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| Status |
Public on Sep 05, 2024 |
| Title |
Single-cell multiome uncovers differences in glycogen metabolism underlying species-specific speed of development [scRNAseq and scATACseq] |
| Organisms |
Macaca fascicularis; Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Embryos from different mammalian species develop at characteristic timescales. These timescales are recapitulated during the differentiation of pluripotent stem cells in vitro. Specific genes and molecular pathways that modulate cell differentiation speed between mammalian species remain to be identified. Here we use single-cell multi-omic analysis of neural differentiation of mouse, cynomolgus monkey and human pluripotent cells to identify new regulators for differentiation speed. We demonstrate that species-specific differences in transcriptome dynamics are mirrored at the chromatin level, but that, contrary to other developmental contexts, the speed of neural differentiation is insensitive to manipulations of cell growth and cycling. Exploiting the single-cell resolution of our data, we identify glycogen storage levels regulated by UGP2 expression as a new species-specific trait of pluripotent cells, and show that lowered glycogen storage in UGP2 mutant cells is associated with accelerated neural differentiation. The control of energy storage could be a general strategy for the regulation of cell differentiation speed.
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| Overall design |
Neural differentiation of a UGP2 KO lines was performed with sequencing samples collected at 0 hours and 7 days post-induction.
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| Contributor(s) |
de la Porte A, Schröder J, Thomas M, Geuder J, Sterr M, Enard W, Schröter C, Marr C, Drukker M |
| Citation missing |
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| |
| Submission date |
Aug 30, 2024 |
| Last update date |
Sep 05, 2024 |
| Contact name |
Max Fernkorn |
| E-mail(s) |
m.fernkorn@lacdr.leidenuniv.nl
|
| Organization name |
University Leiden
|
| Department |
Leiden Academic Centre for Drug Research (LACDR)
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| Lab |
Drukker
|
| Street address |
Einsteinweg 55
|
| City |
Leiden |
| ZIP/Postal code |
2333 CC |
| Country |
Germany |
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| Platforms (3) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL28212 |
Illumina NovaSeq 6000 (Macaca fascicularis) |
|
| Samples (6)
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| GSM8490458 |
single cell gene expression library of human samples (day0 to 10) |
| GSM8490459 |
single cell ATAC seq library of human samples (day0 to 10) |
| GSM8490460 |
single cell gene expression library of cynomolgus samples (day0 to 10) |
| GSM8490461 |
single cell ATAC seq library of cynomolgus samples (day0 to 10) |
| GSM8490462 |
single cell gene expression library of mouse samples (day0 to 10) |
| GSM8490463 |
single cell ATAC seq library of mouse samples (day0 to 10) |
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| This SubSeries is part of SuperSeries: |
| GSE275572 |
Single-cell multiome uncovers differences in glycogen metabolism underlying species-specific speed of development |
|
| Relations |
| BioProject |
PRJNA1154606 |
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