# Induced Pluripotent Stem Cells as a Tool to Decipher the Normal and Abnormal Development of the Esophagus and Trachea from Normal Morphogenesis to Esophageal Atresia, Tracheomalacia, and Laryngo–Tracheal Clefts

**Authors:** Yuxuan Zhang, Anu David, Alireza Nemati, Christophe Faure

PMC · DOI: 10.3390/cells15050448 · 2026-03-03

## TL;DR

This paper explores how induced pluripotent stem cells can help study the normal and abnormal development of the esophagus and trachea.

## Contribution

The paper reviews the use of iPSCs to model endoderm-mesoderm interactions in anterior foregut development.

## Key findings

- iPSCs can differentiate into epithelial and mesenchymal lineages to recapitulate foregut development stages.
- Dysregulation of signaling pathways like BMP and Wnt/β-catenin may cause congenital malformations.
- iPSCs offer a platform to study bidirectional communication between endoderm and mesoderm.

## Abstract

The development of the esophagus and trachea following the septation of the anterior foregut is a highly regulated process involving bidirectional communication between the endoderm and mesoderm. Signaling pathways such as the Bone Morphogenetic Protein family, Wnt/β-catenin, Sonic Hedgehog, and Fibroblast Growth Factor family mediate this complex crosstalk to induce the dorsal-ventral patterning of the anterior foregut as well as lineage specification. Even though the mechanisms are not fully understood, dysregulation of signaling pathways may lead to congenital malformations such as tracheomalacia, laryngeal–tracheal clefts and multiple types of esophageal atresia with/without tracheoesophageal fistula (EA/TEF). Human induced pluripotent stem cells (iPSCs) provide a robust in vitro platform to monitor the normal and abnormal development of esophagus and trachea and to understand the roles of the endoderm and mesoderm during anterior foregut development. Recent studies have demonstrated that direct differentiation of iPSCs into epithelial and mesenchymal lineages can recapitulate the key stages of foregut development. In this regard, in the current paper, we review the signaling pathways involved in the development of organs deriving from the anterior foregut as well as the roles of the endoderm and mesoderm revealed by previous studies. Furthermore, we discuss the use of iPSCs as a valuable model for investigating the bidirectional communications between the endoderm and mesoderm, which can broaden our knowledge and understanding of the critical mechanisms leading to normal and abnormal development of the esophagus and trachea.

## Linked entities

- **Diseases:** esophageal atresia (MONDO:0001044), tracheoesophageal fistula (MONDO:0008586)

## Full-text entities

- **Genes:** SHH (sonic hedgehog signaling molecule) [NCBI Gene 6469] {aka HHG1, HLP3, HPE3, MCOPCB5, SMMCI, ShhNC}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}
- **Diseases:** Esophageal Atresia (MESH:D004933), EA (MESH:C580065), tracheoesophageal fistula (MESH:D014138), congenital malformations (OMIM:163000), laryngeal-tracheal clefts (MESH:C537875), Tracheomalacia (MESH:D055090)
- **Species:** Homo sapiens (human, species) [taxon 9606]

## Figures

4 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12984425/full.md

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Source: https://tomesphere.com/paper/PMC12984425