1. Effect of protocol modifications.
Effect of protocol modifications. (A) Pig feces was extracted using standard as well as modified protocols based on the QIAamp DNA stool minikit and QIAamp Fast DNA stool minikit. The modifications included bead beating, pretreatment of the sample, and transfer of the double amount of volume after cell lysis. In the bead beating step, different bead types were examined (for details, see Materials and Methods; Table 1). The alpha diversity (Chao 1 and Shannon index) was determined at OTU level, and the microbial community composition was examined at family level based on 16S rRNA gene profiling. (B) Selected standard and modified DNA extraction protocols were employed to extract DNA from human feces, pig feces, and sewage, and their DNA concentration was displayed in a star plot. The values indicate the averages from duplicate extractions.
Berith E. Knudsen et al. mSystems 2016; doi: /mSystems