EGMRG

EGMRG maps tissue-specific host transcriptional responses to gut microbiota across the duodenum, jejunum, ileum and colon to enable identification of microbiota-regulated genes, MyD88-dependent effects, and microbial ecology patterns.

Key Features:

• Tissue-Specific Analysis: Provides RNA sequencing transcriptional profiles for the duodenum, jejunum, ileum and colon.
• Comparative Studies: Enables comparisons between germ-free and conventionally raised mice and between wild-type and Myd88-/- (MyD88 deficient) models to identify microbiota effects and signaling dependencies.
• Microbial Ecology Assessment: Integrates bacterial diversity data obtained by 454-based pyrosequencing and viral population data obtained by PCR.
• Identification of Key Genes: Highlights microbiota-influenced genes such as antimicrobial Reg3β and Reg3γ in the colon and antiviral-response genes upregulated in Myd88-/- mice associated with norovirus infection.
• Role of MyD88 Signaling: Documents that many microbiota-regulated genes are MyD88-independent while specific antimicrobial gene expression and small-intestine microbial diversity depend on MyD88 signaling.
• Transcriptional Profiling (RNA-seq): Uses RNA sequencing to generate transcriptional profiles across gut segments and models.

Scientific Applications:

• Understanding Host Physiology: Maps microbiota-induced transcriptional changes to elucidate how gut microbes influence host physiology across different gut regions.
• Investigating Immune Responses: Provides data to dissect immune mechanisms modulated by microbiota through MyD88-dependent and MyD88-independent pathways.
• Exploring Microbial Ecology: Enables study of shifts in bacterial diversity and viral populations associated with genetic modifications or environmental changes.

Methodology:

Transcriptional profiling using RNA sequencing of duodenum, jejunum, ileum and colon from germ-free, conventionally raised, wild-type and Myd88-/- mice; 454-based pyrosequencing to assess bacterial diversity; PCR to analyze viral populations; and comparative analyses between germ-free vs conventionally raised and wild-type vs Myd88-/- models to identify microbiota-regulated genes and MyD88 dependencies.