Region-specific cosmids and STRPs identified by chromosome microdissection and FISH
- Univ. of Michigan, Ann Arbor, MI (United States); and others
A strategy for identifying short tandem repeat (STR)-containing cosmid clones from a specific chromosomal region is described. The approach is based an the use of uncloned, PCR-amplified DNA derived from chromosome microdissection and pooled groups of STR sequences as hybridization probes to screen a cosmid library. Cosmid clones that display a positive signal common to both hybridizations are then characterized for repeat length polymorphisms. This method has been applied to chromosome bands 17q12-q21, a region that includes a gene (BRCA1) involved in early onset familial breast and ovarian cancer. Of 1536 chromosome 17-specific cosmid clones tested, 38 were identified by the dual screening procedure. Fluorescence in situ hybridization revealed that 19 cosmids originated from the microdissected target region. Thirteen of the 19 cosmids were mapped between markers flanking the BRCA1 region and selected for further characterization. Tetranucleotide repeats were identified in 10 of these 13 cosmids. Primers designed for each marker were tested on a panel of 80 CEPH parents for allele sizes, frequencies, and observed heterozygosities. From these studies six polymorphic and one nonpolymorphic STRs were identified. A similar approach should be applicable for screening whole genomic or chromosome-specific cosmid libraries in efforts to isolate new polymorphic markers from any chromosomal region of interest. 32 refs., 3 figs., 2 tabs.
- OSTI ID:
- 250155
- Journal Information:
- Genomics, Journal Name: Genomics Journal Issue: 2 Vol. 25; ISSN 0888-7543; ISSN GNMCEP
- Country of Publication:
- United States
- Language:
- English
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BASIC STUDIES
AGE DEPENDENCE
BIOLOGICAL MARKERS
COSMIDS
DNA HYBRIDIZATION
DNA-CLONING
FLUORESCENCE
GENE MUTATIONS
GENES
GENETIC MAPPING
HUMAN CHROMOSOME 17
HYBRIDIZATION
LIBRARIES
MAMMARY GLANDS
NEOPLASMS
NUCLEOTIDES
OVARIES
POLYMERASE CHAIN REACTION
PROBES
RFLPS
SCREENING
SOMATIC CELLS