title: Construction and application of a zebrafish array comparative genomic hybridization platform.
abstract: The zebrafish is emerging as a prominent model system for studying the genetics of human development and disease. Genetic alterations that underlie each mutant model can exist in the form of single base changes, balanced chromosomal rearrangements, or genetic imbalances. To detect genetic imbalances in an unbiased genome-wide fashion, array comparative genomic hybridization (CGH) can be used. We have developed a 5-Mb resolution array CGH platform specifically for the zebrafish. This platform contains 286 bacterial artificial chromosome (BAC) clones, enriched for orthologous sequences of human oncogenes and tumor suppressor genes. Each BAC clone has been end-sequenced and cytogenetically assigned to a specific location within the zebrafish genome, allowing for ease of integration of array CGH data with the current version of the genome assembly. This platform has been applied to three zebrafish cancer models. Significant genomic imbalances were detected in each model, identifying different regions that may potentially play a role in tumorigenesis. Hence, this platform should be a useful resource for genetic dissection of additional zebrafish developmental and disease models as well as a benchmark for future array CGH platform development.
authors.affiliation: Department of Pathology, Brigham and Women's Hospital, Boston, MA 02115, USA.
authors.forename: Jennifer L
authors.initials: JL
authors.lastname: Freeman
authors.forename: Craig
authors.initials: C
authors.lastname: Ceol
authors.forename: Hui
authors.initials: H
authors.lastname: Feng
authors.forename: David M
authors.initials: DM
authors.lastname: Langenau
authors.forename: Cassandra
authors.initials: C
authors.lastname: Belair
authors.forename: Howard M
authors.initials: HM
authors.lastname: Stern
authors.forename: Anhua
authors.initials: A
authors.lastname: Song
authors.forename: Barry H
authors.initials: BH
authors.lastname: Paw
authors.forename: A Thomas
authors.initials: AT
authors.lastname: Look
authors.forename: Yi
authors.initials: Y
authors.lastname: Zhou
authors.forename: Leonard I
authors.initials: LI
authors.lastname: Zon
authors.forename: Charles
authors.initials: C
authors.lastname: Lee
mesh_terms: D000818:Animals; D030801:Animals, Genetically Modified; D022202:Chromosomes, Artificial, Bacterial; D055028:Comparative Genomic Hybridization / Q000379:methods*; D004195:Disease Models, Animal; D016147:Genes, Tumor Suppressor; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D008545:Melanoma / Q000235:genetics; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D009857:Oncogenes; D054218:Precursor T-Cell Lymphoblastic Leukemia-Lymphoma / Q000235:genetics; D015203:Reproducibility of Results; D012208:Rhabdomyosarcoma / Q000235:genetics; D015027:Zebrafish / Q000235:genetics* / Q000378:metabolism