A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes

Markus M. Rinschen, Markus Gödel, Florian Grahammer, Stefan Zschiedrich, Martin Helmstädter, Oliver Kretz, Mostafa Zarei, Daniela A. Braun, Sebastian Dittrich, Caroline Pahmeyer, Patricia Schroder, Carolin Teetzen, Heon Yung Gee, Ghaleb Daouk, Martin Pohl, Elisa Kuhn, Bernhard Schermer, Victoria Küttner, Melanie Boerries, Hauke BuschMario Schiffer, Carsten Bergmann, Marcus Krüger, Friedhelm Hildebrandt, Joern Dengjel, Thomas Benzing, Tobias B. Huber

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

Damage to and loss of glomerular podocytes has been identified as the culprit lesion in progressive kidney diseases. Here, we combine mass spectrometry-based proteomics with mRNA sequencing, bioinformatics, and hypothesis-driven studies to provide a comprehensive and quantitative map of mammalian podocytes that identifies unanticipated signaling pathways. Comparison of the in vivo datasets with proteomics data from podocyte cell cultures showed a limited value of available cell culture models. Moreover, in vivo stable isotope labeling by amino acids uncovered surprisingly rapid synthesis of mitochondrial proteins under steady-state conditions that was perturbed under autophagy-deficient, disease-susceptible conditions. Integration of acquired omics dimensions suggested FARP1 as a candidate essential for podocyte function, which could be substantiated by genetic analysis in humans and knockdown experiments in zebrafish. This work exemplifies how the integration of multi-omics datasets can identify a framework of cell-type-specific features relevant for organ health and disease. The podocyte forms the most outer and essential part of the renal filter and restricts the passage of proteins from blood to urine. Rinschen et al. combine deep proteomic and transcriptomic data with protein dynamics from native mouse podocytes to reveal insights into podocyte biology and to identify candidate disease genes.

Original languageEnglish
Pages (from-to)2495-2508
Number of pages14
JournalCell Reports
Volume23
Issue number8
DOIs
Publication statusPublished - 2018 May 22

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Podocytes
Atlases
Kidney Diseases
Genes
Cell culture
Proteomics
Mitochondrial Proteins
Bioinformatics
Isotopes
Labeling
Mass spectrometry
Cell Culture Techniques
Blood Proteins
Isotope Labeling
Health
Amino Acids
Autophagy
Messenger RNA
Zebrafish
Computational Biology

All Science Journal Classification (ASJC) codes

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Rinschen, M. M., Gödel, M., Grahammer, F., Zschiedrich, S., Helmstädter, M., Kretz, O., ... Huber, T. B. (2018). A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes. Cell Reports, 23(8), 2495-2508. https://doi.org/10.1016/j.celrep.2018.04.059
Rinschen, Markus M. ; Gödel, Markus ; Grahammer, Florian ; Zschiedrich, Stefan ; Helmstädter, Martin ; Kretz, Oliver ; Zarei, Mostafa ; Braun, Daniela A. ; Dittrich, Sebastian ; Pahmeyer, Caroline ; Schroder, Patricia ; Teetzen, Carolin ; Gee, Heon Yung ; Daouk, Ghaleb ; Pohl, Martin ; Kuhn, Elisa ; Schermer, Bernhard ; Küttner, Victoria ; Boerries, Melanie ; Busch, Hauke ; Schiffer, Mario ; Bergmann, Carsten ; Krüger, Marcus ; Hildebrandt, Friedhelm ; Dengjel, Joern ; Benzing, Thomas ; Huber, Tobias B. / A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes. In: Cell Reports. 2018 ; Vol. 23, No. 8. pp. 2495-2508.
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Rinschen, MM, Gödel, M, Grahammer, F, Zschiedrich, S, Helmstädter, M, Kretz, O, Zarei, M, Braun, DA, Dittrich, S, Pahmeyer, C, Schroder, P, Teetzen, C, Gee, HY, Daouk, G, Pohl, M, Kuhn, E, Schermer, B, Küttner, V, Boerries, M, Busch, H, Schiffer, M, Bergmann, C, Krüger, M, Hildebrandt, F, Dengjel, J, Benzing, T & Huber, TB 2018, 'A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes', Cell Reports, vol. 23, no. 8, pp. 2495-2508. https://doi.org/10.1016/j.celrep.2018.04.059

A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes. / Rinschen, Markus M.; Gödel, Markus; Grahammer, Florian; Zschiedrich, Stefan; Helmstädter, Martin; Kretz, Oliver; Zarei, Mostafa; Braun, Daniela A.; Dittrich, Sebastian; Pahmeyer, Caroline; Schroder, Patricia; Teetzen, Carolin; Gee, Heon Yung; Daouk, Ghaleb; Pohl, Martin; Kuhn, Elisa; Schermer, Bernhard; Küttner, Victoria; Boerries, Melanie; Busch, Hauke; Schiffer, Mario; Bergmann, Carsten; Krüger, Marcus; Hildebrandt, Friedhelm; Dengjel, Joern; Benzing, Thomas; Huber, Tobias B.

In: Cell Reports, Vol. 23, No. 8, 22.05.2018, p. 2495-2508.

Research output: Contribution to journalArticle

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AU - Gödel, Markus

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AU - Zschiedrich, Stefan

AU - Helmstädter, Martin

AU - Kretz, Oliver

AU - Zarei, Mostafa

AU - Braun, Daniela A.

AU - Dittrich, Sebastian

AU - Pahmeyer, Caroline

AU - Schroder, Patricia

AU - Teetzen, Carolin

AU - Gee, Heon Yung

AU - Daouk, Ghaleb

AU - Pohl, Martin

AU - Kuhn, Elisa

AU - Schermer, Bernhard

AU - Küttner, Victoria

AU - Boerries, Melanie

AU - Busch, Hauke

AU - Schiffer, Mario

AU - Bergmann, Carsten

AU - Krüger, Marcus

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AU - Benzing, Thomas

AU - Huber, Tobias B.

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Rinschen MM, Gödel M, Grahammer F, Zschiedrich S, Helmstädter M, Kretz O et al. A Multi-layered Quantitative In Vivo Expression Atlas of the Podocyte Unravels Kidney Disease Candidate Genes. Cell Reports. 2018 May 22;23(8):2495-2508. https://doi.org/10.1016/j.celrep.2018.04.059