Yishay Wineberg1, Tali Hana Bar-Lev1, Anna Futorian2, Nissim Ben-Haim1, Leah Armon2, Debby Ickowicz2, Sarit Oriel1, Efrat Bucris1, Yishai Yehuda1, Naomi Pode-Shakked3,4,5, Shlomit Gilad6, Sima Benjamin6, Peter Hohenstein7, Benjamin Dekel3,4,5, Achia Urbach2, Tomer Kalisky8. 1. Department of Bioengineering and Bar-Ilan Institute of Nanotechnology and Advanced Materials, Bar-Ilan University, Ramat Gan, Israel. 2. The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, Israel. 3. Pediatric Stem Cell Research Institute, Edmond and Lily Safra Children's Hospital, Sheba Medical Center, Tel-Hashomer, Israel. 4. Division of Pediatric Nephrology, Sheba Medical Center, Tel-Hashomer, Israel. 5. Sackler Faculty of Medicine, Tel-Aviv University, Tel-Aviv, Israel. 6. The Nancy and Stephen Grand Israel National Center for Personalized Medicine, Weizmann Institute of Science, Rehovot, Israel. 7. Department of Human Genetics, Leiden University Medical Center, Leiden, The Netherlands. 8. Department of Bioengineering and Bar-Ilan Institute of Nanotechnology and Advanced Materials, Bar-Ilan University, Ramat Gan, Israel tomer.kalisky@biu.ac.il.
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.
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 mouseembryonic 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.
Authors: Eric W Brunskill; Joo-Seop Park; Eunah Chung; Feng Chen; Bliss Magella; S Steven Potter Journal: Development Date: 2014-08 Impact factor: 6.868
Authors: S H Larsson; J P Charlieu; K Miyagawa; D Engelkamp; M Rassoulzadegan; A Ross; F Cuzin; V van Heyningen; N D Hastie Journal: Cell Date: 1995-05-05 Impact factor: 41.582
Authors: Danny Legge; Ling Li; Whei Moriarty; David Lee; Marianna Szemes; Asef Zahed; Leonidas Panousopoulos; Wan Yun Chung; Yara Aghabi; Jasmin Barratt; Richard Williams; Kathy Pritchard-Jones; Karim T A Malik; Sebastian Oltean; Keith W Brown Journal: Mol Oncol Date: 2021-09-28 Impact factor: 6.603