# Spatially resolved single-cell transcriptome analysis of murine Salmonella infection reveals the role of distal colonocytes in the inflammatory response

## TL;DR

This study uses advanced sequencing to map how different parts of the mouse intestine respond to Salmonella infection, highlighting the role of distal colon cells in triggering inflammation.

## Contribution

The study reveals the spatiotemporal transcriptomic landscape of Salmonella-induced intestinal inflammation and identifies distal colonocytes as key responders.

## Key findings

- Distal colonocytes are the most responsive epithelial cells during the early stages of Salmonella infection.
- A human colonocyte population with similarities to murine distal colonocytes was identified using single-cell transcriptome data.
- The research provides insights into compartmentalized immune responses in the intestine during infection.

## Abstract

The intestine is a highly compartmentalized organ, with distinct segments exhibiting both varying susceptibilities and responses to enteric pathogens, although the cellular and molecular bases of these responses remain elusive. Here, we used Salmonella Typhimurium (S. Tm), a prominent enteric pathogen that causes human colitis, to establish a murine model of Salmonella enterocolitis. By integrating bulk RNA-seq, single-cell RNA-seq, and spatial RNA-seq data, we present a comprehensive spatiotemporal single-cell transcriptomic landscape of the colon over a week-long time course of infection. We identified the distal colon as the intestinal segment where most of the host responses were initiated, with distal colonocytes (DCCs) being the most responsive epithelial cells upon the onset of infection. Furthermore, by correlating our findings with human intestinal single-cell transcriptome data, we identified a human colonocyte population that shares many characteristics with murine DCCs. Our study advances the understanding of the cellular and molecular basis of compartmentalized intestinal responses to pathogenic insults and may pave the way for novel preventive and therapeutic strategies to mitigate intestinal damage and combat intestinal infections.