Discovery of lifestyle-associated microbes, pathogens, and bacteriophages through deep metagenome sequencing of the gut microbiome
Abstract/Contents
- Abstract
- The human gut microbiome, or microbiota, consists of trillions of microbes. These bacteria, archaea, eukaryotes, and viruses influence each other and the human host. The gut microbiota responds to environmental pressures including diet and colonization by external microbes, and in turn, has a profound impact on human health and disease. Recent advances in cultivation of human gut microbes, high-throughput metagenome sequencing, and cloud computing, together with more than a decade of accumulated data have culminated in a watershed moment for the field with the publication of several large-scale human-associated prokaryote and viral reference databases. These reports also highlight a wealth of knowledge yet to be acquired from two sources harboring the most unexplored diversity: the gut microbiome of non-industrialized humans, and the global gut virome. This dissertation significantly expands our understanding of these communities through discovery of nearly 100,000 microbial genomes, integration with more than 1 million more, and profiling them in human gut metagenomes around the globe, revealing striking lifestyle-associated patterns. This work also includes two targeted studies which describe the utility of metagenomics to understand microbes associated with host disease and identify advantages of using in vitro cultivation to understanding complex host-bacteriophage relationships.
Description
| Type of resource | text |
|---|---|
| Form | electronic resource; remote; computer; online resource |
| Extent | 1 online resource. |
| Place | California |
| Place | [Stanford, California] |
| Publisher | [Stanford University] |
| Copyright date | 2022; ©2022 |
| Publication date | 2022; 2022 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Author | Merrill, Bryan Douglas |
|---|---|
| Degree supervisor | Sonnenburg, Justin, 1973- |
| Thesis advisor | Sonnenburg, Justin, 1973- |
| Thesis advisor | Bhatt, Ami (Ami Siddharth) |
| Thesis advisor | Fischbach, Michael |
| Thesis advisor | Huang, Kerwyn Casey, 1979- |
| Thesis advisor | Schneider, David (David Samuel) |
| Degree committee member | Bhatt, Ami (Ami Siddharth) |
| Degree committee member | Fischbach, Michael |
| Degree committee member | Huang, Kerwyn Casey, 1979- |
| Degree committee member | Schneider, David (David Samuel) |
| Associated with | Stanford University, Department of Microbiology and Immunology |
Subjects
| Genre | Theses |
|---|---|
| Genre | Text |
Bibliographic information
| Statement of responsibility | Bryan Douglas Merrill. |
|---|---|
| Note | Submitted to the Department of Microbiology and Immunology. |
| Thesis | Thesis Ph.D. Stanford University 2022. |
| Location | https://purl.stanford.edu/cs164jt8050 |
Access conditions
- Copyright
- © 2022 by Bryan Douglas Merrill
- License
- This work is licensed under a Creative Commons Attribution Non Commercial 3.0 Unported license (CC BY-NC).
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