Variations in Gut Microbiome Profiles Based on Different DNA Extraction Methods: A Comparative Study

Table 1

The brief protocol of each commercial kit used in this study.

Protocol	CTAB	QIA	TIAN	MAGEN
Full name of method/kit	Cetyltrimethylammonium bromide method	QIAamp® Fast DNA Stool Mini Kit	TIANamp® Stool DNA Kit	MAGEN® HiPure Stool DNA Mini Kit
Manufacturer details	—	Qiagen, Valencia, CA, USA	TIANGEN, Beijing, China	MAGEN, Guangzhou, China
Lysis method	Beads	Lysis solution	Beads	Beads
	Lysis solution	Heat	Lysis solution	Lysis solution
	Heat		Heat	Heat
Bead size	3 mm	—	1 mm	0.1-0.6 mm
Proteinase K	0.5-1%	4-7.5%	2.5%	2%
Heating time	70°C, 30 min	70°C, 5 min/70°C, 10 min	70°C, 15 min	65°C, 15 min/70°C, 10 min
RNase	6%	—	2%	1%
DNA capture	Phenol-chloroform extraction, isopropanol precipitation	Silica membrane	Silica membrane	Glass fiber filter membrane
Elution buffer	Buffer TE	Buffer ATE	Buffer TB	Buffer AE