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| Status |
Public on Feb 10, 2017 |
| Title |
Transcriptional analysis of wild-type budding yeast microcolonies encapsulated in alginate particles |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We analysed the transcriptomic signature associated to fast and slow growing microcolonies generated after the encapsulation of single cells belonging to a clonal wild-type population, in alginate microspheres. This allowed us to identify particular gene expression signatures associated to each subpopulation. In particular, we found that slow growing cells display an increased expression of respiratory genes even when growing in glucose rich media.
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| Overall design |
S. cerevisiae cells were encapsulated in alginate particles using a Cellena microencapsulator (Ingeniatrics), as described (Gómez-Herreros et al, NAR 2011). Encapsulated cells were allowed to divide in rich media (YPD) and harvested. We analyzed 3 biological replicates of non-sorted particles (total), 3 biological replicates of big colonies (big) and 4 replicates of small particles (small). Due to the limited RNA amount, replicates 1 and 3 of the small colonies lead to very low sequencing quality and were excluded from the analysis. As control experiments we analysed biological duplicates from encapsulated cells not fixed with ethanol (nofix), and the same cells grown in batch without encapsulation at two different cell densities (YPD05 and YPD2).
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| Contributor(s) |
Pelechano V, Delgado-Ramos L, Chavez S, Steinmetz LM |
| Citation(s) |
26717982 |
| Submission date |
Aug 14, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Vicent Pelechano |
| E-mail(s) |
vicente.pelechano.garcia@ki.se
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| Organization name |
ScilifeLab - Karolinska Institutet
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| Department |
MTC
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| Street address |
Nobels väg 16
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| City |
Solna |
| ZIP/Postal code |
SE-17177 |
| Country |
Sweden |
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| Platforms (1) |
| GPL13821 |
Illumina HiSeq 2000 (Saccharomyces cerevisiae) |
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| Samples (16)
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| Relations |
| BioProject |
PRJNA292921 |
| SRA |
SRP062430 |
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