"-Metametrix told me 6 months ago they are working on subtype identification."
Excellent!!
Here a 2011 paper
"Development of a new PCR protocol to detect and subtype Blastocystis spp. from humans and animals"
"Blastocystis has been found not only in humans but also in a wide range of animals, such as nonhuman primates, pigs, cattle, rodents, and birds (Abe 2004; Arisue et al. 2003; Navarro et al. 2008; Noel et al. 2005; Stensvold et al. 2009a). "