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Microbiome-induced reprogramming in post-transcriptional landscape using nanopore direct RNA sequencing
Zihe Xu1, Xiaoqi Zheng1, Jiajun Fan2
1Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, Guangzhou 510530, China; School of Life Sciences, South China Normal University, Guangzhou 510631, China.
Cell Reports
|October 4, 2024
Summary
The microbiome globally influences host gene expression, impacting RNA modifications and transcript levels in the brain and cecum. This study reveals how microbes reprogram host gene expression through tissue-specific regulatory processes.
Area of Science:
- Microbiology
- Molecular Biology
- Genomics
Background:
- The microbiota significantly impacts host physiology and gene expression.
- Comprehensive studies detailing the host transcriptional landscape regulated by the microbiota are limited.
Purpose of the Study:
- To comprehensively examine the host mRNA landscape regulated by the microbiome in mouse brain and cecum tissues.
- To elucidate the impact of the microbiome on RNA modifications, isoform generation, poly(A) tail length, and transcript abundance.
Main Methods:
- Utilized nanopore direct RNA sequencing to analyze mRNA landscapes.
- Compared specific-pathogen-free and germ-free mice to assess microbiome influence.
- Investigated RNA modifications including m 6 A, m 5 C, and Ψ.
Main Results:
- The microbiome globally affects RNA modifications, isoform generation, poly(A) tail length, and transcript abundance in both brain and cecum.
- Microbiome-induced effects on post-transcriptional regulation are tissue-specific.
- The microbiome influences the coordination of multiple RNA modifications in host tissues.
Conclusions:
- Established a clear relationship between microbial regulation and host gene expression.
- Provided insights into the mechanisms by which the microbiome reprograms host gene expression.
- Highlighted the global and tissue-specific impact of the microbiome on the host transcriptional landscape.
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