PAG-IX: A BAC/BIBAC-BASED PHYSICAL MAP OF ARABIDOPSIS THALIANA: A PLATFORM FOR LARGE-SCALE FUNCTIONAL ANALYSIS OF THE GENOME SEQUENCE

PAG-IX   Plant & Animal Genome IX Conference

Town & Country Hotel, San Diego, CA, January 13-17, 2001.

Poster: Large Insert Libraries, Gene Isolation, Etc.
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A BAC/BIBAC-BASED PHYSICAL MAP OF ARABIDOPSIS THALIANA: A PLATFORM FOR LARGE-SCALE FUNCTIONAL ANALYSIS OF THE GENOME SEQUENCE

Yueh-Long Chang1, Quanzhou Tao1, Chantel Schuering1, Khalid Meksem2, HONG-BIN ZHANG1

1 Department of Soil and Crop Sciences and Crop Biotechnology Center, 2123 TAMUS, Texas A&M University, College Station, Texas 77843-2123, USA
2 Department of Plant Soil and General Agriculture, Southern Illinois University at Carbondale, Carbondale, IL 62901-4415

We have developed a genome-wide physical map of Arabidopsis thaliana Ecotype Columbia from 9,389(8.0 x) BACs and BIBACs using the DNA sequence electrophoresis-based restriction fingerprinting method. Of these clones, 43% are the TAMU and IGF BACs that are used in the international Arabidopsis genome sequencing, and 57% are BIBACs that are plant transformation-competent. Therefore, the map is integrated with the Arabidopsis genome sequence, and has provided a platform for large-scale functional analysis of the genome sequence by genetic transformation and tools to fill in the existing gaps of the Arabidopsis genome sequence. The map consists of 194 BAC/BIBAC contigs and spans 126 Mb in length, estimated to be about 97% of the Arabidopsis genome (130 Mb). Studies indicated that the contigs of the map are almost completely consistent with those that are sequenced by the international Arabidospsis genome sequencing consortium and the Arabidopsis IGF map in terms of the content and order of clones in the contigs. We also mapped 77 DNA markers and 9 genes that were previously located to the genetic map. All positive clones of each marker or gene were found to be members of a single contig. These results have further demonstrated the BAC/BIBAC-based physical map developed by this method is accurate and reliable. Furthermore, we have located 120 of the 194 contigs on the five chromosomes of Arabidopsis. Additionally, preliminary studies showed that about 2/3 of the existing gaps of the Arabidopsis genome sequence could be filled with the BAC/BIBAC contigs of the map.

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