Methodological Considerations for Diet, Host, and Microbiome Sequencing from Ungulate Feces
Here, we developed and compared methods to extract and sequence diet, host, and microbiome DNA from ungulate fecal samples stored for less than 2 years, and up to 16 years of time. We compared three common commercial DNA extraction kits utilized in eDNA studies, three plant- and two microbiome primer pairs. Host DNA quality was assessed with microsatellite and mitochondrial sequencing techniques.