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ARS Home » Plains Area » College Station, Texas » Southern Plains Agricultural Research Center » Crop Germplasm Research » Research » Publications at this Location » Publication #168814
Title: INTEGRATED PHYSICAL MAPPING OF THE COTTON GENOME

Author
item Yu, John
item Kohel, Russell
item ZHANG, H. - TEXAS A&M UNIVERSITY
item XU, Z - TEXAS A&M UNIVERSITY
item DONG, J - TEXAS A&M UNIVERSITY

Submitted to: International Cotton Genome Initiative Workshop
Publication Type: Abstract Only
Publication Acceptance Date: 9/10/2004
Publication Date: 10/10/2004
Citation: Yu, J., Kohel, R.J., Zhang, H.B., Xu, Z., Dong, J. 2004. Integrated physical mapping of the cotton genome [abstract]. International Cotton Genome Initiative Workshop. p. 24.

Interpretive Summary:

Technical Abstract: Although cotton (Gossypium spp.) has large collections of germplasms, productivity potential of this important crop seems to reach its plateau and continued genetic improvements appear to be difficult. The problem is in part due to the shortage of effective tools to facilitate gene hunting in the cotton germplasm and to transfer useful genes into elite cotton cultivars. Integrated physical maps and other genomic tools will provide new public research resources for continued cotton genetic improvement. We are developing an integrated physical map for the Upland cotton (G. hirsutum) by use of its genetic standard (acc. TM-1). The physical map consists of 5,466 contigs assembled from 101,376 TM-1 BAC and BIBAC clones, 675 fiber EST clones anchored to the BAC contigs, and nearly 1,000 SSR markers isolated from the BACs. BAC-derived SSRs will enable integration of cotton physical and genetic maps, and locating mapped genes and QTLs to BACs, BIBACs and/or their contigs for detailed analysis. We are also leveraging cotton genomic resources with the model plant Arabidopsis that has the closest relationship among the flowering plants. DNA sequences of BAC ends of TM-1 physical contigs were determined and high levels of synteny between cotton and Arabidopsis were observed upon sequence alignment and mapping analyses. Single- or low-copy numbers in cotton counterparts indicated potential cross-utilization of genomic information between the two species. An integrated physical map of the cultivated tetraploid cotton and genomic resources derived from other plant species will not only facilitate the continued genetic improvement in cotton, but it will also lay a foundation for basic genomic research on other polyploid crops.