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Changes in Microbiota Profiles After Prolonged Frozen Storage of Stool Suspensions.


ABSTRACT: Introduction: Fecal microbiota transplantation (FMT) is recommended as safe and effective treatment for recurrent Clostridioides difficile infections. Freezing the FMT preparation simplifies the process, allowing a single stool sample to be used for multiple receivers and over an extended period of time. We aimed to assess the effect of long-term frozen storage on bacterial taxonomic profiles of a stool suspension prepared for FMT. Methods: DNA was extracted from a stool suspension before freezing and sequentially during the 18-month storage period at -80°C. Two different protocols were used for DNA extraction. The first relied on a classical mechanical and chemical cell disruption to extract both intra- and extracellular DNA; the second included specific pre-treatments aimed at removing free DNA and DNA from human and damaged bacterial cells. Taxonomic profiling of bacterial communities was performed by sequencing of V3-V4 16S rRNA gene amplicons. Results: Microbiota profiles obtained by whole DNA extraction procedure remained relatively stable during frozen storage. When DNA extraction procedure included specific pre-treatments, microbiota similarity between fresh and frozen samples progressively decreased with longer frozen storage times; notably, the abundance of Bacteroidetes decreased in a storage duration-dependent manner. The abundance of Firmicutes, the main butyrate producers in the colon, were not much affected by frozen storage for up to 1 year. Conclusion: Our data show that metataxonomic analysis of frozen stool suspensions subjected to specific pre-treatments prior to DNA extractions might provide an interesting indication of bacterial resistance to stress conditions and thus of chances of survival in FMT recipients.

SUBMITTER: Dorsaz S 

PROVIDER: S-EPMC7058979 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Changes in Microbiota Profiles After Prolonged Frozen Storage of Stool Suspensions.

Dorsaz Stéphane S   Charretier Yannick Y   Girard Myriam M   Gaïa Nadia N   Leo Stefano S   Schrenzel Jacques J   Harbarth Stephan S   Huttner Benedikt B   Lazarevic Vladimir V  

Frontiers in cellular and infection microbiology 20200228


<b>Introduction:</b> Fecal microbiota transplantation (FMT) is recommended as safe and effective treatment for recurrent <i>Clostridioides difficile</i> infections. Freezing the FMT preparation simplifies the process, allowing a single stool sample to be used for multiple receivers and over an extended period of time. We aimed to assess the effect of long-term frozen storage on bacterial taxonomic profiles of a stool suspension prepared for FMT. <b>Methods:</b> DNA was extracted from a stool sus  ...[more]

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