SEQUENCING OF CULTIVATED COTTON GENOME, GOSSYPIUM HIRSUTUM
Crop Germplasm Research
2009 Annual Report
1a.Objectives (from AD-416)
The objective of this cooperative research project is to advance cotton genomics by developing the resources for the genome sequence of the Upland cotton (Gossypium hirsutum) genetic standard, TM-1.
1b.Approach (from AD-416)
Large DNA-insert BAC libraries of the highly inbred genetic standard, TM-1, will be constructed and assembled into contigs to create a physical map. Minimum tiling path (MTP) BAC clones from selected contigs will be sequenced, and the assembled and annotated data will provide the complete cotton genome sequence with the gene content and distribution.
The goal of this project is to develop resources for genome sequencing of the Gossypium hirsutum cotton standard, TM-1, and to sequence selected chromosomes of this genetic standard. The work involves application of appropriate biology techniques in construction of large-insert bacterial artificial chromosome (BAC) libraries that will be used in development of a physical map. In FY 2009, over 360 BACs that were created from two chromosomes were sequenced. The BACs, containing fragments or portions of the two chromosomes, were assembled into 146 larger contiguous sequences (contigs). Detailed analyses of the sequences of the two chromosomes will reveal useful information on the evolution of cotton and on gene function. As this project progresses, it will provide foundational data and direction to ongoing efforts to sequence all the chromosomes of the cotton genome. Exploitation of the knowledge gained through detailed sequencing and definition of the cotton genome will greatly facilitate development of new, more productive and environmentally adapted cotton varieties for use by U.S. cotton farmers. All information developed from this project will be made publicly available to other researchers to guide their work. The ADODR monitors the cooperator's performance by frequent e-mail communications, periodic telephone conversations, and through monitoring and analysis of shared data. More intensive interactions with the cooperator occur, usually on an annual basis, via face-to-face interactions that include appropriate discussions of work progress, problems, and priorities.