No retraction, correction or concern found when last checked on Nov 1, 2026.

Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s Disease

Rasa Elmentaite, Alexander D.B. Ross, Kenny Roberts and 11 more

Developmental Cell · 2020 · CC BY

doi:10.1101/2020.02.06.937110

Abstract

Human gut development requires the orchestrated interaction of differentiating cell types. Here, we generate an in-depth single-cell map of the developing human intestine at 6-10 weeks post-conception. Our analysis reveals the transcriptional profile of cycling epithelial precursor cells; distinct from LGR5-expressing cells. We propose that these cells may contribute to differentiated cell subsets via the generation of LGR5-expressing stem cells and receive signals from surrounding mesenchymal cells. Furthermore, we draw parallels between the transcriptomes of ex vivo tissues and in vitro fetal organoids, revealing the maturation of organoid cultures in a dish. Lastly, we compare scRNA-seq profiles from pediatric Crohn's disease epithelium alongside matched healthy controls to reveal disease-associated changes in the epithelial composition. Contrasting these with the fetal profiles reveals the re-activation of fetal transcription factors in Crohn's disease. Our study provides a resource available at www.gutcellatlas.org, and underscores the importance of unraveling fetal development in understanding disease.

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Cited by papers we hold 8

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Evidence of pyroptosis and ferroptosis extensively involved in autoimmune diseases at the single-cell transcriptome level · 2022
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Identification, discrimination and heterogeneity of fibroblasts · 2022
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A spatially resolved atlas of the human lung characterizes a gland-associated immune niche · 2022
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Mapping the developing human immune system across organs · 2022
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Single-cell roadmap of human gonadal development · 2022
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Spatiotemporal analysis of human intestinal development at single-cell resolution · 2021
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Cells of the human intestinal tract mapped across space and time · 2021
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