Abstract
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.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 7-14 |
| Number of pages | 8 |
| Journal | Cytogenetic and Genome Research |
| Volume | 137 |
| Issue number | 1 |
| DOIs | |
| State | Published - Aug 2012 |
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Keywords
- Felis catus
- Genetic mapping
- Whole-genome amplification
ASJC Scopus subject areas
- Genetics
- Genetics(clinical)
- Molecular Biology
Cite this
A high-resolution 15,000 Rad radiation hybrid panel for the domestic cat. / Bach, L. H.; Gandolfi, B.; Grahn, J. C.; Millon, L. V.; Kent, Michael S; Narfstrom, K.; Cole, S. A.; Mullikin, J. C.; Grahn, Robert A; Lyons, Leslie A.
In: Cytogenetic and Genome Research, Vol. 137, No. 1, 08.2012, p. 7-14.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - A high-resolution 15,000 Rad radiation hybrid panel for the domestic cat
AU - Bach, L. H.
AU - Gandolfi, B.
AU - Grahn, J. C.
AU - Millon, L. V.
AU - Kent, Michael S
AU - Narfstrom, K.
AU - Cole, S. A.
AU - Mullikin, J. C.
AU - Grahn, Robert A
AU - Lyons, Leslie A
PY - 2012/8
Y1 - 2012/8
N2 - 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.
AB - 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.
KW - Felis catus
KW - Genetic mapping
KW - Whole-genome amplification
UR - http://www.scopus.com/inward/record.url?scp=84865360713&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84865360713&partnerID=8YFLogxK
U2 - 10.1159/000339416
DO - 10.1159/000339416
M3 - Article
VL - 137
SP - 7
EP - 14
JO - Cytogenetic and Genome Research
JF - Cytogenetic and Genome Research
SN - 1424-8581
IS - 1
ER -