There has been a large and rapid accumulation of genomics tools in wheat during the last decade, which has seen the development of both genetic and physical maps, as well as large amounts of EST sequence information. These developments have been coupled with the emergence of high throughput technologies and new biometric tools, which have allowed advances in molecular marker technology and implementation. Wheat breeders now have powerful tools with which to select traits that are difficult to improve by conventional means (e.g. laborious field scorings, low heritability, destructive or expensive assays). DNA markers have had a major impact on the identification, introgression and combination of agronomic traits controlled by major genes, but have had little impact on the selection of quantitative trait loci (QTL). Implementation of these DNA based technologies in conventional breeding programs through Marker Assisted Selection (MAS) is now gaining considerable importance as the unit cost per assay decreases. This report will present an overview of the possible marker applications within wheat breeding programs and some considerations about their future expansion.