Single-Cell RNA Sequencing Reveals mRNA Splice Isoform Switching during Kidney Development.
Yishay Wineberg,Tali Hana Bar-Lev,Anna Futorian,Nissim Ben-Haim,Leah Armon,Debby Ickowicz,Sarit Oriel,Efrat Bucris,Yishai Yehuda,Naomi Pode-Shakked,Shlomit Gilad,Sima Benjamin,Peter Hohenstein,Benjamin Dekel,Benjamin Dekel,Achia Urbach,Tomer Kalisky +16 more
TLDR
Discovery of the sets of genes that are alternatively spliced as the fetal kidney mesenchyme differentiates into tubular epithelium will improve the understanding of the molecular mechanisms that drive kidney development.Abstract:
Background During mammalian kidney development, nephron progenitors undergo a mesenchymal-to-epithelial transition and eventually differentiate into the various tubular segments of the nephron. Recently, Drop-seq single-cell RNA sequencing technology for measuring gene expression from thousands of individual cells identified the different cell types in the developing kidney. However, that analysis did not include the additional layer of heterogeneity that alternative mRNA splicing creates. Methods Full transcript length single-cell RNA sequencing characterized the transcriptomes of 544 individual cells from mouse embryonic kidneys. Results Gene expression levels measured with full transcript length single-cell RNA sequencing identified each cell type. Further analysis comprehensively characterized splice isoform switching during the transition between mesenchymal and epithelial cellular states, which is a key transitional process in kidney development. The study also identified several putative splicing regulators, including the genes Esrp1/2 and Rbfox1/2. Conclusions Discovery of the sets of genes that are alternatively spliced as the fetal kidney mesenchyme differentiates into tubular epithelium will improve our understanding of the molecular mechanisms that drive kidney development.read more
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Journal Article
Atlas of Gene Expression in the Developing Kidney at Microanatomic Resolution (vol 15, pg 781, 2008)
Eric W. Brunskill,Bruce J. Aronow,Kylie Georgas,Bree Rumballe,M. Todd Valerius,Jeremy Aronow,Vivek Kaimal,Anil G. Jegga,Jing Yu,Sean M. Grimmond,Andrew P. McMahon,Larry T. Patterson,Melissa H. Little,S. Steven Potter +13 more
TL;DR: This kidney atlas allows a comprehensive analysis of the progression of gene expression states during nephrogenesis, as well as discovery of potential growth factor-receptor interactions, and provides deeper insight into the genetic regulatory mechanisms of kidney development.
Journal ArticleDOI
A Comprehensive Map of mRNAs and Their Isoforms across All 14 Renal Tubule Segments of Mouse.
TL;DR: In this article, a full-length, small-sample RNA-seq protocol profiled transcriptomes for all 14 renal tubule segments microdissected from mouse kidneys and identified >34,000 transcripts, including 3709 that were expressed in a segment-specific manner.
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Mapping the human kidney using single-cell genomics
Felix Schreibing,Rafael Kramann +1 more
TL;DR: The state of the art of single-cell analyses in kidney research is summarized, including advances in the understanding of kidney embryogenesis and pathomechanisms of several relevant kidney disease entities.
Journal ArticleDOI
Kidney single-cell transcriptome profile reveals distinct response of proximal tubule cells to SGLT2i and ARB treatment in diabetic mice.
Jinshan Wu,Zeguo Sun,Shumin Yang,Jia Fu,Ying Fan,Niansong Wang,Jinbo Hu,Linqiang Ma,Chuan Peng,Zhihong Wang,Kyung Lee,John Cijiang He,John Cijiang He,Qifu Li +13 more
TL;DR: In this article, the authors conducted single-cell RNA sequencing to profile the kidney cell transcriptome of db/db mice treated with vehicle, ARBs, SGLT2i, or ARBs plus SGLTs 2 inhibitors, using db/m mice as control.
Journal ArticleDOI
Kidney single-cell transcriptome profile reveals distinct response of proximal tubule cells to SGLT2i and ARB treatment in diabetic mice
TL;DR: In this paper , the authors conducted single-cell RNA sequencing to profile the kidney cell transcriptome of db/db mice treated with vehicle, ARBs, SGLT2i, or ARBs plus SGLTs 2 inhibitors, using db/m mice as control.
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