16S and Sanger Sequencing, and Proteomics for "Establishment and characterization of stable, diverse, fecal-derived in vitro microbial communities that model the intestinal microbiota"
Abstract/Contents
- Abstract
- Efforts to probe the role of gut microbiota in disease would benefit from a system in which patient-derived bacterial communities can be studied at scale. We addressed this by validating a strategy to propagate phylogenetically complex, diverse, stable, and highly reproducible stool-derived communities in vitro. We generated hundreds of in vitro communities cultured from diverse stool samples in various media; certain media generally preserved inoculum composition, and inocula from different subjects yielded source-specific community compositions. Upon colonization of germ-free mice, community composition was maintained and host proteome resembled the host from which the community was derived. Treatment with ciprofloxacin in vivo increased susceptibility to Salmonella invasion in vitro and the in vitro response to ciprofloxacin was predictive of compositional changes observed in vivo, including the resilience and sensitivity of each Bacteroides species. These findings demonstrate that stool-derived in vitro communities can serve as a powerful system for microbiota research.
Description
| Type of resource | Dataset, text |
|---|---|
| Date created | [ca. 2020] |
| Date modified | December 5, 2022 |
| Publication date | November 23, 2021 |
Creators/Contributors
| Author | Aranda-Diaz, Andres |
https://orcid.org/0000-0002-0566-4901
(unverified)
|
|---|---|---|
| Author | Ng, Katharine | |
| Author | Thomsen, Tani | |
| Author | Real-Ramirez, Imperio | |
| Author | Dahan, Dylan | |
| Author | Dittmar, Susannah | |
| Author | Gutierrez Gonzalez, Carlos | |
| Author | Chavez, Taylor | |
| Author | Vasquez, Kimberly | |
| Author | Nguyen, Taylor | |
| Author | Yu, Feiqiao Brian | |
| Author | Higginbottom, Steven | |
| Author | Neff, Norma | |
| Author | Elias, Joshua | |
| Author | Sonnenburg, Justin | |
| Author | Huang, Kerwyn Casey |
Subjects
| Subject | gut microbiota |
|---|---|
| Genre | Data |
| Genre | Tabular data |
| Genre | Data |
| Genre | Data sets |
| Genre | Dataset |
| Genre | Tables (data) |
Bibliographic information
| Related item | |
|---|---|
| DOI | https://doi.org/10.25740/kx198qv1232 |
| Location | https://purl.stanford.edu/kx198qv1232 |
Access conditions
- Use and reproduction
- User agrees that, where applicable, content will not be used to identify or to otherwise infringe the privacy or confidentiality rights of individuals. Content distributed via the Stanford Digital Repository may be subject to additional license and use restrictions applied by the depositor.
- License
- This work is licensed under a Creative Commons Attribution 4.0 International license (CC BY).
Preferred citation
- Preferred citation
- Aranda-Diaz, A., Ng, K., Thomsen, T., Real-Ramirez, I., Dahan, D., Dittmar, S., Gutierrez Gonzalez, C., Chavez, T., Vasquez, K., Nguyen, T., Yu, F., Higginbottom, S., Neff, N., Elias, J., Sonnenburg, J., and Huang, K. (2021). 16S and Sanger Sequencing, and Proteomics for "Establishment and characterization of stable, diverse, fecal-derived in vitro microbial communities that model the intestinal microbiota". Stanford Digital Repository. Available at https://purl.stanford.edu/kx198qv1232
Collection
Stanford Research Data
View other items in this collection in SearchWorksContact information
- Contact
- kchuang@stanford.edu
Also listed in
Loading usage metrics...