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The Genetics of Autism Spectrum Disorders – A Guide for Clinicians

  • Genetic Disorders (JF Cubells and EB Binder, Section Editors)
  • Published:
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Abstract

Recent advances in genetic testing technology have made chromosome microarray analysis (CMA) a first-tier clinical diagnostic test for Autism Spectrum Disorders (ASDs). Two main types of microarrays are available, single nucleotide polymorphism (SNP) arrays and array comparative genomic hybridization (aCGH), each with its own advantages and disadvantages in ASDs testing. Rare genetic variants, and copy number variants (CNVs) in particular, have been shown to play a major role in ASDs. More than 200 autism susceptibility genes have been identified to date, and complex patterns of inheritance, such as oligogenic heterozygosity, appear to contribute to the etiopathogenesis of ASDs. Incomplete penetrance and variable expressivity represent particular challenges in the interpretation of CMA testing of autistic individuals. This review aims to provide an overview of autism genetics for the practicing physician and gives hands-on advice on how to follow-up on abnormal CMA findings in individuals with neuropsychiatric disorders.

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References

Papers of particular interest, published recently, have been highlighted as: • Of importance •• Of major importance

  1. Smalley SL, Asarnow RF, Spence MA. Autism and genetics. Arch Gen Psychiatry. 1988;45:953–61.

    Article  PubMed  CAS  Google Scholar 

  2. • Miller DT, Adam MP, Aradhya S, et al. Consensus statement: chromosomal microarray is a first-tier clinical diagnostic test for individuals with developmental disabilities or congenital anomalies. Am J Hum Genet. 2010;86(5):749–64. A meta-analysis of chromosome microarray testing in individuals with intellectual disability, congenital anomalies, and autism spectrum disorders.

    Article  PubMed  CAS  Google Scholar 

  3. El-Fishawy P, State MW. The genetics of autism: key issues, recent findings, and clinical implications. Psychiatr Clin North Am. 2010;33(1):83–105.

    Article  PubMed  Google Scholar 

  4. Bassett AS, McDonald-McGinn DM, Devriendt K, et al. Practical guidelines for managing patients with 22q11.2 deletion syndrome. J Pediatr. 2011;159(2):332–9.

    Article  PubMed  Google Scholar 

  5. Bayani J, Squire JA. Traditional banding of chromosomes for cytogenetic analysis. Curr Protoc Cell Biol. 2004. Chapter 22:Unit 22.3.

  6. Schaaf CP, Wisznewska J, Beaudet AL. Copy Number and SNP arrays in clinical diagnostics. Annu Rev Genomics Hum Genet. 2011;12:25–51.

    Article  PubMed  CAS  Google Scholar 

  7. National Center for Biotechnology Information (NCBI): NCBI dbSNP build 137 for Human. Available at http://www.ncbi.nlm.nih.gov/mailman/pipermail/dbsnp-announce/2012q2/000123.html. Accessed July 2012.

  8. National Center for Biotechnology Information (NCBI): Human genome assembly information for GRCh37.p9. Available at http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/human/data/index.shtml. Accessed July 2012.

  9. Lubitz RJ, Komaromy M, Crawford B, et al. Development and pilot evaluation of novel genetic educational materials designed for an underserved patient population. Genet Test. 2007;11(3):276–90.

    Article  PubMed  Google Scholar 

  10. Schaaf CP, Scott DA, Wiszniewska J, Beaudet AL. Identification of incestuous parental relationships by SNP-based DNA microarrays. Lancet. 2011;377(9765):555–6.

    Article  PubMed  CAS  Google Scholar 

  11. Santangelo AM, de Souza FS, Franchini LF, et al. Ancient exaptation of a CORE-SINE retroposon into a highly conserved mammalian neuronal enhancer of the proopiomelanocortin gene. PloS Genet. 2007;3(10):1813–26.

    Article  PubMed  CAS  Google Scholar 

  12. McClellan J, King MC. Genetic heterogeneity in human disease. Cell. 2010;141:210–7.

    Article  PubMed  CAS  Google Scholar 

  13. Klein RJ, Xu X, Mukherjee S, et al. Successes of genome-wide association studies. Cell. 2010;142:350–1. author reply 353-5.

    Article  PubMed  CAS  Google Scholar 

  14. • Miles JH. Autism spectrum disorders – a genetics review. Genet Med. 2011;13(4):278–94. An excellent, up-to-date review on autism genetics.

    Article  PubMed  Google Scholar 

  15. Jacquemont ML, Sanlaville D, Redon R, et al. Array-based comparative genomic hybridisation identifies high frequency of cryptic chromosomal rearrangements in patients with syndromic autism spectrum disorders. J Med Genet. 2006;43:843–9.

    Article  PubMed  CAS  Google Scholar 

  16. Sebat J, Lakshmi B, Malhotra D, et al. Strong association of de novo copy number mutations with autism. Science. 2007;316:445–9.

    Article  PubMed  CAS  Google Scholar 

  17. Marshall CR, Noor A, Vincent JB, et al. Structural variation of chromosomes in autism spectrum disorder. Am J Hum Genet. 2008;82:477–88.

    Article  PubMed  CAS  Google Scholar 

  18. Glessner JT, Wang K, Cai G, et al. Autism genome-wide copy number variation reveals ubiquitin and neuronal genes. Nature. 2009;459:569–73.

    Article  PubMed  CAS  Google Scholar 

  19. Shen Y, Dies KA, Holm IA, et al. Clinical genetic testing for patients with autism spectrum disorders. Pediatrics. 2010;125(4):e727–35.

    Article  PubMed  Google Scholar 

  20. Sanders SJ, Ercan-Sencicek AG, Hus V, et al. Multiple recurrent de novo CNVs, including duplications of the 7q11.23 Williams syndrome region, are strongly associated with autism. Neuron. 2011;70(5):863–85.

    Article  PubMed  CAS  Google Scholar 

  21. Levy D, Ronemus M, Yamrom B, et al. Rare de novo and transmitted copy-number variation in autistic spectrum disorders. Neuron. 2011;70(5):886–97.

    Article  PubMed  CAS  Google Scholar 

  22. Welberg L. Autism: The importance of getting the dose right. Nat Rev Neurosci. 2011;12(8):429.

    Article  PubMed  CAS  Google Scholar 

  23. Schaaf CP, Sabo A, Sakai Y. Oligogenic heterozygosity in individuals with high-functioning autism spectrum disorders. Hum Mol Genet. 2011;20(17):3366–75.

    Article  PubMed  CAS  Google Scholar 

  24. Leblond CS, Heinrich J, Delorme R. Genetic and functional analyses of SHANK2 mutations suggest a multiple hit model of autism spectrum disorders. PLoS Genet. 2012;8(2):e1002521.

    Article  PubMed  CAS  Google Scholar 

  25. Girirajan S, Rosenfeld JA, Cooper GM, et al. A recurrent 16p12.1 microdeletion supports a two-hit model for severe developmental delay. Nat Genet. 2010;42(3):203–9.

    Article  PubMed  CAS  Google Scholar 

  26. Sebat J, Levy DL, McCarthy SE. Rare structural variants in schizophrenia: one disorder, multiple mutations; one mutation, multiple disorders. Trends Genet. 2009;25(12):528–35.

    Article  PubMed  CAS  Google Scholar 

  27. Sullivan PF, Magnusson C, Reichenberg A, et al. Family history of schizophrenia and bipolar disorder as risk factors for autism. Arch Gen Psychiatry. 2012;2:1–5.

    Google Scholar 

  28. • Malhotra D, Sebat J. CNVs: harbingers of a rare variant revolution in psychiatric genetics. Cell. 2012;148(6):1223–41. An excellent review on the role of genetics in the etiopathogenesis of neuropsychiatric disorders.

    Article  PubMed  CAS  Google Scholar 

  29. •• Gilman SR, Iossifov I, Levy D, et al. Rare de novo variants associated with autism implicate a large functional network of genes involved in formation and function of synapses. Neuron. 2011;70(5):898–907. A bioinformatics approach to the complex landscape of autism genetics.

    Article  PubMed  CAS  Google Scholar 

  30. Pinto D, Pagnamenta AT, Klei L, et al. Functional impact of global rare copy number variation in autism spectrum disorders. Nature. 2010;466(7304):368–72.

    Article  PubMed  CAS  Google Scholar 

  31. Bourgeron T. A synaptic trek to autism. Curr Opin Neurobiol. 2009;19(2):231–4.

    Article  PubMed  CAS  Google Scholar 

  32. Zoghbi HY. Postnatal neurodevelopmental disorders: meeting at the synapse? Science. 2003;302(5646):826–30.

    Article  PubMed  CAS  Google Scholar 

  33. Feng J, Schroer R, Yan J, et al. High frequency of neurexin 1beta signal peptide structural variants in patients with autism. Neurosci Lett. 2006;409(1):10–3.

    Article  PubMed  CAS  Google Scholar 

  34. Gauthier J, Siddiqui TJ, Huashan P, et al. Truncating mutations in NRXN2 and NRXN1 in autism spectrum disorders and schizophrenia. Hum Genet. 2011;130(4):563–73.

    Article  PubMed  CAS  Google Scholar 

  35. Vaags AK, Lionel AC, Sato D, et al. Rare deletions at the neurexin 3 locus in autism spectrum disorder. Am J Hum Genet. 2012;90(1):133–41.

    Article  PubMed  CAS  Google Scholar 

  36. Jamain S, Quach H, Betancur C, et al. Mutations of the X-linked genes encoding neuroligins NLGN3 and NLGN4 are associated with autism. Nat Genet. 2003;34(1):27–9.

    Article  PubMed  CAS  Google Scholar 

  37. Ylisaukko-oja T, Rehnström K, Auranen M, et al. Analysis of four neuroligin genes as candidates for autism. Eur J Hum Genet. 2005;13(12):1285–92.

    Article  PubMed  CAS  Google Scholar 

  38. Sato D, Lionel AC, Leblond CS, et al. SHANK1 Deletions in Males with Autism Spectrum Disorder. Am J Hum Genet. 2012;90(5):879–87.

    Article  PubMed  CAS  Google Scholar 

  39. Berkel S, Marshall CR, Weiss B, et al. Mutations in the SHANK2 synaptic scaffolding gene in autism spectrum disorder and mental retardation. Nat Genet. 2010;42(6):489–91.

    Article  PubMed  CAS  Google Scholar 

  40. Durand CM, Betancur C, Boeckers TM, et al. Mutations in the gene encoding the synaptic scaffolding protein SHANK3 are associated with autism spectrum disorders. Nat Genet. 2007;39(1):25–7.

    Article  PubMed  CAS  Google Scholar 

  41. Wang X, McCoy PA, Rodriguiz RM, et al. Synaptic dysfunction and abnormal behaviors in mice lacking major isoforms of Shank3. Hum Mol Genet. 2011;20(15):3093–108.

    Article  PubMed  CAS  Google Scholar 

  42. Chao HT, Zoghbi HY, Rosenmund C. MeCP2 controls excitatory synaptic strength by regulating glutamatergic synapse number. Neuron. 2007;56(1):58–65.

    Article  PubMed  CAS  Google Scholar 

  43. •• Guy J, Gan J, Selfridge J, et al. Reversal of neurological defects in a mouse model of Rett syndrome. Science. 2007;315(5815):1143–7. A proof-of-concept study that postnatal neurological disorders may be rescuable.

  44. Dölen G, Osterweil E, Rao BS, et al. Correction of fragile X syndrome in mice. Neuron. 2007;56(6):955–62.

    Article  PubMed  Google Scholar 

  45. Foo JN, Liu JJ, Tan EK. Whole-genome and whole-exome sequencing in neurological diseases. Nat Rev Neurol. 2012 Jul 31.

  46. Lyon GJ, Wang K. Identifying disease mutations in genomic medicine settings: current challenges and how to accelerate progress. Genome Med. 2012;4(7):58.

    Article  PubMed  Google Scholar 

  47. Majewski J, Rosenblatt DS. Exome and whole-genome sequencing for gene discovery: the future is now! Hum Mutat. 2012;33(4):591–2.

    Article  PubMed  Google Scholar 

  48. Bucan M, Abrahams BS, Wang K, et al. Genome-wide analyses of exonic copy number variants in a family-based study point to novel autism susceptibility genes. PLoS Genet. 2009;5(6):e1000536.

    Article  PubMed  Google Scholar 

  49. Brunetti-Pierri N, Berg JS, Scaglia F, et al. Recurrent reciprocal 1q21.1 deletions and duplications associated with microcephaly or macrocephaly and developmental and behavioral abnormalities. Nat Genet. 2008;40(12):1466–71.

    Article  PubMed  CAS  Google Scholar 

  50. Schaaf CP, Boone PM, Sampath S et al. Phenotypic spectrum and genotype-phenotype correlations of NRXN1 exon deletions. Eur J Hum Genet. 2012 May 23.

  51. Willatt L, Cox J, Barber J, et al. 3q29 microdeletion syndrome: clinical and molecular characterization of a new syndrome. Am J Hum Genet. 2005;77(1):154–60.

    Article  PubMed  CAS  Google Scholar 

  52. Mervis CB, Dida J, Lam E, et al. Duplication of GTF2I results in separation anxiety in mice and humans. Am J Hum Genet. 2012;90(6):1064–70.

    Article  PubMed  CAS  Google Scholar 

  53. Shinawi M, Liu P, Kang SH, et al. Recurrent reciprocal 16p11.2 rearrangements associated with global developmental delay, behavioral problems, dysmorphism, epilepsy, and abnormal head size. J Med Genet. 2010;47(5):332–41.

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

Dr. Schaaf ’s work is generously supported by the Joan and Stanford Alexander family and the Ting Tsung and Wei Fong Chao Foundation. Dr. Schaaf is the recipient of a Doris Duke Clinical Scientist Development Award.

Disclosure

K.M. Heil: none; C.P. Schaaf is a faculty member of the Department of Molecular and Human Genetics at Baylor College of Medicine, which derives revenue from chromosomal microarray analysis and whole exome sequencing offered in the Medical Genetics Laboratory.

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Correspondence to Christian P. Schaaf.

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This article is part of the Topical Collection on Genetic Disorders

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Heil, K.M., Schaaf, C.P. The Genetics of Autism Spectrum Disorders – A Guide for Clinicians. Curr Psychiatry Rep 15, 334 (2013). https://doi.org/10.1007/s11920-012-0334-3

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