The Western Regional Small Grain Genotyping Laboratory is offering collaborative genotyping services to assist marker assisted selection efforts for wheat and barley cultivar development in Western region. The SSR markers and other user-friendly molecular markers were generated by both conventional and high-throughput methods to facilitate marker genotyping. Currently, the genotyping lab is able to provide services including genotyping of advance breeding lines; marker assisted selection of backcross populations; marker data for mapping populations; polymorphism assays of parental lines for mapping populations and DNA fingerprints for varieties differentiation. The marker types we are able to perform including SSRs, RAPDs, AFLPs, RFLPs, CAPs, RGAPs, TRAPs and isozymes. New genomic technologies with high throughput functions were adapted and used in genotyping lab research projects. Transcriptome of wheat genes associated with different gene expression (such as cold tolerance, salt tolerance and other environmental stress tolerances) is being studied with microarray technology. Current microarray analysis has compared 61,290 transcripts among wheat variety “Eltan”, Norstar” and “Oregon feed Wheat”. Approximately 13% of tested transcripts showed significant difference between “Eltan” and “Oregon feed Wheat”. Genes which are significantly different between the two varieties, including genes involved in cold tolerant developments are being analyzed further. Forty eight differentially expressed genes were selected for multiple array spotting. The development of new genomic technologies and marker genotype database are high priorities in coordination with the other three regional genotyping laboratories at Fargo ND, Manhattan KS, and Raleigh NC. Molecular marker genotyping will increasingly provide more efficient information to wheat and barley breeders so that marker-assisted selection can be used in breeding programs to more incorporate valuable traits. This will increase the efficiency of the breeding effort.