Quantitative image analysis reveals diet-driven changes in gut microbiota localization
Abstract/Contents
- Abstract
- The community of commensal bacteria, viruses and eukaryotic microorganisms within our gastrointestinal tract, the gut microbiota, is a fundamental part of our biology. Foundational work has demonstrated that these organisms are required for proper development of the immune, circulatory and central nervous systems; and changes in the membership of this community are associated with pathologies such as obesity, colorectal cancer, type 2 diabetes and inflammatory bowel diseases. Though much research has focused on community composition assessed by pyrosequencing, emerging evidence suggests that many of these disease states are also associated with changes in bacterial localization within the intestines. However, standardized imaging and quantitation methods have not been established yet in the field. The work in this dissertation develops and validates such methods, and applies them to determine the effects of a low fiber diet on spatial organization of the gut microbiota. Chapter 1 contains a literature review of existing tools to study the microbiota, with a focus on the advantages and limitations of different imaging strategies. Chapter 2 includes the histological, imaging, and computational methods developed to develop a high-resolution imaging and quantification pipeline, using gnotobiotic and humanized mice on a polysaccharide-deficient diet as a test case. Chapter 3 further develops the work from Chapter 2, with a focus on host response to a low fiber diet. Chapter 4 contains perspectives and future directions for the applications of imaging to the gut microbiota field.
Description
| Type of resource | text |
|---|---|
| Form | electronic; electronic resource; remote |
| Extent | 1 online resource. |
| Publication date | 2015 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Associated with | Earle, Kristen Anne |
|---|---|
| Associated with | Stanford University, Department of Microbiology and Immunology. |
| Primary advisor | Sonnenburg, Justin, 1973- |
| Thesis advisor | Sonnenburg, Justin, 1973- |
| Thesis advisor | Amieva, Manuel |
| Thesis advisor | Huang, Kerwyn Casey, 1979- |
| Thesis advisor | Schneider, David (David Samuel) |
| Advisor | Amieva, Manuel |
| Advisor | Huang, Kerwyn Casey, 1979- |
| Advisor | Schneider, David (David Samuel) |
Subjects
| Genre | Theses |
|---|
Bibliographic information
| Statement of responsibility | Kristen Anne Earle. |
|---|---|
| Note | Submitted to the Department of Microbiology and Immunology. |
| Thesis | Thesis (Ph.D.)--Stanford University, 2015. |
| Location | electronic resource |
Access conditions
- Copyright
- © 2015 by Kristen Anne Earle
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
Also listed in
Loading usage metrics...