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Isolation of Y chromosome-specific microsatellites in the horse and cross-species amplification in the genus Equus.
Abstract: Y chromosome polymorphisms such as microsatellites or single nucleotide polymorphisms represent a paternal counterpart to mitochondrial DNA (mtDNA) for evolutionary and phylogeographic studies. The use of Y chromosome haplotyping in natural populations of species other than humans is still hindered by the lack of sequence information necessary for polymorphism screening. Here we used representational difference analysis (RDA) followed by a screen of a bacterial artificial chromosome (BAC) library for repetitive sequences to obtain polymorphic Y-chromosomal markers. The procedure was performed for the domestic horse (Equus caballus) and we report the first six Y-chromosomal microsatellite markers for this species. Three markers were also useful for haplotyping taxa of the zebra/ass lineage. Y-chromosomal microsatellite markers show a single haplotype in the domestic horse, whereas notable variation has been observed in the other members of the genus Equus.
Publication Date: 2004-04-10 PubMed ID: 15073232DOI: 10.1093/jhered/esh020Google Scholar: Lookup The Equine Research Bank provides access to a large database of publicly available scientific literature. Inclusion in the Research Bank does not imply endorsement of study methods or findings by Mad Barn.
- Comparative Study
- Journal Article
- Research Support
- Non-U.S. Gov't
Summary
This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.
The research focuses on identifying Y-chromosome polymorphisms, specifically microsatellites, in horses which can be used for evolutionary studies. The researchers developed a procedure using representational difference analysis and other techniques to establish these markers. The study discovered six new Y-chromosomal microsatellite markers in domestic horses and confirmed their limited variation in this species, while finding more variation across other species of the genus Equus.
Research Objective and Procedure
- The aim of the study was to isolate polymorphisms found on the Y-chromosome, specifically microsatellites, in horses. These can be used as a counterpart to mitochondrial DNA for conducting evolutionary and phylogeographic research, similar to studies in humans.
- To achieve their aim, the team of researchers developed a procedure using representational difference analysis (RDA), which is a method used to compare two genomic DNA samples, followed by screening a bacterial artificial chromosome (BAC) library for repetitive sequences.
Key Findings
- The primary outcome of this study was the identification of six new Y-chromosomal microsatellite markers in domestic horses, which is a significant achievement.
- Furthermore, the study found that these markers exhibited a single haplotype in domestic horses, indicating limited variation amongst this species.
- The same procedure was able to identify polymorphisms that were useful for haplotyping taxa of the zebra/ass lineage, highlighting the applicability of this method across different species within the Equus genus.
Implications
- The research provides important tools for investigating paternal lineage in domestic horses and other related species. This holds potential for evolutionary and phylogeographic studies and may lead to valuable insights about the evolution, dispersal, and diversity of these species.
- The study’s finding of notable variance in Y-chromosomal microsatellite markers in members of the genus Equus, apart from the domestic horse, suggests varying evolutionary pathways or rates across species.
Cite This Article
APA
Wallner B, Piumi F, Brem G, Müller M, Achmann R.
(2004).
Isolation of Y chromosome-specific microsatellites in the horse and cross-species amplification in the genus Equus.
J Hered, 95(2), 158-164.
https://doi.org/10.1093/jhered/esh020 Publication
Researcher Affiliations
- Institut für Tierzucht und Genetik, Veterinärmedizinische Universität Wien Veterinärplatz 1, A-1210 Wien, Austria.
MeSH Terms
- Alleles
- Animals
- Base Sequence
- Chromosomes, Artificial, Bacterial
- DNA Primers
- Databases, Genetic
- Electrophoresis, Agar Gel
- Horses / genetics
- Male
- Microsatellite Repeats / genetics
- Molecular Sequence Data
- Polymorphism, Genetic
- Sequence Analysis, DNA
- Y Chromosome / genetics
Citations
This article has been cited 24 times.- Giontella A, Cardinali I, Sarti FM, Silvestrelli M, Lancioni H. Y-Chromosome Haplotype Report among Eight Italian Horse Breeds. Genes (Basel) 2023 Aug 9;14(8).
- Cardinali I, Giontella A, Tommasi A, Silvestrelli M, Lancioni H. Unlocking Horse Y Chromosome Diversity. Genes (Basel) 2022 Dec 2;13(12).
- Liu S, Fu C, Yang Y, Zhang Y, Ma H, Xiong Z, Ling Y, Zhao C. Current genetic conservation of Chinese indigenous horses revealed with Y-chromosomal and mitochondrial DNA polymorphisms. G3 (Bethesda) 2021 Feb 9;11(2).
- Frank K, Bana NÁ, Bleier N, Sugár L, Nagy J, Wilhelm J, Kálmán Z, Barta E, Orosz L, Horn P, Stéger V. Mining the red deer genome (CerEla1.0) to develop X-and Y-chromosome-linked STR markers. PLoS One 2020;15(11):e0242506.
- Liu S, Yang Y, Pan Q, Sun Y, Ma H, Liu Y, Wang M, Zhao C, Wu C. Ancient Patrilineal Lines and Relatively High ECAY Diversity Preserved in Indigenous Horses Revealed With Novel Y-Chromosome Markers. Front Genet 2020;11:467.
- Raudsepp T, Finno CJ, Bellone RR, Petersen JL. Ten years of the horse reference genome: insights into equine biology, domestication and population dynamics in the post-genome era. Anim Genet 2019 Dec;50(6):569-597.
- Sild E, Värv S, Kaart T, Kantanen J, Popov R, Viinalass H. Maternal and paternal genetic variation in Estonian local horse breeds in the context of geographically adjacent and distant Eurasian breeds. Anim Genet 2019 Dec;50(6):757-760.
- Felkel S, Vogl C, Rigler D, Dobretsberger V, Chowdhary BP, Distl O, Fries R, Jagannathan V, Janečka JE, Leeb T, Lindgren G, McCue M, Metzger J, Neuditschko M, Rattei T, Raudsepp T, Rieder S, Rubin CJ, Schaefer R, Schlötterer C, Thaller G, Tetens J, Velie B, Brem G, Wallner B. The horse Y chromosome as an informative marker for tracing sire lines. Sci Rep 2019 Apr 15;9(1):6095.
- Janečka JE, Davis BW, Ghosh S, Paria N, Das PJ, Orlando L, Schubert M, Nielsen MK, Stout TAE, Brashear W, Li G, Johnson CD, Metz RP, Zadjali AMA, Love CC, Varner DD, Bellott DW, Murphy WJ, Chowdhary BP, Raudsepp T. Horse Y chromosome assembly displays unique evolutionary features and putative stallion fertility genes. Nat Commun 2018 Jul 27;9(1):2945.
- Kakoi H, Kikuchi M, Tozaki T, Hirota KI, Nagata SI, Hobo S, Takasu M. Distribution of Y chromosomal haplotypes in Japanese native horse populations. J Equine Sci 2018;29(2):39-42.
- Ma H, Wu Y, Xiang H, Yang Y, Wang M, Zhao C, Wu C. Some maternal lineages of domestic horses may have origins in East Asia revealed with further evidence of mitochondrial genomes and HVR-1 sequences. PeerJ 2018;6:e4896.
- Wutke S, Sandoval-Castellanos E, Benecke N, Döhle HJ, Friederich S, Gonzalez J, Hofreiter M, Lõugas L, Magnell O, Malaspinas AS, Morales-Muñiz A, Orlando L, Reissmann M, Trinks A, Ludwig A. Decline of genetic diversity in ancient domestic stallions in Europe. Sci Adv 2018 Apr;4(4):eaap9691.
- Chen H, Ren Z, Zhao J, Zhang C, Yang X. Y-chromosome polymorphisms of the domestic Bactrian camel in China. J Genet 2018 Mar;97(1):3-10.
- Almarzook S, Reissmann M, Brockmann GA. Diversity of mitochondrial DNA in three Arabian horse strains. J Appl Genet 2017 May;58(2):273-276.
- Der Sarkissian C, Ermini L, Schubert M, Yang MA, Librado P, Fumagalli M, Jónsson H, Bar-Gal GK, Albrechtsen A, Vieira FG, Petersen B, Ginolhac A, Seguin-Orlando A, Magnussen K, Fages A, Gamba C, Lorente-Galdos B, Polani S, Steiner C, Neuditschko M, Jagannathan V, Feh C, Greenblatt CL, Ludwig A, Abramson NI, Zimmermann W, Schafberg R, Tikhonov A, Sicheritz-Ponten T, Willerslev E, Marques-Bonet T, Ryder OA, McCue M, Rieder S, Leeb T, Slatkin M, Orlando L. Evolutionary Genomics and Conservation of the Endangered Przewalski's Horse. Curr Biol 2015 Oct 5;25(19):2577-83.
- Han H, Zhang Q, Gao K, Yue X, Zhang T, Dang R, Lan X, Chen H, Lei C. Y-Single Nucleotide Polymorphisms Diversity in Chinese Indigenous Horse. Asian-Australas J Anim Sci 2015 Aug;28(8):1066-74.
- Brandariz-Fontes C, Leonard JA, Vega-Pla JL, Backström N, Lindgren G, Lippold S, Rico C. Y-chromosome analysis in Retuertas horses. PLoS One 2013;8(5):e64985.
- Wallner B, Vogl C, Shukla P, Burgstaller JP, Druml T, Brem G. Identification of genetic variation on the horse y chromosome and the tracing of male founder lineages in modern breeds. PLoS One 2013;8(4):e60015.
- Lippold S, Knapp M, Kuznetsova T, Leonard JA, Benecke N, Ludwig A, Rasmussen M, Cooper A, Weinstock J, Willerslev E, Shapiro B, Hofreiter M. Discovery of lost diversity of paternal horse lineages using ancient DNA. Nat Commun 2011 Aug 23;2:450.
- de Mestre AM, Hanlon D, Adams AP, Runcan E, Leadbeater JC, Erb HN, Costa CC, Miller D, Allen WR, Antczak DF. Functions of ectopically transplanted invasive horse trophoblast. Reproduction 2011 Jun;141(6):849-56.
- Cieslak M, Pruvost M, Benecke N, Hofreiter M, Morales A, Reissmann M, Ludwig A. Origin and history of mitochondrial DNA lineages in domestic horses. PLoS One 2010 Dec 20;5(12):e15311.
- Raudsepp T, Santani A, Wallner B, Kata SR, Ren C, Zhang HB, Womack JE, Skow LC, Chowdhary BP. A detailed physical map of the horse Y chromosome. Proc Natl Acad Sci U S A 2004 Jun 22;101(25):9321-6.
- Yordanov G, Yordanov T, Mehandjyiski I, Radoslavov G, Salkova D, Hristov P. Population Structure and Genetic Diversity Among Shagya Arabian Horse Genealogical Lineages in Bulgaria Based on Microsatellite Genotyping. Vet Sci 2025 Aug 19;12(8).
- Radovic L, Remer V, Rigler D, Bozlak E, Allen L, Brem G, Reissman M, Brockmann GA, Ropka-Molik K, Stefaniuk-Szmukier M, Kalinkova L, Kalashnikov VV, Zaitev AM, Raudsepp T, Castaneda C, von Butler-Wemken I, Patterson Rosa L, Brooks SA, Novoa-Bravo M, Kostaras N, Abdurasulov A, Antczak DF, Miller DC, Lopes MS, da Câmara Machado A, Lindgren G, Juras R, Cothran G, Wallner B. The global spread of Oriental Horses in the past 1,500 years through the lens of the Y chromosome. Proc Natl Acad Sci U S A 2024 Dec 3;121(49):e2414408121.
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