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Microscopic analysis of human ASC-derived kidney organoids for polycystic kidney disease modelling

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Persistent identifier
doi:10.60507/FK2/OM25XQ
Published version
1.0
Publication date
2026-05-12
License
CC BY 4.0

Description

Polycystic kidney disease (PKD) is a genetic disorder and a major contributor to end-stage renal disease. Elucidating the cellular mechanisms underlying PKD necessitates three-dimensional models that accurately replicate cystogenesis in vitro. Existing organoid models frequently exhibit limited expression of adult kidney epithelial markers and lack standardized methods for cyst identification. This microscopy imaging data deposit supports our efforts to develop and characterize a model that more faithfully reflects adult kidney epithelium and provides a robust read-out for PKD research. We generated adult stem cell (ASC)-derived human kidney organoids (tubuloids) from patient tissue, and cultured them either in suspension or embedded in extracellular matrix (domes). This approach allowed us to compare organoid structure, cell polarity, cellular composition, and the representation of kidney epithelium during organoid development. Using pharmacological stimulation and tissue imaging, we demonstrate that these tubuloids reproducibly form cysts in vitro upon chronic cAMP signaling, making these data valuable for PKD investigation. Microscopy datasets (image and video files) of fixed and live tubuloids are presented, analyzed for cyst formation, expression of specific proteins of interest, and transduction efficiency.

Creators

Keywords

ADPKD, cAMP signalling, Cilia, Renal cyst, Tubuloids

Files

Before downloading: Use and redistribution are governed by CC BY 4.0. Review and comply with the license before using the data.
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Rohe-Ashraf-et-al-2025-BMC_Live-cell-imaging.zipapplication/zip9509076MD5 a2268a907153af028653f55cb1b81406
Rohe-Ashraf-et-al-2025-BMC_Figure-1_Dome-and-Suspension-Tubuloids.zipapplication/zip26820093MD5 6d9ac2c44fc8c5cb5e0abfef14c6b374
Rohe-Ashraf-et-al-2025-BMC_Figure-2_Immunohistochemistry.zipapplication/zip72711309MD5 e31532faa580d8881c322183218f8f65
Rohe-Ashraf-et-al-2025-BMC_Figure-3_Immunohistochemistry.zipapplication/zip36506669MD5 c55f32148b775d8e53fe034ba0749009
Rohe-Ashraf-et-al-2025-BMC_Figure-4_Cyst-Induction.zipapplication/zip904984408MD5 89dbdd5be4b3d4c4602536f35bca3f70
Rohe-Ashraf-et-al-2025-BMC_Figure-5_Immunostaining.zipapplication/zip876622654MD5 78a3ee1be00f93a434e6f0d41d5d61c8
Rohe-Ashraf-et-al-2025-BMC_Figure-S1_Dome-and-Suspension-culture_MIB1.zipapplication/zip107408209MD5 0572bbc7020d9fa3ba69169e454ce914
Rohe-Ashraf-et-al-2025-BMC_Figure-S3B_GATA3-quantification.zipapplication/zip35316732MD5 ef079097875051bf05a402ef76cfa32f
Rohe-Ashraf-et-al-2025-BMC_Figure-S5_Transduction.zipapplication/zip6480588MD5 d9e7c5a71221c4f871cb7841ba2404db
README_Rohe-Ashraf-et-al_BMC_Microscopic-analysis-of-human-ASC-derived-kidney-organoids-for-polycystic-kidney-disease-modelling.txttext/plain17134MD5 5e5b83701e49ccb9b33ea26bd8f48d97

Citation

Ashraf, Arsila Palliyulla Kariat; Rohe, Jana, 2026-05-12, Microscopic analysis of human ASC-derived kidney organoids for polycystic kidney disease modelling, doi:10.60507/FK2/OM25XQ, V1.0

Additional Dataverse fields

Id405
Dataset Typedataset
Internal Version Number32
Latest Version Publishing StateRELEASED
Deaccession LinkNot supplied
Production Date2025-04-09
Release Time2026-05-12T11:04:18Z
Create Time2025-04-14T23:16:00Z
Citation Date2026-05-12
File Access RequestTrue

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Complete Dataverse metadata

Citation Metadata

Title title
Microscopic analysis of human ASC-derived kidney organoids for polycystic kidney disease modelling
Author author
  1. Author Name
    Ashraf, Arsila Palliyulla Kariat
    Author Affiliation
    University of Bonn
    Author Identifier Scheme
    ORCID
    Author Identifier
    Type Name
    authorIdentifier
    Multiple
    False
    Type Class
    primitive
    Value
    https://orcid.org/0009-0008-9590-4323
    Expandedvalue
    Person Name
    Palliyulla Kariat, Arsila Ashraf
    @id
    https://orcid.org/0009-0008-9590-4323
    Scheme
    ORCID
    @type
    https://schema.org/Person
  2. Author Name
    Rohe, Jana
    Author Affiliation
    University of Bonn
    Author Identifier Scheme
    ORCID
    Author Identifier
    Type Name
    authorIdentifier
    Multiple
    False
    Type Class
    primitive
    Value
    https://orcid.org/0009-0002-0343-7577
    Expandedvalue
    Person Name
    Rohe, Jana
    @id
    https://orcid.org/0009-0002-0343-7577
    Scheme
    ORCID
    @type
    https://schema.org/Person
Dataset Contact datasetContact
  1. Dataset Contact Name
    Ashraf, Arsila Palliyulla Kariat
    Dataset Contact Affiliation
    University of Bonn
    Dataset Contact Email
    arsilash@uni-bonn.de
Ds Description dsDescription
  1. Ds Description Value
    Polycystic kidney disease (PKD) is a genetic disorder and a major contributor to end-stage renal disease. Elucidating the cellular mechanisms underlying PKD necessitates three-dimensional models that accurately replicate cystogenesis in vitro. Existing organoid models frequently exhibit limited expression of adult kidney epithelial markers and lack standardized methods for cyst identification. This microscopy imaging data deposit supports our efforts to develop and characterize a model that more faithfully reflects adult kidney epithelium and provides a robust read-out for PKD research. We generated adult stem cell (ASC)-derived human kidney organoids (tubuloids) from patient tissue, and cultured them either in suspension or embedded in extracellular matrix (domes). This approach allowed us to compare organoid structure, cell polarity, cellular composition, and the representation of kidney epithelium during organoid development. Using pharmacological stimulation and tissue imaging, we demonstrate that these tubuloids reproducibly form cysts in vitro upon chronic cAMP signaling, making these data valuable for PKD investigation. Microscopy datasets (image and video files) of fixed and live tubuloids are presented, analyzed for cyst formation, expression of specific proteins of interest, and transduction efficiency.
    Ds Description Date
    2025-04-15
Subject subject
  1. Medicine, Health and Life Sciences
Subject Refinement subjectRefinement
  1. Subject Refinement Value
    Basic Research in Biology and Medicine: Cell Biology [201-03]
Free Keyword freeKeyword
  1. Free Keyword Value
    ADPKD
  2. Free Keyword Value
    cAMP signalling
  3. Free Keyword Value
    Cilia
  4. Free Keyword Value
    Renal cyst
  5. Free Keyword Value
    Tubuloids
Topic Classification topicClassification
  1. Topic Class Key
    D007668
    Topic Class Value
    Kidney
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D007668
  2. Topic Class Key
    D003560
    Topic Class Value
    Cysts
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D003560
  3. Topic Class Key
    D002923
    Topic Class Value
    Cilia
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D002923
  4. Topic Class Key
    D009940
    Topic Class Value
    Organoids
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D009940
  5. Topic Class Key
    D004848
    Topic Class Value
    Epithelium
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D004848
  6. Topic Class Key
    D009398
    Topic Class Value
    Nephrology
    Topic Class Vocab
    MeSH
    Topic Class Vocab URI
    https://meshb.nlm.nih.gov/record/ui?ui=D009398
Publication publication
  1. Publication Relation Type
    IsSupplementTo
    Publication Citation
    Rohe, J., Ashraf, A.P.K., Kehl, M. et al. Modelling kidney cystogenesis using human kidney tubuloid cultures. BMC Mol and Cell Biol 27, 26 (2026). https://doi.org/10.1186/s12860-026-00591-x
    Publication IDType
    doi
    Publication IDNumber
    10.1186/s12860-026-00591-x
    Publication URL
    https://doi.org/10.1186/s12860-026-00591-x
Language language
  1. English
Producer producer
  1. Producer Name
    Ashraf, Arsila Palliyulla Kariat
    Producer Affiliation
    University of Bonn
    Producer Abbreviation
    A.A.P.K.
  2. Producer Name
    Rohe, Jana
    Producer Affiliation
    University of Bonn
    Producer Abbreviation
    J.R.
  3. Producer Name
    Wachten, Dagmar
    Producer Affiliation
    Institute of Innate Immunity, University of Bonn
    Producer Abbreviation
    D.W.
  4. Producer Name
    Toma, Marieta Ioana
    Producer Affiliation
    Institute of Pathology, Universitätsklinikum Bonn
    Producer Abbreviation
    M.I.T.
Production Date productionDate
2025-04-09
Production Place productionPlace
Bonn, Germany
Contributor contributor
  1. Contributor Type
    Project Leader
    Contributor Name
    Toma, Marieta Ioana
  2. Contributor Type
    Project Leader
    Contributor Name
    Wachten, Dagmar
  3. Contributor Type
    Hosting Institution
    Contributor Name
    Institute of Innate Immunity, University of Bonn
  4. Contributor Name
    Microscope Core Facility, University of Bonn
Grant Number grantNumber
  1. Grant Number Agency
    Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC2151
    Grant Number Value
    390873048
  2. Grant Number Agency
    FOR5547
    Grant Number Value
    503306912
  3. Grant Number Agency
    WA 3382/8-1
    Grant Number Value
    513767027
  4. Grant Number Agency
    Else Kröner Fresenius Foundation
    Grant Number Value
    2021.EKFSE.53
  5. Grant Number Agency
    University of Bonn - Internal funding
Depositor depositor
Ashraf, Arsila Palliyulla Kariat
Date Of Deposit dateOfDeposit
2025-04-15
Date Of Collection dateOfCollection
  1. Date Of Collection Start
    2023-09-25
    Date Of Collection End
    2025-04-09
Kind Of Data kindOfData
  1. PNG
  2. TIF
  3. AVI
  4. JPG

Life Sciences Metadata

Study Design Type studyDesignType
  1. Other
Study Other Design Type studyOtherDesignType
  1. Descriptive/Qualitative Design
  2. Analytical Observational Design
Study Factor Type studyFactorType
  1. Biomarkers
  2. Cell Surface Markers
  3. Passages
  4. Time Point
  5. Treatment Type
Study Assay Organism studyAssayOrganism
  1. Homo sapiens
Study Assay Measurement Type studyAssayMeasurementType
  1. histology
  2. protein identification
Study Assay Technology Type studyAssayTechnologyType
  1. Other
Study Assay Other Technology Type studyAssayOtherTechnologyType
  1. Microscopy imaging
Study Assay Platform studyAssayPlatform
  1. Other
Study Assay Other Platform studyAssayOtherPlatform
  1. Leica DM IRB inverted research microscope in combination with a Nikon DS-U3 Digital Sight Camera Control Unit + Microscope
  2. KEYENCE BZ-X Microscope
  3. Leica Stellaris 8 confocal microscope
  4. Sartorius IncuCyte® S3 Live-Cell Analysis

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