An integrated organoid omics map extends modeling potential of kidney disease
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An integrated organoid omics map extends modeling potential of kidney disease. / Lassé, Moritz; El Saghir, Jamal; Berthier, Celine C; Eddy, Sean; Fischer, Matthew; Laufer, Sandra D; Kylies, Dominik; Hutzfeldt, Arvid; Bonin, Léna Lydie; Dumoulin, Bernhard; Menon, Rajasree; Vega-Warner, Virginia; Eichinger, Felix; Alakwaa, Fadhl; Fermin, Damian; Billing, Anja M; Minakawa, Akihiro; McCown, Phillip J; Rose, Michael P; Godfrey, Bradley; Meister, Elisabeth; Wiech, Thorsten; Noriega, Mercedes; Chrysopoulou, Maria; Brandts, Paul; Ju, Wenjun; Reinhard, Linda; Hoxha, Elion; Grahammer, Florian; Lindenmeyer, Maja T; Huber, Tobias B; Schlüter, Hartmut; Thiel, Steffen; Mariani, Laura H; Puelles, Victor G; Braun, Fabian; Kretzler, Matthias; Demir, Fatih; Harder, Jennifer L; Rinschen, Markus M.
in: NAT COMMUN, Jahrgang 14, Nr. 1, 4903, 14.08.2023.Publikationen: SCORING: Beitrag in Fachzeitschrift/Zeitung › SCORING: Zeitschriftenaufsatz › Forschung › Begutachtung
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TY - JOUR
T1 - An integrated organoid omics map extends modeling potential of kidney disease
AU - Lassé, Moritz
AU - El Saghir, Jamal
AU - Berthier, Celine C
AU - Eddy, Sean
AU - Fischer, Matthew
AU - Laufer, Sandra D
AU - Kylies, Dominik
AU - Hutzfeldt, Arvid
AU - Bonin, Léna Lydie
AU - Dumoulin, Bernhard
AU - Menon, Rajasree
AU - Vega-Warner, Virginia
AU - Eichinger, Felix
AU - Alakwaa, Fadhl
AU - Fermin, Damian
AU - Billing, Anja M
AU - Minakawa, Akihiro
AU - McCown, Phillip J
AU - Rose, Michael P
AU - Godfrey, Bradley
AU - Meister, Elisabeth
AU - Wiech, Thorsten
AU - Noriega, Mercedes
AU - Chrysopoulou, Maria
AU - Brandts, Paul
AU - Ju, Wenjun
AU - Reinhard, Linda
AU - Hoxha, Elion
AU - Grahammer, Florian
AU - Lindenmeyer, Maja T
AU - Huber, Tobias B
AU - Schlüter, Hartmut
AU - Thiel, Steffen
AU - Mariani, Laura H
AU - Puelles, Victor G
AU - Braun, Fabian
AU - Kretzler, Matthias
AU - Demir, Fatih
AU - Harder, Jennifer L
AU - Rinschen, Markus M
N1 - © 2023. Springer Nature Limited.
PY - 2023/8/14
Y1 - 2023/8/14
N2 - Kidney organoids are a promising model to study kidney disease, but their use is constrained by limited knowledge of their functional protein expression profile. Here, we define the organoid proteome and transcriptome trajectories over culture duration and upon exposure to TNFα, a cytokine stressor. Older organoids increase deposition of extracellular matrix but decrease expression of glomerular proteins. Single cell transcriptome integration reveals that most proteome changes localize to podocytes, tubular and stromal cells. TNFα treatment of organoids results in 322 differentially expressed proteins, including cytokines and complement components. Transcript expression of these 322 proteins is significantly higher in individuals with poorer clinical outcomes in proteinuric kidney disease. Key TNFα-associated protein (C3 and VCAM1) expression is increased in both human tubular and organoid kidney cell populations, highlighting the potential for organoids to advance biomarker development. By integrating kidney organoid omic layers, incorporating a disease-relevant cytokine stressor and comparing with human data, we provide crucial evidence for the functional relevance of the kidney organoid model to human kidney disease.
AB - Kidney organoids are a promising model to study kidney disease, but their use is constrained by limited knowledge of their functional protein expression profile. Here, we define the organoid proteome and transcriptome trajectories over culture duration and upon exposure to TNFα, a cytokine stressor. Older organoids increase deposition of extracellular matrix but decrease expression of glomerular proteins. Single cell transcriptome integration reveals that most proteome changes localize to podocytes, tubular and stromal cells. TNFα treatment of organoids results in 322 differentially expressed proteins, including cytokines and complement components. Transcript expression of these 322 proteins is significantly higher in individuals with poorer clinical outcomes in proteinuric kidney disease. Key TNFα-associated protein (C3 and VCAM1) expression is increased in both human tubular and organoid kidney cell populations, highlighting the potential for organoids to advance biomarker development. By integrating kidney organoid omic layers, incorporating a disease-relevant cytokine stressor and comparing with human data, we provide crucial evidence for the functional relevance of the kidney organoid model to human kidney disease.
KW - Humans
KW - Tumor Necrosis Factor-alpha/metabolism
KW - Proteome/metabolism
KW - Kidney
KW - Kidney Diseases/genetics
KW - Organoids/metabolism
U2 - 10.1038/s41467-023-39740-7
DO - 10.1038/s41467-023-39740-7
M3 - SCORING: Journal article
C2 - 37580326
VL - 14
JO - NAT COMMUN
JF - NAT COMMUN
SN - 2041-1723
IS - 1
M1 - 4903
ER -