دورية أكاديمية
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Development of a high-density sub-species-specific targeted SNP assay for Rocky Mountain bighorn sheep ( Ovis canadensis canadensis ).

التفاصيل البيبلوغرافية
العنوان: Development of a high-density sub-species-specific targeted SNP assay for Rocky Mountain bighorn sheep ( Ovis canadensis canadensis ).
المؤلفون: Deakin S; Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada., Coltman DW; Department of Biological Sciences, University of Alberta, Edmonton, Alberta, Canada.; Department of Biology, University of Western Ontario, London, Ontario, Canada.
المصدر: PeerJ [PeerJ] 2024 Feb 26; Vol. 12, pp. e16946. Date of Electronic Publication: 2024 Feb 26 (Print Publication: 2024).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: PeerJ Inc Country of Publication: United States NLM ID: 101603425 Publication Model: eCollection Cited Medium: Internet ISSN: 2167-8359 (Electronic) Linking ISSN: 21678359 NLM ISO Abbreviation: PeerJ Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Corte Madera, CA : PeerJ Inc.
مواضيع طبية MeSH: Polymorphism, Single Nucleotide*/genetics , Sheep, Bighorn*/genetics, Animals ; Sheep/genetics ; Genome ; Genotype ; Genomics
مستخلص: Due to their abundance and relative ease of genotyping, single nucleotide polymorphisms (SNPs) are a commonly used molecular marker for contemporary population genetic and genomic studies. A high-density and cost-effective way to type SNP loci is Allegro targeted genotyping (ATG), which is a form of targeted genotyping by sequencing developed and offered by Tecan genomics. One major drawback of this technology is the need for a reference genome and information on SNP loci when designing a SNP assay. However, for some non-model species genomic information from other closely related species can be used. Here we describe our process of developing an ATG assay to target 50,000 SNPs in Rocky Mountain bighorn sheep, using a reference genome from domestic sheep and SNP resources from prior bighorn sheep studies. We successfully developed a high accuracy, high-density, and relatively low-cost SNP assay for genotyping Rocky Mountain bighorn sheep that genotyped ~45,000 SNP loci. These loci were relatively evenly distributed throughout the genome. Furthermore, the assay produced genotypes at tens of thousands of SNP loci when tested on other mountain sheep species and subspecies.
Competing Interests: The authors declare that they have no competing interests.
(© 2024 Deakin and Coltman.)
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فهرسة مساهمة: Keywords: Allegro; Bighorn; Development; Genetic; Genomic; SNP; SPET; Sheep; Tecan; Ungulate
سلسلة جزيئية: Dryad 10.5061/dryad.4qk81
تواريخ الأحداث: Date Created: 20240301 Date Completed: 20240304 Latest Revision: 20240304
رمز التحديث: 20240304
مُعرف محوري في PubMed: PMC10903336
DOI: 10.7717/peerj.16946
PMID: 38426129
قاعدة البيانات: MEDLINE
الوصف
تدمد:2167-8359
DOI:10.7717/peerj.16946