Organoid models: assessing lung cell fate decisions and disease responses

Lung organoids: advances in generation and 3D-visualization

(2021) Brian Cunniff et al.   HISTOCHEMISTRY AND CELL BIOLOGY

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

(2021) Ryan M. Hekman et al.   MOLECULAR CELL

Directed induction of alveolar type I cells derived from pluripotent stem cells via Wnt signaling inhibition

(2021) Shuhei Kanagaki et al.   STEM CELLS

Stromal–immune cell crosstalk fundamentally alters the lung microenvironment following tissue insult

(2021) Julie C. Worrell et al.   IMMUNOLOGY

Cellular and functional heterogeneity of the airway epithelium

(2021) Jordan D. Davis et al.   Mucosal Immunology

Genomic, epigenomic, and biophysical cues controlling the emergence of the lung alveolus

(2021) Jarod A. Zepp et al.   SCIENCE

Lung organoids, useful tools for investigating epithelial repair after lung injury

(2021) Jing Kong et al.   Stem Cell Research & Therapy

IGF1R controls mechanosignaling in myofibroblasts required for pulmonary alveologenesis

(2021) Hua He et al.   JCI Insight

Age-dependent alveolar epithelial plasticity orchestrates lung homeostasis and regeneration

(2021) Ian J. Penkala et al.   Cell Stem Cell

The biomechanical basis of biased epithelial tube elongation in lung and kidney development

(2021) Lisa Conrad et al.   DEVELOPMENT

Organoids, Where We Stand and Where We Go

(2021) Flaminia Kaluthantrige Don et al.   TRENDS IN MOLECULAR MEDICINE

Direct Derivation of Human Alveolospheres for SARS-CoV-2 Infection Modeling and Drug Screening

(2021) Toshiki Ebisudani et al.   Cell Reports

Alveolar epithelial cell fate is maintained in a spatially restricted manner to promote lung regeneration after acute injury

(2021) Derek C. Liberti et al.   Cell Reports

Airway basal stem cells reutilize the embryonic proliferation regulator, Tgfβ-Id2 axis, for tissue regeneration

(2021) Hirofumi Kiyokawa et al.   DEVELOPMENTAL CELL

The role of physical cues in the development of stem cell-derived organoids

(2021) Ilaria Tortorella et al.   EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS

Studying SARS-CoV-2 infectivity and therapeutic responses with complex organoids

(2021) Kevin G. Chen et al.   NATURE CELL BIOLOGY

Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics

(2021) Sophia K. Longo et al.   NATURE REVIEWS GENETICS

Morphological cell profiling of SARS-CoV-2 infection identifies drug repurposing candidates for COVID-19

(2021) Carmen Mirabelli et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity

(2021) Linh T. Bui et al.   Nature Communications

Patient-specific iPSCs carrying an SFTPC mutation reveal the intrinsic alveolar epithelial dysfunction at the inception of interstitial lung disease

(2021) Konstantinos-Dionysios Alysandratos et al.   Cell Reports

Wnt signaling in lung development, regeneration, and disease progression

(2021) Cody J. Aros et al.   Communications Biology

Evaluating CRISPR-based prime editing for cancer modeling and CFTR repair in organoids

(2021) Maarten H Geurts et al.   Life Science Alliance

Human lung organoids develop into adult airway-like structures directed by physico-chemical biomaterial properties

(2020) Briana R. Dye et al.   BIOMATERIALS

Distinct Airway Epithelial Stem Cells Hide among Club Cells but Mobilize to Promote Alveolar Regeneration

(2020) Jaymin J. Kathiriya et al.   Cell Stem Cell

In Vitro and In Vivo Development of the Human Airway at Single-Cell Resolution

(2020) Alyssa J. Miller et al.   DEVELOPMENTAL CELL

The in vivo genetic program of murine primordial lung epithelial progenitors

(2020) Laertis Ikonomou et al.   Nature Communications

Retinoic Acid: A Key Regulator of Lung Development

(2020) Hugo Fernandes-Silva et al.   Biomolecules

Assessing Human Airway Epithelial Progenitor Cells for Cystic Fibrosis Cell Therapy

(2020) Rhianna E. Lee et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Spatially Resolved Transcriptomes—Next Generation Tools for Tissue Exploration

(2020) Michaela Asp et al.   BIOESSAYS

The Cellular and Physiological Basis for Lung Repair and Regeneration: Past, Present, and Future

(2020) Maria C. Basil et al.   Cell Stem Cell

Myofibroblast contraction is essential for generating and regenerating the gas-exchange surface

(2020) Rongbo Li et al.   JOURNAL OF CLINICAL INVESTIGATION

Platform Effects on Regeneration by Pulmonary Basal Cells as Evaluated by Single-Cell RNA Sequencing

(2020) Allison M. Greaney et al.   Cell Reports

Alveolar wars: The rise of in vitro models to understand human lung alveolar maintenance, regeneration, and disease

(2020) Kelly V. Evans et al.   Stem Cells Translational Medicine

Organoids as a Powerful Model for Respiratory Diseases

(2020) Yu Li et al.   Stem Cells International

Inflammatory Signals Induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration

(2020) Jinwook Choi et al.   Cell Stem Cell

Persistence of a regeneration-associated, transitional alveolar epithelial cell state in pulmonary fibrosis

(2020) Yoshihiko Kobayashi et al.   NATURE CELL BIOLOGY

Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis

(2020) Maximilian Strunz et al.   Nature Communications

Senescence of Alveolar Type 2 Cells Drives Progressive Pulmonary Fibrosis

(2020) Changfu Yao et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Epithelial Stem and Progenitor Cells in Lung Repair and Regeneration

(2020) Konstantinos-Dionysios Alysandratos et al.   Annual Review of Physiology

Derivation of Airway Basal Stem Cells from Human Pluripotent Stem Cells

(2020) Finn J. Hawkins et al.   Cell Stem Cell

Human lung stem cell-based alveolospheres provide insights into SARS-CoV-2 mediated interferon responses and pneumocyte dysfunction

(2020) Hiroaki Katsura et al.   Cell Stem Cell

SARS-CoV-2 Infection of Pluripotent Stem Cell-Derived Human Lung Alveolar Type 2 Cells Elicits a Rapid Epithelial-Intrinsic Inflammatory Response

(2020) Jessie Huang et al.   Cell Stem Cell

Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2

(2020) Jeonghwan Youk et al.   Cell Stem Cell

Contributions of alveolar epithelial cell quality control to pulmonary fibrosis

(2020) Jeremy Katzen et al.   JOURNAL OF CLINICAL INVESTIGATION

Animal models for COVID-19

(2020) César Muñoz-Fontela et al.   NATURE

STAT3–BDNF–TrkB signalling promotes alveolar epithelial regeneration after lung injury

(2020) Andrew J. Paris et al.   NATURE CELL BIOLOGY

Basal-like Progenitor Cells: A Review of Dysplastic Alveolar Regeneration and Remodeling in Lung Repair

(2020) Maria Fernanda de Mello Costa et al.   Stem Cell Reports

Long‐term expanding human airway organoids for disease modeling

(2019) Norman Sachs et al.   EMBO JOURNAL

IL-1 and TNFα Contribute to the Inflammatory Niche to Enhance Alveolar Regeneration

(2019) Hiroaki Katsura et al.   Stem Cell Reports

Challenges Facing Airway Epithelial Cell-Based Therapy for Cystic Fibrosis

(2019) Andrew Berical et al.   Frontiers in Pharmacology

Early lineage specification defines alveolar epithelial ontogeny in the murine lung

(2019) David B. Frank et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lung regeneration by multipotent stem cells residing at the bronchioalveolar-duct junction

(2019) Qiaozhen Liu et al.   NATURE GENETICS

TGF-β activation impairs fibroblast ability to support adult lung epithelial progenitor cell organoid formation

(2019) John-Poul Ng-Blichfeldt et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Bronchioalveolar stem cells are a main source for regeneration of distal lung epithelia in vivo

(2019) Isabelle Salwig et al.   EMBO JOURNAL

Yap/Taz regulate alveolar regeneration and resolution of lung inflammation

(2019) Ryan LaCanna et al.   JOURNAL OF CLINICAL INVESTIGATION

FGF10-FGFR2B Signaling Generates Basal Cells and Drives Alveolar Epithelial Regeneration by Bronchial Epithelial Stem Cells after Lung Injury

(2019) Tingting Yuan et al.   Stem Cell Reports

Dnmt1 is required for proximal-distal patterning of the lung endoderm and for restraining alveolar type 2 cell fate

(2019) Derek C. Liberti et al.   DEVELOPMENTAL BIOLOGY

Cellular crosstalk in the development and regeneration of the respiratory system

(2019) Jarod A. Zepp et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Modeling of Fibrotic Lung Disease Using 3D Organoids Derived from Human Pluripotent Stem Cells

(2019) Alexandros Strikoudis et al.   Cell Reports

In vitro expansion of endogenous human alveolar epithelial type II cells in fibroblast-free spheroid culture

(2019) Kazushige Shiraishi et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Recent advances in our understanding of the mechanisms of lung alveolarization and bronchopulmonary dysplasia

(2019) Ettore Lignelli et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Notch signaling in the mammalian respiratory system, specifically the trachea and lungs, in development, homeostasis, regeneration, and disease

(2019) Hirofumi Kiyokawa et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

Derivation of self-renewing lung alveolar epithelial type II cells from human pluripotent stem cells

(2019) Anjali Jacob et al.   Nature Protocols

Long-term Culture and Cloning of Primary Human Bronchial Basal Cells that Maintain Multipotent Differentiation Capacity and CFTR Channel Function

(2018) Jennifer Ruth Peters-Hall et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Next generation organoids for biomedical research and applications

(2018) Yan-Ru Lou et al.   BIOTECHNOLOGY ADVANCES

Niche-mediated BMP/SMAD signaling regulates lung alveolar stem cell proliferation and differentiation

(2018) Mei-I Chung et al.   DEVELOPMENT

The Strength of Mechanical Forces Determines the Differentiation of Alveolar Epithelial Cells

(2018) Jiao Li et al.   DEVELOPMENTAL CELL

Single-cell Wnt signaling niches maintain stemness of alveolar type 2 cells

(2018) Ahmad N. Nabhan et al.   SCIENCE

Single-Cell Transcriptomic Profiling of Pluripotent Stem Cell-Derived SCGB3A2+ Airway Epithelium

(2018) Katherine B. McCauley et al.   Stem Cell Reports

Expression of mutant Sftpc in murine alveolar epithelia drives spontaneous lung fibrosis

(2018) Shin-Ichi Nureki et al.   JOURNAL OF CLINICAL INVESTIGATION

A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte

(2018) Lindsey W. Plasschaert et al.   NATURE

Regeneration of the lung alveolus by an evolutionarily conserved epithelial progenitor

(2018) William J. Zacharias et al.   NATURE

A revised airway epithelial hierarchy includes CFTR-expressing ionocytes

(2018) Daniel T. Montoro et al.   NATURE

Repairing the lungs one breath at a time: How dedicated or facultative are you?

(2018) John P. Leach et al.   GENES & DEVELOPMENT

Building and Regenerating the Lung Cell by Cell

(2018) Jeffrey A. Whitsett et al.   PHYSIOLOGICAL REVIEWS

Local lung hypoxia determines epithelial fate decisions during alveolar regeneration

(2017) Ying Xi et al.   NATURE CELL BIOLOGY

A three-dimensional model of human lung development and disease from pluripotent stem cells

(2017) Ya-Wen Chen et al.   NATURE CELL BIOLOGY

Long-term expansion of alveolar stem cells derived from human iPS cells in organoids

(2017) Yuki Yamamoto et al.   NATURE METHODS

Human embryonic lung epithelial tips are multipotent progenitors that can be expanded in vitro as long-term self-renewing organoids

(2017) Marko Z Nikolić et al.   eLife

Combinations of differentiation markers distinguish subpopulations of alveolar epithelial cells in adult lung

(2016) Janice M. Liebler et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Rapid Expansion of Human Epithelial Stem Cells Suitable for Airway Tissue Engineering

(2016) Colin R. Butler et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Modeling Development and Disease with Organoids

(2016) Hans Clevers   CELL

Dual SMAD Signaling Inhibition Enables Long-Term Expansion of Diverse Epithelial Basal Cells

(2016) Hongmei Mou et al.   Cell Stem Cell

HDAC3-Dependent Epigenetic Pathway Controls Lung Alveolar Epithelial Cell Remodeling and Spreading via miR-17-92 and TGF-β Signaling Regulation

(2016) Yi Wang et al.   DEVELOPMENTAL CELL

Epithelial Notch signaling regulates lung alveolar morphogenesis and airway epithelial integrity

(2016) Po-Nien Tsao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Emergence of a Wave of Wnt Signaling that Regulates Lung Alveologenesis by Controlling Epithelial Self-Renewal and Differentiation

(2016) David B. Frank et al.   Cell Reports

Directed Induction of Functional Multi-ciliated Cells in Proximal Airway Epithelial Spheroids from Human Pluripotent Stem Cells

(2016) Satoshi Konishi et al.   Stem Cell Reports

Sonic Hedgehog Signaling in the Lung. From Development to Disease

(2015) Matthias C. Kugler et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Lung Endoderm Morphogenesis: Gasping for Form and Function

(2015) Daniel T. Swarr et al.   Annual Review of Cell and Developmental Biology

Diseases of Pulmonary Surfactant Homeostasis

(2015) Jeffrey A. Whitsett et al.   Annual Review of Pathology-Mechanisms of Disease

The pulmonary mesenchyme directs lung development

(2015) David McCulley et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Notch3-Jagged signaling controls the pool of undifferentiated airway progenitors

(2015) M. Mori et al.   DEVELOPMENT

GRHL2 coordinates regeneration of a polarized mucociliary epithelium from basal stem cells

(2015) Xia Gao et al.   JOURNAL OF CELL BIOLOGY

Plasticity of Hopx+ type I alveolar cells to regenerate type II cells in the lung

(2015) Rajan Jain et al.   Nature Communications

Mice with Pulmonary Fibrosis Driven by Telomere Dysfunction

(2015) Juan M. Povedano et al.   Cell Reports

In vitro generation of human pluripotent stem cell derived lung organoids

(2015) Briana R Dye et al.   eLife

Lung Stem Cell Differentiation in Mice Directed by Endothelial Cells via a BMP4-NFATc1-Thrombospondin-1 Axis

(2014) Joo-Hyeon Lee et al.   CELL

An interplay of geometry and signaling enables robust lung branching morphogenesis

(2014) D. Menshykau et al.   DEVELOPMENT

Lung development: orchestrating the generation and regeneration of a complex organ

(2014) M. Herriges et al.   DEVELOPMENT

IL-6/STAT3 promotes regeneration of airway ciliated cells from basal stem cells

(2014) T. Tadokoro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wnt ligand/Frizzled 2 receptor signaling regulates tube shape and branch-point formation in the lung through control of epithelial cell shape

(2014) R. S. Kadzik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Generation of Alveolar Epithelial Spheroids via Isolated Progenitor Cells from Human Pluripotent Stem Cells

(2014) Shimpei Gotoh et al.   Stem Cell Reports

Localized Fgf10 expression is not required for lung branching morphogenesis but prevents differentiation of epithelial progenitors

(2013) T. Volckaert et al.   DEVELOPMENT

Apc deficiency alters pulmonary epithelial cell fate and inhibits Nkx2.1 via triggering TGF-beta signaling

(2013) Changgong Li et al.   DEVELOPMENTAL BIOLOGY

Type 2 alveolar cells are stem cells in adult lung

(2013) Christina E. Barkauskas et al.   JOURNAL OF CLINICAL INVESTIGATION

Efficient generation of lung and airway epithelial cells from human pluripotent stem cells

(2013) Sarah X L Huang et al.   NATURE BIOTECHNOLOGY

A functional CFTR assay using primary cystic fibrosis intestinal organoids

(2013) Johanna F Dekkers et al.   NATURE MEDICINE

Lung epithelial branching program antagonizes alveolar differentiation

(2013) D. R. Chang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Directing Lung Endoderm Differentiation in Pluripotent Stem Cells

(2012) Rachel S. Kadzik et al.   Cell Stem Cell

Suppression of Bmp4 signaling by the zinc-finger repressors Osr1 and Osr2 is required for Wnt/ -catenin-mediated lung specification in Xenopus

(2012) S. A. Rankin et al.   DEVELOPMENT

Notch-Dependent Differentiation of Adult Airway Basal Stem Cells

(2011) Jason R. Rock et al.   Cell Stem Cell

Preparing for the First Breath: Genetic and Cellular Mechanisms in Lung Development

(2010) Edward E. Morrisey et al.   DEVELOPMENTAL CELL

Patterning and plasticity in development of the respiratory lineage

(2010) Eric T. Domyan et al.   DEVELOPMENTAL DYNAMICS

Airway basal stem cells: a perspective on their roles in epithelial homeostasis and remodeling

(2010) J. R. Rock et al.   Disease Models & Mechanisms

Notch signaling controls the balance of ciliated and secretory cell fates in developing airways

(2009) P.-N. Tsao et al.   DEVELOPMENT

Wnt2/2b and β-Catenin Signaling Are Necessary and Sufficient to Specify Lung Progenitors in the Foregut

(2009) Ashley M. Goss et al.   DEVELOPMENTAL CELL

Conditional gene inactivation reveals roles forFgf10andFgfr2in establishing a normal pattern of epithelial branching in the mouse lung

(2009) Lisa L. Abler et al.   DEVELOPMENTAL DYNAMICS

 -Catenin promotes respiratory progenitor identity in mouse foregut

(2009) K. S. Harris-Johnson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Basal cells as stem cells of the mouse trachea and human airway epithelium

(2009) J. R. Rock et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wnt7b stimulates embryonic lung growth by coordinately increasing the replication of epithelium and mesenchyme

(2008) J. Rajagopal et al.   DEVELOPMENT

Formation and Differentiation of Multiple Mesenchymal Lineages during Lung Development Is Regulated by β-catenin Signaling

(2008) Stijn P. De Langhe et al.   PLoS One