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| Status |
Public on Apr 05, 2018 |
| Title |
Comprehensive single cell RNAseq analysis of the kidney reveals novel cell types and unexpected cell plasticity |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We characterized 57,979 cells from healthy mouse kidneys using unbiased single-cell RNA sequencing. We show that genetic mutations that present with similar phenotypes mostly affect genes that are expressed in a single unique differentiated cell type. On the other hand, we found unexpected cell plasticity of epithelial cells in the final segment of the kidney (collecting duct) that is responsible for final composition of the urine. Using computational cell trajectory analysis and in vivo linage tracing, we found that, intercalated cells (that secrete protons) and principal cells (that maintain salt, water and potassium balance) undergo a Notch mediated interconversion via a newly identified transitional cell type. In disease states this transition is shifted towards the principal cell fate. Loss of intercalated cells likely contributes to metabolic acidosis observed in kidney disease.
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| Overall design |
Single cell RNA sequencing for 57,979 cells from 7 healthy mouse kidneys
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| Contributor(s) |
Park J, Shrestha R, Qiu C, Kondo A, Huang S, Werth M, Li M, Barasch J, Suszták K |
| Citation(s) |
29622724 |
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| Submission date |
Dec 01, 2017 |
| Last update date |
Dec 09, 2019 |
| Contact name |
Jihwan Park |
| E-mail(s) |
jihwan.park724@gmail.com
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| Organization name |
GWANGJU INSTITUTE OF SCIENCE /TECHNOLOGY
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| Street address |
123 Cheomdangwagi-ro
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| City |
Bukgu |
| State/province |
Gwangju |
| ZIP/Postal code |
61005 |
| Country |
South Korea |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (7)
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| Relations |
| BioProject |
PRJNA420723 |
| SRA |
SRP125999 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE107585_Mouse_kidney_single_cell_datamatrix.txt.gz |
52.6 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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