I'm starting a new project where I am looking at yeast communities from an isolated source. I want to know what species are in the community and if possible in what quantities. I was thinking TRFLP would be the best option but DGGE was suggested. There are like 10 different types of PCR analysis out there and I don't have enough expertise to know which one would be the best. If it helps I am planning on using universal yeast primers targeting the D1/D2 domain and the ITS1 and ITS2 regions.