{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T18:21:44Z","timestamp":1787595704257,"version":"build-2736575974"},"reference-count":59,"publisher":"MDPI AG","issue":"9","license":[{"start":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T00:00:00Z","timestamp":1787529600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100002322","name":"Coordination for the Improvement of Higher Education Personnel","doi-asserted-by":"publisher","award":["001"],"award-info":[{"award-number":["001"]}],"id":[{"id":"10.13039\/501100002322","id-type":"DOI","asserted-by":"publisher"}]},{"award":["001"],"award-info":[{"award-number":["001"]}],"id":[{"id":"https:\/\/ror.org\/00x0ma614","id-type":"ROR","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003593","name":"National Council for Scientific and Technological Development","doi-asserted-by":"publisher","award":["101711-2024-7"],"award-info":[{"award-number":["101711-2024-7"]}],"id":[{"id":"10.13039\/501100003593","id-type":"DOI","asserted-by":"publisher"}]},{"award":["101711-2024-7"],"award-info":[{"award-number":["101711-2024-7"]}],"id":[{"id":"https:\/\/ror.org\/03swz6y49","id-type":"ROR","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Genes"],"abstract":"<jats:p>Background\/Objectives: Brazilian locally adapted sheep breeds represent valuable genetic resources. However, the commercial valorization of these breeds depends in part on genetic certification to support traceability and verify product origin. This study aimed to identify and evaluate a minimum set of highly informative SNPs for accurate and efficient breed assignment across five Brazilian locally adapted sheep breeds. Methods: A total of 677 samples were genotyped using the Embrapa Multispecies 65 K Illumina Infinium 1 chip, which contains 2926 markers for Ovis aries. The dataset was partitioned into training (n = 566) and independent testing (n = 111) sets. Markers were ranked according to genetic differentiation based on pairwise Wright\u2019s fixation index (FST) using the Toolbox for Ranking and Evaluation of SNPs (TRES), generating three nested reduced panels of 288, 192, and 96 SNPs. Panel performance and preservation of population structure were evaluated using Random Forest classification, Principal Component Analysis (PCA), and ADMIXTURE. Results: The 96-SNP panel achieved classification accuracy comparable to that of the 2145-SNP post-QC baseline and the 192- and 288-SNP panels (Cochran\u2019s Q test: Q = 6.00, df = 3, p = 0.112), with no statistically significant difference in classification performance despite the substantial reduction in marker number. PCA and ADMIXTURE analyses indicated that the 96-SNP panel preserved the major population structure observed with the full post-QC marker set. Conclusions: Although formal analytical validation of a dedicated low-density genotyping assay remains necessary before routine implementation, the in-silico marker selection and empirical validation performed here provide an evidence-based framework for translating high-density genomic information into accessible and cost-effective applications for breed assignment, traceability, and conservation of Brazilian locally adapted sheep genetic resources.<\/jats:p>","DOI":"10.3390\/genes17090991","type":"journal-article","created":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T17:20:28Z","timestamp":1787592028000},"page":"991","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Customized SNP Panel for Local Brazilian Sheep Breed Assignment"],"prefix":"10.3390","volume":"17","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9165-1762","authenticated-orcid":false,"given":"Camila Souza","family":"Rodrigues","sequence":"first","affiliation":[{"name":"Faculty of Agronomy and Veterinary Medicine, Central Institute of Sciences, Darcy Ribeiro Campus, University of Bras\u00edlia, Bras\u00edlia 70910-900, DF, Brazil"},{"name":"Embrapa Recursos Gen\u00e9ticos e Biotecnologia, Bras\u00edlia 70770-917, DF, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9154-5959","authenticated-orcid":false,"given":"Danielle Assis de","family":"Faria","sequence":"additional","affiliation":[{"name":"Faculty of Agronomy and Veterinary Medicine, Central Institute of Sciences, Darcy Ribeiro Campus, University of Bras\u00edlia, Bras\u00edlia 70910-900, DF, Brazil"},{"name":"Embrapa Recursos Gen\u00e9ticos e Biotecnologia, Bras\u00edlia 70770-917, DF, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6687-2491","authenticated-orcid":false,"given":"Samuel Rezende","family":"Paiva","sequence":"additional","affiliation":[{"name":"Embrapa Recursos Gen\u00e9ticos e Biotecnologia, Bras\u00edlia 70770-917, DF, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1106-8962","authenticated-orcid":false,"given":"Concepta","family":"McManus","sequence":"additional","affiliation":[{"name":"Faculty of Agronomy and Veterinary Medicine, Central Institute of Sciences, Darcy Ribeiro Campus, University of Bras\u00edlia, Bras\u00edlia 70910-900, DF, Brazil"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1968","published-online":{"date-parts":[[2026,8,24]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","unstructured":"Kijas, J.W., Lenstra, J.A., Hayes, B., Boitard, S., Porto Neto, L.R., San Cristobal, M., Servin, B., McCulloch, R., Whan, V., and Gietzen, K. 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