Structural variants in genes associated with human Williams-Beuren syndrome underlie stereotypical hypersociability in domestic dogs

We hypothesize that selection during dog domestication targeted CNVs associated with hypersociability. Although considerable progress has been made in understanding the genetic basis of morphologic traits (for example, body size and coat color) in dogs and wolves, the genetic basis of their behavioral divergence is poorly understood. An integrative approach using both behavioral and genetic data is required to understand the molecular underpinnings of the various behavioral characteristics associated with domestication. We analyze a 5-Mb genomic region on chromosome 6 previously found to be under positive selection in domestic dog breeds. Deletion of this region in humans is linked to Williams-Beuren syndrome (WBS), a multisystem congenital disorder characterized by hypersocial behavior. We associate quantitative data on behavioral phenotypes symptomatic of WBS in humans with structural changes in the WBS locus in dogs. We find that hypersociability, a central feature of WBS, is also a core element of domestication that distinguishes dogs from wolves. We provide evidence that structural variants in GTF2I and GTF2IRD1, genes previously implicated in the behavioral phenotype of patients with WBS and contained within the WBS locus, contribute to extreme sociability in dogs. This finding suggests that there are commonalities in the genetic architecture of WBS and canine tameness and that directional selection may have targeted a unique set of linked behavioral genes of large phenotypic effect, allowing for rapid behavioral divergence of dogs and wolves, facilitating coexistence with humans.

[1]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .

[2]  Á. Miklósi,et al.  Oxytocin Receptor Gene Polymorphisms Are Associated with Human Directed Social Behavior in Dogs (Canis familiaris) , 2014, PloS one.

[3]  Pardis C Sabeti,et al.  Genome-wide detection and characterization of positive selection in human populations , 2007, Nature.

[4]  Jing Wang,et al.  WEB-based GEne SeT AnaLysis Toolkit (WebGestalt): update 2013 , 2013, Nucleic Acids Res..

[5]  Andreas Meyer-Lindenberg,et al.  Neural mechanisms in Williams syndrome: a unique window to genetic influences on cognition and behaviour , 2006, Nature Reviews Neuroscience.

[6]  Tom H. Pringle,et al.  The human genome browser at UCSC. , 2002, Genome research.

[7]  R. Adolphs,et al.  II. Hypersociability in Williams Syndrome , 2000, Journal of Cognitive Neuroscience.

[8]  Philip Lijnzaad,et al.  The Ensembl genome database project , 2002, Nucleic Acids Res..

[9]  J. Serpell,et al.  Effects of breed, sex, and neuter status on trainability in dogs , 2005 .

[10]  M. McHugh Interrater reliability: the kappa statistic , 2012, Biochemia medica.

[11]  Daniel Rios,et al.  Bioinformatics Applications Note Databases and Ontologies Deriving the Consequences of Genomic Variants with the Ensembl Api and Snp Effect Predictor , 2022 .

[12]  C. Wynne,et al.  The performance of stray dogs (Canis familiaris) living in a shelter on human-guided object-choice tasks , 2010, Animal Behaviour.

[13]  M. Bayés,et al.  Mutational mechanisms of Williams-Beuren syndrome deletions. , 2003, American journal of human genetics.

[14]  M. Johnsson,et al.  Human‐directed social behaviour in dogs shows significant heritability , 2015, Genes, brain, and behavior.

[15]  K. Svartberg,et al.  Breed-typical behaviour in dogs—Historical remnants or recent constructs? , 2006 .

[16]  Bing Zhang,et al.  WebGestalt: an integrated system for exploring gene sets in various biological contexts , 2005, Nucleic Acids Res..

[17]  H. Frank,et al.  ON THE EFFECTS OF DOMESTICATION ON CANINE SOCIAL DEVELOPMENT AND BEHAVIOR , 1982 .

[18]  Peter Kraft,et al.  Maximizing the power of principal-component analysis of correlated phenotypes in genome-wide association studies. , 2014, American journal of human genetics.

[19]  K. Lindblad-Toh,et al.  The genomic signature of dog domestication reveals adaptation to a starch-rich diet , 2013, Nature.

[20]  R. Wilson,et al.  BreakDancer: An algorithm for high resolution mapping of genomic structural variation , 2009, Nature Methods.

[21]  E. H. Margulies,et al.  An Expressed Fgf4 Retrogene Is Associated with Breed-Defining Chondrodysplasia in Domestic Dogs , 2009, Science.

[22]  M. Digilio,et al.  Smaller and larger deletions of the Williams Beuren syndrome region implicate genes involved in mild facial phenotype, epilepsy and autistic traits , 2013, European Journal of Human Genetics.

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

[24]  A. Magi,et al.  Detection of Genomic Structural Variants from Next-Generation Sequencing Data , 2015, Front. Bioeng. Biotechnol..

[25]  J. Buxbaum,et al.  Haploinsufficiency of Gtf2i, a gene deleted in Williams Syndrome, leads to increases in social interactions , 2011, Autism research : official journal of the International Society for Autism Research.

[26]  L. Rieseberg,et al.  Association Mapping and the Genomic Consequences of Selection in Sunflower , 2013, PLoS genetics.

[27]  Lisa J. Martin,et al.  The effect of minor allele frequency on the likelihood of obtaining false positives , 2009, BMC Proceedings.

[28]  Á. Miklósi,et al.  Comparative social cognition: what can dogs teach us? , 2004, Animal Behaviour.

[29]  C. Wynne,et al.  Wolves outperform dogs in following human social cues , 2008, Animal Behaviour.

[30]  J. Serpell,et al.  Dog Breeds and Their Behavior , 2014 .

[31]  Natalie,et al.  Genetic Structure of the Purebred Domestic Dog , 2004 .

[32]  P. Schofield,et al.  A Role for Transcription Factor GTF2IRD2 in Executive Function in Williams-Beuren Syndrome , 2012, PloS one.

[33]  E. Ostrander,et al.  Single-Nucleotide-Polymorphism-Based Association Mapping of Dog Stereotypes , 2008, Genetics.

[34]  F. Ruddle,et al.  Identification of the TFII-I family target genes in the vertebrate genome , 2008, Proceedings of the National Academy of Sciences.

[35]  J. Serpell,et al.  Breed differences in canine aggression , 2008 .

[36]  Gonçalo R. Abecasis,et al.  The Sequence Alignment/Map format and SAMtools , 2009, Bioinform..

[37]  Thomas M. Keane,et al.  Enhanced structural variant and breakpoint detection using SVMerge by integration of multiple detection methods and local assembly , 2010, Genome Biology.

[38]  Marcel Martin Cutadapt removes adapter sequences from high-throughput sequencing reads , 2011 .

[39]  B. Faircloth,et al.  Primer3—new capabilities and interfaces , 2012, Nucleic acids research.

[40]  Emmanuel Mignot,et al.  The Sleep Disorder Canine Narcolepsy Is Caused by a Mutation in the Hypocretin (Orexin) Receptor 2 Gene , 1999, Cell.

[41]  Eden R Martin,et al.  A multiple testing correction method for genetic association studies using correlated single nucleotide polymorphisms , 2008, Genetic epidemiology.

[42]  Peter Hammond,et al.  GTF2IRD1 in Craniofacial Development of Humans and Mice , 2005, Science.

[43]  Edward J Hollox,et al.  The challenges of studying complex and dynamic regions of the human genome. , 2012, Methods in molecular biology.

[44]  Anders Albrechtsen,et al.  ANGSD: Analysis of Next Generation Sequencing Data , 2014, BMC Bioinformatics.

[45]  K. Lindblad-Toh,et al.  Identification of Genomic Regions Associated with Phenotypic Variation between Dog Breeds using Selection Mapping , 2011, PLoS genetics.

[46]  Charlotte N. Henrichsen,et al.  Side effects of genome structural changes. , 2007, Current opinion in genetics & development.

[47]  Alessandro Vullo,et al.  Ensembl 2015 , 2014, Nucleic Acids Res..

[48]  C. Wynne,et al.  What did domestication do to dogs? A new account of dogs' sensitivity to human actions , 2010, Biological reviews of the Cambridge Philosophical Society.

[49]  L. Trut,et al.  Animal evolution during domestication: the domesticated fox as a model , 2009, BioEssays : news and reviews in molecular, cellular and developmental biology.

[50]  Miss A.O. Penney (b) , 1974, The New Yale Book of Quotations.

[51]  L. Kruglyak,et al.  Genetic Structure of the Purebred Domestic Dog , 2004, Science.

[52]  Ursula Bellugi,et al.  “Everybody in the world is my friend” hypersociability in young children with Williams syndrome , 2004, American journal of medical genetics. Part A.

[53]  C. Schubert The genomic basis of the Williams – Beuren syndrome , 2008, Cellular and Molecular Life Sciences.

[54]  Charlotte N. Henrichsen,et al.  Submicroscopic deletion in patients with Williams-Beuren syndrome influences expression levels of the nonhemizygous flanking genes. , 2006, American journal of human genetics.

[55]  Rebecca J. Oakey,et al.  Transposable Elements Re-Wire and Fine-Tune the Transcriptome , 2013, PLoS genetics.

[56]  Kai Ye,et al.  Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads , 2009, Bioinform..

[57]  Rumiko Matsuoka,et al.  VI. Genome Structure and Cognitive Map of Williams Syndrome , 2000, Journal of Cognitive Neuroscience.

[58]  Karl Deisseroth,et al.  Induced chromosome deletions cause hypersociability and other features of Williams–Beuren syndrome in mice , 2009, EMBO molecular medicine.

[59]  Roser Corominas,et al.  Copy number variation at the 7q11.23 segmental duplications is a susceptibility factor for the Williams-Beuren syndrome deletion. , 2008, Genome research.

[60]  A. Singleton,et al.  Rare Structural Variants Disrupt Multiple Genes in Neurodevelopmental Pathways in Schizophrenia , 2008, Science.

[61]  F. Ruddle,et al.  Isolation and characterization of BEN, a member of the TFII-I family of DNA-binding proteins containing distinct helix-loop-helix domains. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[62]  A. Boyko The domestic dog: man's best friend in the genomic era , 2011, Genome Biology.

[63]  Xiang Gao,et al.  Generation of gene-target dogs using CRISPR/Cas9 system. , 2015, Journal of molecular cell biology.

[64]  M. Tassabehji,et al.  Isolation and characterisation of GTF2IRD2, a novel fusion gene and member of the TFII-I family of transcription factors, deleted in Williams–Beuren syndrome , 2004, European Journal of Human Genetics.

[65]  H. Frank,et al.  Evolution of canine information processing under conditions of natural and artificial selection. , 1980, Zeitschrift fur Tierpsychologie.

[66]  M. Stephens,et al.  Genome-wide Efficient Mixed Model Analysis for Association Studies , 2012, Nature Genetics.

[67]  J. Dennis,et al.  Genome‐scale identification of UDP‐GlcNAc‐dependent pathways , 2008, Proteomics.

[68]  E. Klinghammer,et al.  Socialization and management of wolves in captivity. , 1987 .

[69]  Jeremiah D. Degenhardt,et al.  Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication , 2010, Nature.

[70]  J. Sinsheimer,et al.  The concerted impact of domestication and transposon insertions on methylation patterns between dogs and grey wolves , 2016, Molecular ecology.

[71]  Michael Tomasello,et al.  Human-like social skills in dogs? , 2005, Trends in Cognitive Sciences.

[72]  M. Udell When dogs look back: inhibition of independent problem-solving behaviour in domestic dogs (Canis lupus familiaris) compared with wolves (Canis lupus) , 2015, Biology Letters.

[73]  B. Crespi,et al.  The Williams syndrome prosociality gene GTF2I mediates oxytocin reactivity and social anxiety in a healthy population , 2017, Biology Letters.

[74]  H. Frank Man and wolf : advances, issues, and problems in captive wolf research , 1987 .

[75]  E. Kirkness,et al.  Short interspersed elements (SINEs) are a major source of canine genomic diversity. , 2005, Genome research.

[76]  S. Blot,et al.  SINE exonic insertion in the PTPLA gene leads to multiple splicing defects and segregates with the autosomal recessive centronuclear myopathy in dogs. , 2005, Human molecular genetics.

[77]  Angel M. Elgier,et al.  Sociability and gazing toward humans in dogs and wolves: Simple behaviors with broad implications. , 2016, Journal of the experimental analysis of behavior.

[78]  Gad Abraham,et al.  Fast Principal Component Analysis of Large-Scale Genome-Wide Data , 2014, bioRxiv.

[79]  Richard Durbin,et al.  Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .

[80]  C. Bustamante,et al.  A Single IGF1 Allele Is a Major Determinant of Small Size in Dogs , 2007, Science.

[81]  Uta Francke,et al.  An atypical deletion of the Williams–Beuren syndrome interval implicates genes associated with defective visuospatial processing and autism , 2006, Journal of Medical Genetics.

[82]  C. Bustamante,et al.  Molecular and Evolutionary History of Melanism in North American Gray Wolves , 2009, Science.

[83]  Raymond M. Moore,et al.  SoftSearch: Integration of Multiple Sequence Features to Identify Breakpoints of Structural Variations , 2013, PloS one.

[84]  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.

[85]  J. Trent,et al.  Comparison against 186 canid whole-genome sequences reveals survival strategies of an ancient clonally transmissible canine tumor , 2015, Genome research.

[86]  장윤희,et al.  Y. , 2003, Industrial and Labor Relations Terms.

[87]  Á. Miklósi,et al.  Trainability and boldness traits differ between dog breed clusters based on conventional breed categories and genetic relatedness , 2011 .

[88]  A. Mustaca,et al.  Do more sociable dogs gaze longer to the human face than less sociable ones? , 2012, Behavioural Processes.

[89]  P. Fletcher,et al.  Reduced fear and aggression and altered serotonin metabolism in Gtf2ird1‐targeted mice , 2008, Genes, brain, and behavior.

[90]  M. Nagasawa,et al.  Oxytocin-gaze positive loop and the coevolution of human-dog bonds , 2015, Science.

[91]  Ira M. Hall,et al.  Characterizing complex structural variation in germline and somatic genomes. , 2012, Trends in genetics : TIG.

[92]  Fangqing Zhao,et al.  inGAP-sv: a novel scheme to identify and visualize structural variation from paired end mapping data , 2011, Nucleic Acids Res..

[93]  Gorjan Alagic,et al.  #p , 2019, Quantum information & computation.

[94]  Á. Miklósi,et al.  DRD4 and TH gene polymorphisms are associated with activity, impulsivity and inattention in Siberian Husky dogs. , 2013, Animal genetics.

[95]  G. Merla,et al.  Molecular Genetics of Williams–Beuren Syndrome , 2012 .

[96]  Kerstin Lindblad-Toh,et al.  Leader of the pack: gene mapping in dogs and other model organisms , 2008, Nature Reviews Genetics.

[97]  Patricia Spallone,et al.  Hemizygosity at the elastin locus in a developmental disorder, Williams syndrome , 1993, Nature Genetics.

[98]  K. Murphy,et al.  Retrotransposon insertion in SILV is responsible for merle patterning of the domestic dog , 2006, Proceedings of the National Academy of Sciences of the United States of America.

[99]  Lauren Brubaker,et al.  Differences in problem-solving between canid populations: Do domestication and lifetime experience affect persistence? , 2017, Animal Cognition.

[100]  P. Bennett,et al.  A refinement and validation of the Monash Canine Personality Questionnaire (MCPQ) , 2009 .

[101]  Hans-Peter Piepho,et al.  Comparison of Mixed-Model Approaches for Association Mapping , 2008, Genetics.