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| Status |
Public on May 01, 2024 |
| Title |
Investigating determinants of aneuploidy toxicity using gene duplication in Saccharomyces cerevisiae |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
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| Summary |
Aneuploidy has a myriad of consequences for health and disease, yet models of aneuploidy toxicity are still widely debated. To distinguish the effects of specific genes from the generalized burden of chromosome amplification, we measured the effects of duplicating individual genes in euploid cells as well as in select aneuploids using a barcoded plasmid library. We analyzed the responses of cells with and without extra chromosomes, as well as those with and without RNA-binding protein Ssd1. Deletion of Ssd1 sensitizes cells to chromosome amplification, but the source of this vulnerability is not known. Results of this experiment were used to interrogate determinants of aneuploidy toxicity, test models of Ssd1 dependence, and identify vulnerabilities of sensitized (ssd1-) and wild-type aneuploids. We also used the fitness effects of gene duplication in euploid cells to model the cost associated with chromosome duplication.
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| Overall design |
Euploid and select aneuploid yeast strains (haploids with one additional copy of chromosomes IV, VII, XII, and XV, respectively) with and without the RNA-binding protein SSD1 were transformed with a barcoded CEN plasmid library. For each strain, we took samples at generation 0 (start of experiment) and generation 10 (and/or generation 5 for a subset of strains) to quantify the effects of gene duplication on fitness. Each strain was measured in at least biological triplicate (4 replicates from 2 independent transformations of the plasmid library in Batch 1 and 3 replicates from 3 independent transformations in Batch 2).
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| Contributor(s) |
Gasch AP, Dutcher HA, Rojas J |
| Citation(s) |
38645209 |
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| Submission date |
Apr 04, 2024 |
| Last update date |
May 01, 2024 |
| Contact name |
Audrey Gasch |
| E-mail(s) |
agasch@wisc.edu
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| Organization name |
University of Wisconsin
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| Department |
Genetics
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| Street address |
425G Henry mall
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| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53706 |
| Country |
USA |
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| Platforms (1) |
| GPL21656 |
Illumina HiSeq 4000 (Saccharomyces cerevisiae) |
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| Samples (83)
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| Relations |
| BioProject |
PRJNA1096291 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE263221_Batch1_Dutcher_barcode_cts.csv.gz |
266.3 Kb |
(ftp)(http) |
CSV |
| GSE263221_Batch2_Dutcher_barcode_cts.csv.gz |
409.1 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
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