PUBLICATION
Construction and application of a zebrafish array comparative genomic hybridization platform
- Authors
- Freeman, J.L., Ceol, C., Feng, H., Langenau, D.M., Belair, C., Stern, H.M., Song, A., Paw, B.H., Look, A.T., Zhou, Y., Zon, L.I., and Lee, C.
- ID
- ZDB-PUB-081105-1
- Date
- 2009
- Source
- Genes, chromosomes & cancer 48(2): 155-170 (Journal)
- Registered Authors
- Belair, Cassandra D., Ceol, Craig, Feng, Hui, Freeman, Jennifer, Langenau, David, Lee, Charles, Look, A. Thomas, Paw, Barry, Song, Anhua, Stern, Howard, Zhou, Yi, Zon, Leonard I.
- Keywords
- none
- MeSH Terms
-
- Animals
- Animals, Genetically Modified
- Chromosomes, Artificial, Bacterial
- Comparative Genomic Hybridization/methods*
- Disease Models, Animal
- Genes, Tumor Suppressor*
- Humans
- In Situ Hybridization, Fluorescence
- Melanoma/genetics
- Oligonucleotide Array Sequence Analysis/methods*
- Oncogenes*
- Precursor T-Cell Lymphoblastic Leukemia-Lymphoma/genetics
- Reproducibility of Results
- Rhabdomyosarcoma/genetics
- Zebrafish/genetics*
- Zebrafish/metabolism
- PubMed
- 18973135 Full text @ Genes Chromosomes Cancer
Citation
Freeman, J.L., Ceol, C., Feng, H., Langenau, D.M., Belair, C., Stern, H.M., Song, A., Paw, B.H., Look, A.T., Zhou, Y., Zon, L.I., and Lee, C. (2009) Construction and application of a zebrafish array comparative genomic hybridization platform. Genes, chromosomes & cancer. 48(2):155-170.
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.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping