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United States Department of Agriculture

Agricultural Research Service

Title: Characterization of Three Maize Bac Libraries and Anchoring of the Physical Map to the Genetic Map Using High-Density Bac Filter Hybridization

Authors
item Yim, Y - UNIV OF MISSOURI
item Davis, G - UNIV OF MISSOURI
item Duru, N - UNIV OF MISSOURI
item Musket, T - UNIV OF MISSOURI
item Linton, E - RUTGERS UNIVERSITY
item Messing, J - RUTGERS UNIVERSITY
item McMullen, Michael
item Soderlund, C - UNIV OF ARIZONA
item Schaeffer, Mary
item Gardiner, J - UNIV OF MISSOURI
item Coe Jr, Edward

Submitted to: Plant Physiology
Publication Type: Review Article
Publication Acceptance Date: October 7, 2002
Publication Date: December 15, 2002
Citation: YIM, Y.S., DAVIS, G.Y., DURU, N., MUSKET, T., LINTON, E.W., MESSING, J.W., MCMULLEN, M.D., SODERLUND, C., POLACCO, M.L., GARDINER, J.M., COE JR, E.H. CHARACTERIZATION OF THREE MAIZE BAC LIBRARIES AND ANCHORING OF THE PHYSICAL MAP TO THE GENETIC MAP USING HIGH-DENSITY BAC FILTER HYBRIDIZATION. PLANT PHYSIOLOGY. 2002. v. 130. p. 1686-1696.

Interpretive Summary: Crop plant research is poised to make revolutionary strides including: cloning target genes based on their function and/or their position in the genome; documenting all genes and their interplay; defining and exploring all the existing genetic diversity in a species; and using functional information and syntenic relationships of genes in closely related species to extrapolate gene function in crop plants. The challenge, however, is to develop a set of comprehensive and systematic resources to facilitate these research endeavors. Genomic resources in maize will undergird sequencing of the maize genome, and will complement and contribute to research in the cereals, other grasses, and other crop plants. This paper reports on the process of preparation of comprehensive and systematic genome resources for maize. Information from this study will be important to cereal grains research workers in advancing their efforts to use knowledge from genomics in maize improvement and to understand how to use knowledge from each of the cereals in improvement of each, by identification of gene functions comprehensively and by comparative genetic and physical mapping.

Technical Abstract: Three maize (Zea mays L.) bacterial artificial chromosome (BAC) libraries, HindIII, EcoRI and MboI, were constructed from inbred line B73 to minimize under-representation of certain genomic regions caused by the use of a single restriction enzyme library. High-density filter sets from all three libraries were evaluated with a set of complex probes including the185bp knob repeat, ribosomal DNA, two telomere-associated repeat sequences, four centromere repeats, the mitochondrial genome, a multifragment chloroplast DNA probe, and bacteriophage lambda. The results indicate that the libraries are of high quality with low contamination by organellar and lambda sequences. The data indicate that the use of libraries from multiple enzymes increases the chance of recovering each region of the genome. A second set of probes representing 90 maize RFLP core markers were hybridized to filters of the HindIII library, representing 6X coverage of the genome, to provide a framework for anchoring BAC contigs to the Intermated B73/Mo17 (IBM) genetic map and to mark the bin boundaries on the physical map. All of the clones used as hybridization probes detected at least three BACs. Twenty-two single-copy core markers identified an average of 7.4 +/- 3.3 positive clones, consistent with the expectation of six clones. This information is integrated into fingerprinting data generated by the Arizona Genomics Institute to assemble the BAC contigs using fingerprinted contig (FPC) software, and contributes in the process of physical map construction.

Last Modified: 12/18/2014
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