The Affymetrix GeneChip® Canine Genome 2.0 microarray is re-annotated using AgBase tools, up-to-date ID mapping and GO annotations associated with publicly available gene products updated on this array. This re-annotation makes the array more useful for researchers using the canine microarray for biological discovery. We use flow cytometry to determine if liposomal clodronate (LC) is an acceptable alternative to surgical splenectomy to facilitate detection of subclinical infection with Babesia canis in potential blood donor greyhounds. Our study shows that LC is not a reliable means of exposing babesiosis in greyhounds with a recent history of infection. We evaluate the effect of depletion of antigen presenting cells on regulatory T cells (Tregs) in dogs treated with LC by multi-color flow cytometry. We demonstrate that LC promotes increases in the CD4+CD25+FOXP3+ Tregs affecting mostly the CD4+CD25lowFOXP3+ Tregs subset suggesting a role of monocytes in naïve T cell priming and differentiation into Tregs.