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Title: A BAC POOLING STRATEGY COMBINED WITH PCR-BASED SCREENING IN A LARGE, HIGHLY REPETITIVE GENOME ENABLES INTEGRATION OF THE MAIZE GENETIC AND PHYSICAL MAPS

Author
item YIM, YOUNG-SUN - UNIV OF MISSOURI
item MOAK, P - UNIV OF MISSOURI
item SANCHEZ-VELLEDA, HECTOR - UNIV OF MISSOURI
item MUSKET, THERESA - UNIV OF MISSOURI
item CLOSE, PAM - UNIV OF MISSOURI
item KLEIN, PATRICIA - TEXAS A&M UNIVERSITY
item MULLET, JOHN - TEXAS A&M UNIVERSITY
item McMullen, Michael
item FANG, ZHIWEI - UNIV OF MISSOURI
item Schaeffer, Mary
item GARDINER, JACK - UNIV OF MISSOURI
item Coe Jr, Edward
item DAVIS, GEORGIA - UNIV OF MISSOURI

Submitted to: BMC Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 6/1/2006
Publication Date: 2/9/2007
Citation: Yim, Y., Moak, P., Sanchez-Velleda, H., Musket, T., Close, P., Klein, P., Mullet, J., Mcmullen, M.D., Fang, Z., Schaeffer, M.L., Gardiner, J.M., Coe Jr, E.H., Davis, G.L. 2007. A BAC pooling strategy combined with PCR-based screening in a large, highly repetitive genome enables integration of the maize genetic and physical maps. Biomed Central (BMC) Genomics. 8:47.

Interpretive Summary: An integrated genetic and physical map is a requirement for a genome sequencing project and is essential for map-based cloning of agronomically important genes. In corn, at the beginning of this project, there was a well developed genetic map and extensive physical map resources, but little integration between the two. With this project we developed an efficient method to connect the physical bacterial artificial chromosome (BAC) clones to the corn genetic map. This project greatly contributed to the current integrated corn map with more than 85% of the genome represented by genetically-anchored BAC clones. This result is being used by geneticists and agronomists to isolate corn genes of agronomic importance and the integrated map serves as the basis of the newly initiated corn genome sequencing project.

Technical Abstract: Molecular markers serve three important functions in physical map assembly. First, they provide anchor points to genetic maps facilitating functional genomic studies. Second, they reduce the overlap required for BAC contig assembly from 80 to 50 percent. Finally, they validate assemblies based solely on BAC fingerprints. We employed a six-dimensional BAC pooling strategy in combination with a high-throughput PCR-based screening method to anchor the maize genetic and physical maps.