The spatial transcriptomic landscape of the healing mouse intestine following damage.
IF: 17.694
Cited by: 26


The intestinal barrier is composed of a complex cell network defining highly compartmentalized and specialized structures. Here, we use spatial transcriptomics to define how the transcriptomic landscape is spatially organized in the steady state and healing murine colon. At steady state conditions, we demonstrate a previously unappreciated molecular regionalization of the colon, which dramatically changes during mucosal healing. Here, we identified spatially-organized transcriptional programs defining compartmentalized mucosal healing, and regions with dominant wired pathways. Furthermore, we showed that decreased p53 activation defined areas with increased presence of proliferating epithelial stem cells. Finally, we mapped transcriptomics modules associated with human diseases demonstrating the translational potential of our dataset. Overall, we provide a publicly available resource defining principles of transcriptomic regionalization of the colon during mucosal healing and a framework to develop and progress further hypotheses.


Spatial Transcriptomics

MeSH terms

Disease Models, Animal
Epithelial Cells
Intestinal Mucosa
Mice, Inbred C57BL
Mice, Neurologic Mutants
Signal Transduction
Wound Healing


Parigi, Sara M
Larsson, Ludvig
Das, Srustidhar
Ramirez Flores, Ricardo O
Frede, Annika
Tripathi, Kumar P
Diaz, Oscar E
Selin, Katja
Morales, Rodrigo A
Luo, Xinxin
Monasterio, Gustavo
Engblom, Camilla
Gagliani, Nicola
Saez-Rodriguez, Julio
Lundeberg, Joakim
Villablanca, Eduardo J

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