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Stem cell niche in development and disease

Meryem Baghdadi
Team description

Our team is interested in the intestinal stem cell niche regulation in development, regeneration and pediatric pathologies. We use multi-disciplinary approaches such as organoids, microfabrication, genetically modified mice, and single cell multi-omics to study how stem cells interact with their microenvironment. 

Tissue turnover and regeneration are orchestrated by stem cells that both differentiate and self-renew. The balance between self-renewal, proliferation, and commitment depends on the stem cell microenvironment, or “niche”. Importantly, stem cells are not simply passive responders to their niches; instead, they play an integral role in building and communicating with their immediate microenvironment. The intestine constitutes an excellent paradigm to study stem cell biology as it withstands continuous renewal and has a striking ability to regenerate upon acute and chronic injuries. Although multiple studies have described the molecular and cellular composition of the niche to date, it is still unclear if and how the mechanical properties of the microenvironment regulate stem cell emergence and maintenance. 

  1. Understand stem cell-mechanical niche interactions in development
  2. Study stem cell microenvironment in pediatric diseases 
  3. Unravel the mechano-sensing mechanisms involved in stem cell fate decisions
Key publications
Baghdadi MB, Houtekamer RM, Perrin L, Rao-Bhatia A, Whelen M, Decker L, Bergert M, Pérez-Gonzàlez C, Bouras R, Gropplero G, Loe AKH, Afkhami-Poostchi A, Chen X, Huang X, Descroix S, Wrana JL, Diz-Muñoz A, Gloerich M, Ayyaz A, Matic Vignjevic D, Kim TH. PIEZO-dependent mechanosensing is essential for intestinal stem cell fate decision and maintenance. Science. 2024; Nov 29;386(6725):eadj7615. Epub 2024 Nov 29. doi: 10.1126/science.adj7615. PMID: 39607940 .
Baghdadi MB, Ayyaz A, Coquenlorge S, Chu B, Kumar S, Streutker C, Wrana JL, Kim TH. Enteric glial cell heterogeneity regulates intestinal stem cell niches. Cell Stem Cell. 2022; Jan 6;29(1):86-100.e6. Epub 2021 Nov 1. doi: 10.1016/j.stem.2021.10.004. PMID: 34727519 .
Baghdadi MB, Kim TH. Analysis of mouse intestinal organoid culture with conditioned media isolated from mucosal enteric glial cells. STAR Protoc. 2022; Apr 28;3(2):101351. doi: 10.1016/j.xpro.2022.101351. PMID: 35516847 ; PMCID: PMC9062428.
Baghdadi MB, Castel D, Machado L, Fukada SI, Birk DE, Relaix F, Tajbakhsh S, Mourikis P. Reciprocal signalling by Notch-Collagen V-CALCR retains muscle stem cells in their niche. Nature. 2018; May;557(7707):714-718. Epub 2018 May 23. doi: 10.1038/s41586-018-0144-9. PMID: 29795344 ; PMCID: PMC5985950.
Baghdadi MB, Firmino J, Soni K, Evano B, Di Girolamo D, Mourikis P, Castel D, Tajbakhsh S. Notch-Induced miR-708 Antagonizes Satellite Cell Migration and Maintains Quiescence. Cell Stem Cell. 2018; Dec 6;23(6):859-868.e5. Epub 2018 Nov 8. doi: 10.1016/j.stem.2018.09.017. PMID: 30416072 .
Castel D, Baghdadi MB, Mella S, Gayraud-Morel B, Marty V, Cavaillé J, Antoniewski C, Tajbakhsh S. Small-RNA sequencing identifies dynamic microRNA deregulation during skeletal muscle lineage progression. Sci Rep. 2018; Mar 9;8(1):4208. doi: 10.1038/s41598-018-21991-w. PMID: 29523801 ; PMCID: PMC5844870.
Funding and grants