BAC-based PCR fragment microarray: high-resolution detection of chromosomal deletion and duplication breakpoints.
The introduction of molecular techniques in conjunction with classical cytogenetic methods has in recent years greatly improved the diagnostic potential for chromosomal abnormalities. In particular, microarray-comparative genomic hybridization (CGH) based on the use of BAC clones promises a sensitive strategy for the detection of DNA copy-number changes on a genomewide scale, offering a resolution as high as >30,000 "bands" (as defined by the number of BACs within the currently highest-density BAC array) [Ishkanian et al., 2004]. We have tested the possibility of further increasing this resolution using PCR fragments generated from individual BAC clones. Using this approach, we have efficiently defined the proximal and distal breakpoints in two cytogenetic cases, one duplication and one deletion, to within 5-20 kb. The results support the potential use of BAC-based PCR fragments to further improve the resolution of the microarray-CGH strategy by an order of magnitude.
Ren
Hua
H
Murdoch Childrens Research Institute, University of Melbourne, Royal Children's Hospital, Parkville, Australia.
Francis
Wendy
W
Boys
Amber
A
Chueh
Anderly C
AC
Wong
Nick
N
La
Phung
P
Wong
Lee H
LH
Ryan
Jacinta
J
Slater
Howard R
HR
Choo
K H Andy
KH
D002869:Chromosome Aberrations; D019457:Chromosome Breakage; D002872:Chromosome Deletion; D022202:Chromosomes, Artificial, Bacterial / Q000235:genetics*; D020732:Cytogenetic Analysis / Q000379:methods; D023281:Genomics / Q000379:methods; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D016133:Polymerase Chain Reaction / Q000379:methods*