2005 Annual Report 4d.Progress report. This report serves to document research conducted under a specific cooperative agreement between ARS and the Department of Agronomy, University of Nebraska, and is a subcontract derived from a grant from the United Soybean Board (Grant #5212) and supports the objectives of project 1275-21000-164-00D. Additional details of the research can be found in the reports for the parent project 1275-21000-164-00D (A Single Nucleotide Polymorphism-based Map of Soybean and Applications to Gene Discovery in Germplasm). This agreement was initiated in March of 2004. During the reporting period a total of 450 new single nucleotide polymorphism (SNP) DNA markers were mapped in the Minsoy x Noir 1 University of Utah mapping population and 154 SNPs were mapped in the University of Utah Minsoy x Archer mapping population at the University of Nebraska using the Luminex 100 flow cytometer. By the end of calendar year 2005 we anticipate having completed the mapping of and additional set of 200 SNP markers in the Evans x PI 209332 genetic mapping population. This will allow the first estimate of "gene space" in the soybean genome.