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Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq

Damage to proximal tubules due to exposure to toxicants can lead to conditions such as acute kidney injury (AKI), chronic kidney disease (CKD) and ultimately end‐stage renal failure (ESRF). Studies have shown that kidney proximal epithelial cells can regenerate particularly after acute injury. In th...

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Autores principales: Shrestha, Swojani, Singhal, Sonalika, Kalonick, Matthew, Guyer, Rachel, Volkert, Alexis, Somji, Seema, Garrett, Scott H., Sens, Donald A., Singhal, Sandeep K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8581341/
https://www.ncbi.nlm.nih.gov/pubmed/34626063
http://dx.doi.org/10.1111/jcmm.16976
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author Shrestha, Swojani
Singhal, Sonalika
Kalonick, Matthew
Guyer, Rachel
Volkert, Alexis
Somji, Seema
Garrett, Scott H.
Sens, Donald A.
Singhal, Sandeep K.
author_facet Shrestha, Swojani
Singhal, Sonalika
Kalonick, Matthew
Guyer, Rachel
Volkert, Alexis
Somji, Seema
Garrett, Scott H.
Sens, Donald A.
Singhal, Sandeep K.
author_sort Shrestha, Swojani
collection PubMed
description Damage to proximal tubules due to exposure to toxicants can lead to conditions such as acute kidney injury (AKI), chronic kidney disease (CKD) and ultimately end‐stage renal failure (ESRF). Studies have shown that kidney proximal epithelial cells can regenerate particularly after acute injury. In the previous study, we utilized an immortalized in vitro model of human renal proximal tubule epithelial cells, RPTEC/TERT1, to isolate HRTPT cell line that co‐expresses stem cell markers CD133 and CD24, and HREC24T cell line that expresses only CD24. HRTPT cells showed most of the key characteristics of stem/progenitor cells; however, HREC24T cells did not show any of these characteristics. The goal of this study was to further characterize and understand the global gene expression differences, upregulated pathways and gene interaction using scRNA‐seq in HRTPT cells. Affymetrix microarray analysis identified common gene sets and pathways specific to HRTPT and HREC24T cells analysed using DAVID, Reactome and Ingenuity software. Gene sets of HRTPT cells, in comparison with publicly available data set for CD133+ infant kidney, urine‐derived renal progenitor cells and human kidney‐derived epithelial proximal tubule cells showed substantial similarity in organization and interactions of the apical membrane. Single‐cell analysis of HRTPT cells identified unique gene clusters associated with CD133 and the 92 common gene sets from three data sets. In conclusion, the gene expression analysis identified a unique gene set for HRTPT cells and narrowed the co‐expressed gene set compared with other human renal–derived cell lines expressing CD133, which may provide deeper understanding in their role as progenitor/stem cells that participate in renal repair.
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spelling pubmed-85813412021-11-17 Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq Shrestha, Swojani Singhal, Sonalika Kalonick, Matthew Guyer, Rachel Volkert, Alexis Somji, Seema Garrett, Scott H. Sens, Donald A. Singhal, Sandeep K. J Cell Mol Med Original Articles Damage to proximal tubules due to exposure to toxicants can lead to conditions such as acute kidney injury (AKI), chronic kidney disease (CKD) and ultimately end‐stage renal failure (ESRF). Studies have shown that kidney proximal epithelial cells can regenerate particularly after acute injury. In the previous study, we utilized an immortalized in vitro model of human renal proximal tubule epithelial cells, RPTEC/TERT1, to isolate HRTPT cell line that co‐expresses stem cell markers CD133 and CD24, and HREC24T cell line that expresses only CD24. HRTPT cells showed most of the key characteristics of stem/progenitor cells; however, HREC24T cells did not show any of these characteristics. The goal of this study was to further characterize and understand the global gene expression differences, upregulated pathways and gene interaction using scRNA‐seq in HRTPT cells. Affymetrix microarray analysis identified common gene sets and pathways specific to HRTPT and HREC24T cells analysed using DAVID, Reactome and Ingenuity software. Gene sets of HRTPT cells, in comparison with publicly available data set for CD133+ infant kidney, urine‐derived renal progenitor cells and human kidney‐derived epithelial proximal tubule cells showed substantial similarity in organization and interactions of the apical membrane. Single‐cell analysis of HRTPT cells identified unique gene clusters associated with CD133 and the 92 common gene sets from three data sets. In conclusion, the gene expression analysis identified a unique gene set for HRTPT cells and narrowed the co‐expressed gene set compared with other human renal–derived cell lines expressing CD133, which may provide deeper understanding in their role as progenitor/stem cells that participate in renal repair. John Wiley and Sons Inc. 2021-10-09 2021-11 /pmc/articles/PMC8581341/ /pubmed/34626063 http://dx.doi.org/10.1111/jcmm.16976 Text en © 2021 The Authors. Journal of Cellular and Molecular Medicine published by Foundation for Cellular and Molecular Medicine and John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Articles
Shrestha, Swojani
Singhal, Sonalika
Kalonick, Matthew
Guyer, Rachel
Volkert, Alexis
Somji, Seema
Garrett, Scott H.
Sens, Donald A.
Singhal, Sandeep K.
Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title_full Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title_fullStr Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title_full_unstemmed Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title_short Role of HRTPT in kidney proximal epithelial cell regeneration: Integrative differential expression and pathway analyses using microarray and scRNA‐seq
title_sort role of hrtpt in kidney proximal epithelial cell regeneration: integrative differential expression and pathway analyses using microarray and scrna‐seq
topic Original Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8581341/
https://www.ncbi.nlm.nih.gov/pubmed/34626063
http://dx.doi.org/10.1111/jcmm.16976
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