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Aneuploidy affecting the sex chromosomes can lead to infertility in otherwise externally phenotypically normal cattle. Early identification of cattle with sex chromosomal aneuploidy is important to minimize the costs associated with rearing infertile cattle and futile breeding attempts. As most livestock breeding programs routinely genotype their breeding populations using single nucleotide polymorphism (SNP) arrays, this study aimed to assess the feasibility of integrating an aneuploidy screening tool into the existing pipelines that handle dense SNP genotype data. A further objective was to estimate the prevalence of sex chromosome aneuploidy in a population of 146,431 juvenile cattle using available genotype intensity data. Three genotype intensity statistics were used: the LogR Ratio (LRR), <jats:italic>R<\/jats:italic>\u2010value (the sum of X and Y SNP probe intensities), and B\u2010allele frequency (BAF) measurements. Within the female\u2010verified population of 124,958 individuals, the estimated prevalence rate was 0.0048% for XO, 0.0350% for XXX, and 0.0004% for XXY. The prevalence of XXY in the male\u2010verified population was 0.0870% (i.e., 18 out of 20,670 males). Cytogenetic testing was used to verify 2 of the XXX females who were still alive. The proposed approach can be readily integrated into existing genomic pipelines, serving as an efficient, large\u2010scale screening tool for aneuploidy. Its implementation could enable the early identification of infertile animals with sex\u2010chromosome aneuploidy.<\/jats:p>","DOI":"10.1111\/jbg.12866","type":"journal-article","created":{"date-parts":[[2024,3,29]],"date-time":"2024-03-29T08:34:04Z","timestamp":1711701244000},"page":"571-585","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Prevalence of sex\u2010chromosome aneuploidy estimated using <scp>SNP<\/scp> genotype intensity information in a large population of juvenile dairy and beef cattle"],"prefix":"10.1111","volume":"141","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6708-9669","authenticated-orcid":false,"given":"Cliona A.","family":"Ryan","sequence":"first","affiliation":[{"name":"Teagasc, Moorepark  Fermoy County Cork Ireland"},{"name":"Munster Technological University  Cork County Cork Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Deirdre C.","family":"Purfield","sequence":"additional","affiliation":[{"name":"Munster Technological University  Cork County Cork Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daragh","family":"Matthews","sequence":"additional","affiliation":[{"name":"Irish Cattle Breeding Federation  Ballincollig County Cork Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1575-7420","authenticated-orcid":false,"given":"Carla","family":"Canedo\u2010Ribeiro","sequence":"additional","affiliation":[{"name":"School of Biosciences University of Kent  Canterbury UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ainhoa","family":"Valldecabres","sequence":"additional","affiliation":[{"name":"Teagasc, Moorepark  Fermoy County Cork Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4349-1447","authenticated-orcid":false,"given":"Donagh P.","family":"Berry","sequence":"additional","affiliation":[{"name":"Teagasc, Moorepark  Fermoy County Cork Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2024,3,29]]},"reference":[{"key":"e_1_2_8_2_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.075671.107"},{"key":"e_1_2_8_3_1","doi-asserted-by":"publisher","DOI":"10.1111\/age.13280"},{"key":"e_1_2_8_4_1","doi-asserted-by":"publisher","DOI":"10.1017\/s1751731118000204"},{"key":"e_1_2_8_5_1","doi-asserted-by":"publisher","DOI":"10.2527\/jas.2016.1279"},{"key":"e_1_2_8_6_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10577\u2010009\u20109052\u2010z"},{"key":"e_1_2_8_7_1","doi-asserted-by":"publisher","DOI":"10.1111\/jbg.12760"},{"key":"e_1_2_8_8_1","doi-asserted-by":"publisher","DOI":"10.1086\/515488"},{"issue":"8","key":"e_1_2_8_9_1","first-page":"808","article-title":"X\u2010trisomy karyotype and associated infertility in a Holstein heifer","volume":"179","author":"Buoen L.","year":"1981","journal-title":"Journal of the American Veterinary Medical Association"},{"key":"e_1_2_8_10_1","doi-asserted-by":"publisher","DOI":"10.1159\/000071601"},{"key":"e_1_2_8_11_1","doi-asserted-by":"publisher","DOI":"10.1159\/000245913"},{"key":"e_1_2_8_12_1","doi-asserted-by":"publisher","DOI":"10.1159\/000118738"},{"key":"e_1_2_8_13_1","volume-title":"Cytogenetics of livestock","author":"Eldridge F. 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