Table 1. Cell lysis conditions applied to obtain maximum DNA for the next-generation sequencing of the microbial community in the various segments of the GI tract.
| GI tractsegment | Lysozyme1[µl] | 10% CTAB2[µl] | genomic CTABlysis buffer3 [µl] | Qiagenbuffer4 [µl] | Zymobuffer5 [µl] | Heat/Beaddisruption | |
| Duodenum | A | – | 50 | – | – | 150 | Heat |
| B | 50 | – | – | 150 | – | Heat | |
| C | 50 | – | 150 | – | – | Heat | |
| Ileum | A | - | 50 | – | – | 250 | Heat |
| B | 50 | – | – | 250 | – | Heat | |
| C | 50 | – | 250 | – | – | Heat | |
| Colon | A | - | 100 | – | 100 | 550 | Bead |
| B | 250 | 100 | – | 100 | 300 | Bead | |
| C | 250 | – | 300 | 200 | – | Bead |
1
100 mg/ml (Applycehm). 2Cetyltrimethylammonium bromide (w/v). 31 M Tris-HCl 100 ml, 500 mM EDTA 50 ml, 5 M NaCl 300 ml, 10% CTAB, 20% SDS, pH = 829. 4ASL buffer from Qiagen QIAamp DNA Stool miniprep kit (Qiagen, 51504). 5From Zymo Research Fecal DNA kit (Zymo Research, D6010).