .

[31]  S. Magina,et al.  Restrictive dermopathy—a lethal congenital laminopathy. Case report and review of the literature , 2009, European Journal of Pediatrics.

[32]  E. Lander,et al.  ARSACS, a spastic ataxia common in northeastern Québec, is caused by mutations in a new gene encoding an 11.5-kb ORF , 2000, Nature Genetics.

[33]  M. Polymeropoulos,et al.  Mutations in a new gene in Ellis-van Creveld syndrome and Weyers acrodental dysostosis , 2000, Nature Genetics.

[34]  M S McPeek,et al.  The genetic dissection of complex traits in a founder population. , 2001, American journal of human genetics.

[35]  E. Heyer One Founder/One Gene Hypothesis in a New Expanding Population: Saguenay (Quebec, Canada) , 2009, Human biology.

[36]  R. Hegele,et al.  Image in cardiovascular medicine. Aortic xanthomatosis with coronary ostial occlusion in a child homozygous for a nonsense mutation in ABCG8. , 2003, Circulation.

[37]  K. Boycott,et al.  Clinical genetics and the Hutterite population: A review of Mendelian disorders , 2008, American journal of medical genetics. Part A.

[38]  L. Peltonen Molecular background of the Finnish disease heritage. , 1997, Annals of medicine.

[39]  E. Puffenberger,et al.  A founder mutation in BBS2 is responsible for Bardet‐Biedl syndrome in the Hutterite population: utility of SNP arrays in genetically heterogeneous disorders , 2010, Clinical genetics.

[40]  K. Bushby,et al.  The most common mutation in FKRP causing limb girdle muscular dystrophy type 2I (LGMD2I) may have occurred only once and is present in Hutterites and other populations , 2005, Human mutation.

[41]  L. Cavalli-Sforza,et al.  Ethnic variation of genetic disease: roles of drift for recessive lethal genes. , 1978, American journal of human genetics.

[42]  H. Muller,et al.  Our load of mutations. , 1950, American journal of human genetics.

[43]  Mckusick Va Genetic studies in American inbred populations with particular reference to the Old Order Amish. , 1973 .

[44]  C. Ober,et al.  A common spinal muscular atrophy deletion mutation is present on a single founder haplotype in the US Hutterites , 2011, European Journal of Human Genetics.

[45]  Lawrence H. Uricchio,et al.  Exome sequencing reveals a novel mutation for autosomal recessive non-syndromic mental retardation in the TECR gene on chromosome 19p13. , 2011, Human molecular genetics.

[46]  Y. Friedlander,et al.  Recent origin and spread of a common Lithuanian mutation, G197del LDLR, causing familial hypercholesterolemia: positive selection is not always necessary to account for disease incidence among Ashkenazi Jews. , 2001, American journal of human genetics.

[47]  T. Dörk,et al.  Detection of 100% of the CFTR mutations in 63 CF families from Tyrol , 1997, Clinical Genetics.

[48]  M. McPeek,et al.  Broad and narrow heritabilities of quantitative traits in a founder population. , 2001, American journal of human genetics.

[49]  J R O'Connell,et al.  PedCheck: a program for identification of genotype incompatibilities in linkage analysis. , 1998, American journal of human genetics.

[50]  M. Abney,et al.  Heritability of reproductive fitness traits in a human population , 2010, Proceedings of the National Academy of Sciences.

[51]  Xiang Zhou,et al.  The combination of a genome-wide association study of lymphocyte count and analysis of gene expression data reveals novel asthma candidate genes , 2012, Human molecular genetics.

[52]  A. Kenneson,et al.  GJB2 (connexin 26) variants and nonsyndromic sensorineural hearing loss: A HuGE review , 2002, Genetics in Medicine.

[53]  Hanns Lochmüller,et al.  Commonality of TRIM32 mutation in causing sarcotubular myopathy and LGMD2H , 2005, Annals of neurology.