Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Abstract only
Publication Acceptance Date: 1/16/2003
Publication Date: 1/16/2003
Citation: Xu, Z., Yu, J., Covaleda, L., Lee, M., Dong, J., Ding, K., Kohel, R.J., Zhang, H. 2003. Toward an integrated physical and genetic map of the cotton genome: BAC fingerprinting and physical map construction [abstract]. Plant and Animal Genome XI Conference. Paper No. P689. Interpretive Summary:
Technical Abstract: We are developing an integrated physical/genetic map of the cultivated allotetraploid cotton (AD genome) using three large-insert BAC and BIBAC libraries that were constructed from the genetic standard line TM-1. We have investigated all fingerprinting methods both previously developed and used in the physical map development of Arabidopsis, rice, human, mouse, soybean and chicken, and newly developed in our laboratory. The results showed that an automated procedure combined with a BAC fingerprinting kit containing three different restriction enzymes, recently developed in our laboratory, allowed generation of the largest and most accurate physical map contigs with the highest throughput from large-insert BAC libraries. The results also showed that the techniques and strategies that we developed enable us to develop a robust physical map of the allotetraploid cotton. Therefore, we are working toward a whole-genome physical map of the cultivated allotetraploid cotton using the automated procedure. Since approximately 2,000 BACs could be fingerprinted and analyzed daily by use of this procedure, the clones (ca. 150,000) covering 10 x cotton AD genomes can be fingerprinted and assembled into contigs within a few months. These clones are sufficient to construct a whole-genome physical map of the cotton AD genome by use of our advanced computer programs. So far 30,000 clones from the TM-1 libraries have been fingerprinted, analyzed, and assembled into contigs. The results show that clones from subgenomes A and D can be assembled into separate contigs, which is essential in physical mapping of the allotetraploid cotton.