A 1.4-Mb interval RH map of horse chromosome 17 provides detailed comparison with human and mouse homologues.
Abstract: Comparative genomics has served as a backbone for the rapid development of gene maps in domesticated animals. The integration of this approach with radiation hybrid (RH) analysis provides one of the most direct ways to obtain physically ordered comparative maps across evolutionarily diverged species. We herein report the development of a detailed RH and comparative map for horse chromosome 17 (ECA17). With markers distributed at an average interval of every 1.4 Mb, the map is currently the most informative among the equine chromosomes. It comprises 75 markers (56 genes and 19 microsatellites), of which 50 gene specific and 5 microsatellite markers were generated in this study and typed to our 5000-rad horse x hamster whole genome RH panel. The markers are dispersed over six RH linkage groups and span 825 cR(5000). The map is among the most comprehensive whole chromosome comparative maps currently available for domesticated animals. It finely aligns ECA17 to human and mouse homologues (HSA13 and MMU1, 3, 5, 8, and 14, respectively) and homologues in other domesticated animals. Comparisons provide insight into their relative organization and help to identify evolutionarily conserved segments. The new ECA17 map will serve as a template for the development of clusters of BAC contigs in regions containing genes of interest. Sequencing of these regions will help to initiate studies aimed at understanding the molecular mechanisms for various diseases and inherited disorders in horse as well as human.
Publication Date: 2004-01-07 PubMed ID: 14706449DOI: 10.1016/j.ygeno.2003.07.002Google Scholar: Lookup
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- Comparative Study
- Journal Article
- Research Support
- Non-U.S. Gov't
- Research Support
- U.S. Gov't
- Non-P.H.S.
Summary
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The research paper presents the development of a detailed radiation hybrid and comparative map for horse chromosome 17 (ECA17). This comprehensive map aids in the understanding of gene alignments across different species (horse, human, mouse), and could serve as a blueprint for future genetic studies on various diseases and inherited disorders in horses as well as humans.
Comparative Genomics and Radiation Hybrid Analysis
- The study employs comparative genomics, which is a research field focusing on comparing the DNA sequences of different species to understand their similarities, differences, and evolutionary relationships. This method serves as a vital tool in mapping genes in domestic animals.
- The researchers also used a technique called radiation hybrid (RH) analysis. This approach is a powerful tool in generating physically ordered comparative gene maps across different species. It provides a highly informative and detailed map of specific chromosomes.
Development of the Horse Chromosome 17 Map
- ECA17 was specifically mapped in this study. The map boasts an average marker interval of 1.4 megabases (Mb), making it a highly informative resource for understanding equine genetics. The map consists of 75 markers, including 56 genes and 19 microsatellites.
- 50 gene-specific markers and 5 microsatellite markers were generated in this study, all of which were typed using a 5000-rad horse x hamster whole genome RH panel.
- These markers are dispersed over six RH linkage groups and span 825 cR(5000). This means that the ECA17 map is comprehensive and offers detailed information on the horse chromosome’s genetic makeup.
Comparative Map and Findings
- The ECA17 map was then compared to that of human and mouse chromosomes. This comparison provided insights into the relative organization of the genes and helped identify evolutionarily conserved segments among these species.
- The comparative map is among the most comprehensive currently available for domestic animals.
Future Implications
- This map will aid in the development of clusters of BAC (bacterial artificial chromosome) contigs in regions containing genes of interest. Contigs are regions of continuous DNA sequence without gaps.
- Sequencing these regions could further our understanding of the molecular mechanisms behind various diseases and inherited disorders in both horses and humans.
Cite This Article
APA
Lee EJ, Raudsepp T, Kata SR, Adelson D, Womack JE, Skow LC, Chowdhary BP.
(2004).
A 1.4-Mb interval RH map of horse chromosome 17 provides detailed comparison with human and mouse homologues.
Genomics, 83(2), 203-215.
https://doi.org/10.1016/j.ygeno.2003.07.002 Publication
Researcher Affiliations
- Department of Veterinary Anatomy & Public Health, College of Veterinary Medicine, Texas A&M University, College Station, TX 77843, USA.
MeSH Terms
- Animals
- Chromosome Mapping / methods
- Chromosomes
- Chromosomes, Artificial, Bacterial
- DNA Primers
- Genetic Markers
- Genomics / methods
- Horses / genetics
- Humans
- In Situ Hybridization, Fluorescence
- Mice
- Sequence Alignment
- Sequence Homology, Nucleic Acid
Citations
This article has been cited 5 times.- Raudsepp T, Gustafson-Seabury A, Durkin K, Wagner ML, Goh G, Seabury CM, Brinkmeyer-Langford C, Lee EJ, Agarwala R, Stallknecht-Rice E, Schäffer AA, Skow LC, Tozaki T, Yasue H, Penedo MC, Lyons LA, Khazanehdari KA, Binns MM, MacLeod JN, Distl O, Guérin G, Leeb T, Mickelson JR, Chowdhary BP. A 4,103 marker integrated physical and comparative map of the horse genome. Cytogenet Genome Res 2008;122(1):28-36.
- Chowdhary BP, Raudsepp T. The horse genome derby: racing from map to whole genome sequence. Chromosome Res 2008;16(1):109-27.
- Brinkmeyer-Langford C, Raudsepp T, Lee EJ, Goh G, Schäffer AA, Agarwala R, Wagner ML, Tozaki T, Skow LC, Womack JE, Mickelson JR, Chowdhary BP. A high-resolution physical map of equine homologs of HSA19 shows divergent evolution compared with other mammals. Mamm Genome 2005 Aug;16(8):631-49.
- 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.
- Raudsepp T, Lee EJ, Kata SR, Brinkmeyer C, Mickelson JR, Skow LC, Womack JE, Chowdhary BP. Exceptional conservation of horse-human gene order on X chromosome revealed by high-resolution radiation hybrid mapping. Proc Natl Acad Sci U S A 2004 Feb 24;101(8):2386-91.
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