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| Status |
Public on Mar 18, 2020 |
| Title |
Single cell ATAC-seq of cardiomyocytes from neonatal mouse hearts after injury |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The adult mammalian heart is incapable of regeneration following injury. In contrast, the neonatal mouse heart has a transient ability to regenerate, however the molecular mechanism that mediates this regenerative response is not fully understood. Here, by single-nucleus RNA sequencing we map the transcriptome landscape of cardiomyocytes in neonatal mouse hearts at healthy, regenerative, and remodeling conditions. We show that an immature cardiomyocyte population enters cell-cycle in response to injury. Absence of this cardiomyocyte population overtime is associated with the loss of the ability of the heart to regenerate. We show a defined injury response in these cardiomyocytes, including activation of transcription factors NFYa and NFE2L1, which play proliferative and protective roles, respectively. We further show that overexpression of these two factors in vivo promotes heart regeneration. Thus, these findings refined our understanding of cellular basis of neonatal heart regeneration and reveal dynamic transcriptome landscape of cardiomyocytes in response to injury.
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| Overall design |
We surgically induced myocardial infarction in mouse hearts at postnatal day 1. At 3d post surgery, ventricle samples below the surgery plane were collected for nuclei extraction. Cardiomyocyte nuclei were enriched using PCM1 immunostaining and FACS sorting, and subjected to single cell ATAC-seq.
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| Contributor(s) |
Cui M, Wang Z, Tan W, Olson EN |
| Citation(s) |
32220304 |
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| Submission date |
Dec 19, 2019 |
| Last update date |
Apr 01, 2020 |
| Contact name |
Zhaoning Wang |
| E-mail(s) |
zhw063@health.ucsd.edu
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| Organization name |
UC San Diego
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| Department |
Cellular and Molecular Medicine
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| Lab |
Bing Ren Lab
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| Street address |
9500 Gilman Drive
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| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (1) |
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| This SubSeries is part of SuperSeries: |
| GSE142366 |
Dynamic transcriptional responses to injury of regenerative and non-regenerative cardiomyocytes revealed by single-nucleus RNA sequencing |
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| Relations |
| BioProject |
PRJNA596869 |
| SRA |
SRP238453 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE142365_RAW.tar |
963.2 Mb |
(http)(custom) |
TAR (of BED, CSV, H5, MTX, TBI, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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