Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of wild type yeast and a mutant deficient for intron degradation using a high density tiling array for genome-wide mapping of introns


ABSTRACT: High density yeast tiling array reveals new introns and extensive meiotic splicing regulation. Knowing gene structure is vital to understanding gene function, and accurate genome annotation is essential for understanding cellular function. To this end, we have developed an assay for genome-wide mapping of introns in Saccharomyces cerevisiae. Using high-density tiling arrays we compared wild type yeast to a mutant deficient for intron degradation. Our method identified 76% of the known introns, verified the existence of an additional 18 predicted introns, and revealed six new introns. Furthermore, we discovered that all 13 meiosis-specific intronic yeast genes undergo regulated splicing, which provides post-transcriptional regulation of the genes involved in yeast cell differentiation. Moreover, we found that >10% of intronic genes in yeast are incompletely spliced during exponential growth in rich media, suggesting that meiosis is not the only cellular function regulated by splicing. The method provides a clear snapshot of the spliced transcriptome in yeast. Our tiling array assay can be used to explore a variety of cellular environments and should be readily adaptable to the study of other organisms including humans.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Molly Miranda 

PROVIDER: E-MEXP-919 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing.

Juneau Kara K   Palm Curtis C   Miranda Molly M   Davis Ronald W RW  

Proceedings of the National Academy of Sciences of the United States of America 20070123 5


Knowing gene structure is vital to understanding gene function, and accurate genome annotation is essential for understanding cellular function. To this end, we have developed a genome-wide assay for mapping introns in Saccharomyces cerevisiae. Using high-density tiling arrays, we compared wild-type yeast to a mutant deficient for intron degradation. Our method identified 76% of the known introns, confirmed 18 previously predicted introns, and revealed 9 formerly undiscovered introns. Furthermor  ...[more]

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