A High-Resolution 15,000Rad Radiation Hybrid Panel for the Domestic Cat
Open accessAbstract
The current genetic and recombination maps of the cat have fewer than 3,000 markers and a resolution limit greater than 1 Mb. To complement the first-generation domestic cat maps, support higher resolution mapping studies, and aid genome assembly in specific areas as well as in the whole genome, a 15,000(Rad) radiation hybrid (RH) panel for the domestic cat was generated. Fibroblasts from the female Abyssinian cat that was used to generate the cat genomic sequence were fused to a Chinese hamster cell line (A23), producing 150 hybrid lines. The clones were initially characterized using 39 short tandem repeats (STRs) and 1,536 SNP markers. The utility of whole-genome amplification in preserving and extending RH panel DNA was also tested using 10 STR markers; no significant difference in retention was observed. The resolution of the 15,000(Rad) RH panel was established by constructing framework maps across 10 different 1-Mb regions on different feline chromosomes. In these regions, 2-point analysis was used to estimate RH distances, which compared favorably with the estimation of physical distances. The study demonstrates that the 15,000(Rad) RH panel constitutes a powerful tool for constructing high-resolution maps, having an average resolution of 40.1 kb per marker across the ten 1-Mb regions. In addition, the RH panel will complement existing genomic resources for the domestic cat, aid in the accurate re-assemblies of the forthcoming cat genomic sequence, and support cross-species genomic comparisons.
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The domestic cat reference genome assembly (FelCat5) comprises 2.35 Gb assigned to all 18 autosomes and the X chromosome, with a further 11 Mb in unplaced scaffolds.
“The assembly (FelCat5) comprises 2.35 gigabases (Gb) assigned to all 18 autosomes and the X chromosome relying on physical and linkage maps (11) with a further 11 megabases (Mb) in unplaced scaffolds.”
From Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication (2014) · cites this paper as [11]
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- Authors
- Bach, L. H., Gandolfi, B., Grahn, J. C., Millon, L. V., Kent, M. S., Narfstrom, K., Cole, S. A., Mullikin, J. C., Grahn, R. A., & Lyons, L. A.
- Affiliations
- University of California, Davis (US)
- Texas Biomedical Research Institute (US)
- National Institutes of Health (US)
- Venue
- Cytogenetic and Genome Research
- Publisher
- S. Karger AG
- Published
- 2012
- Volume
- 137
- Issue
- 1
- Pages
- 7-14
- ISSN
- 1424-859X (ISSN-L)
- 1424-8581
- PMC
- PMC3480197
- OpenAlex
- W2046189895
- Cited by
- 10
- References
- 52
- Citations by year
- 2024: 1 · 2020: 1 · 2018: 2 · 2017: 1 · 2016: 1 · 2015: 1 · 2014: 1 · 2013: 2
- FWCI
- 0.77
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Cytogenetic and Genome Research (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- San Francisco Foundation
- Animal Health Research Institute
- National Institutes of Health (R24OD010928, 1c06rr013556-01)
- University of California, Davis
- National Human Genome Research Institute
- National Center for Research Resources (R24RR016094, C06 RR-013556, RR016094)
- Center for Companion Animal Health, University of California, Davis
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomic variations and chromosomal abnormalities
- Keywords
- radiation hybrid panel, cats, radiation hybrid mapping, Abyssinian cat, microsatellite markers, SNP markers, whole genome amplification, genome assembly
- MeSH terms
- Animals, Animals, Domestic, Cats, Cell Fusion, Cell Line, Hybrid Cells, Polymorphism, Single Nucleotide
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