Sample storage conditions induce post-collection biases in microbiome profiles.
BMC Microbiol
; 18(1): 227, 2018 12 27.
Article
in En
| MEDLINE
| ID: mdl-30591021
ABSTRACT
BACKGROUND:
Here we investigated the influence of different stabilization and storage strategies on the quality and composition of the fecal microbial community. Namely, same-day isolated murine DNA was compared to samples stored for 1 month in air at ambient temperature, with or without preservative buffers (i.e. EDTA and lysis buffer), different temperatures (i.e. 4 °C, - 20 °C, and - 80 °C), and hypoxic conditions.RESULTS:
Only storage in lysis buffer significantly reduced DNA content, yet without integrity loss. Storage in EDTA affected alpha diversity the most, which was also reflected in cluster separation. Distinct changes were also seen in the phyla and bacterial species abundance per storage strategy. Metabolic function analysis showed 22 pathways not significantly affected by storage conditions, whereas the tyrosine metabolism pathway was significantly changed in all strategies except by EDTA.CONCLUSION:
Each long-term storage strategy introduced a unique post-collection bias, which is important to take into account when interpreting data.Key words
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Preservation, Biological
/
Bacteria
/
Microbiota
Type of study:
Evaluation_studies
Limits:
Animals
Language:
En
Journal:
BMC Microbiol
Journal subject:
MICROBIOLOGIA
Year:
2018
Type:
Article
Affiliation country:
United States