Advanced integrated mouse YAC map including BAC framework.
Functional characterization of the mouse genome requires the availability of a comprehensive physical map to obtain molecular access to chromosomal regions of interest. Positional cloning remains a crucial way of linking phenotype with particular genes. A key step and frequent stumbling block in positional cloning is making a contig of a genetically defined candidate region. The most efficient first step is isolating YAC (Yeast Artificial Chromosome) clones. A robust, detailed YAC contig map is thus an important tool. Employing Interspersed Repetitive Sequence (IRS)-PCR genomics, we have generated an advanced second-generation YAC contig map of the mouse genome that doubles both the depth of clones and the density of markers available. In addition to the primarily YAC-based map, we located 1942 BAC (Bacterial Artificial Chromosome) clones. This allows us to present for the first time a dense framework of BACs spanning the genome of the mouse, which, for instance, can serve as a nucleus for genomic sequencing. Four large-insert mouse YAC libraries from three different strains are included in our data, and our analysis incorporates the data of Hunter et al. and Nusbaum et al. There is a total of 20,205 markers on the final map, 12,033 from our own data, and a total of 56,093 YACs, of which 44,401 are positive for more than one marker.
Schalkwyk
L C
LC
Max-Planck-Institute of Molecular Genetics, Ihnestrasse 73, D-14195 Berlin, Germany. L.Schalkwyk@iop.kcl.ac.uk
Cusack
B
B
Dunkel
I
I
Hopp
M
M
Kramer
M
M
Palczewski
S
S
Piefke
J
J
Scheel
S
S
Weiher
M
M
Wenske
G
G
Lehrach
H
H
Himmelbauer
H
H
D000465:Algorithms; D000818:Animals; D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D018244:Chromosomes, Artificial, Yeast / Q000235:genetics*; D003198:Computer Simulation; D020451:Contig Mapping / Q000379:methods; D030541:Databases, Genetic; D051379:Mice; D008969:Molecular Sequence Data; D009693:Nucleic Acid Hybridization / Q000235:genetics / Q000379:methods; D020161:Physical Chromosome Mapping / Q000379:methods*