Tags

Type your tag names separated by a space and hit enter

High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing.
Proc Natl Acad Sci U S A. 2007 Jan 30; 104(5):1522-7.PN

Abstract

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. Furthermore, we discovered that all 13 meiosis-specific intronic yeast genes undergo regulated splicing, which provides posttranscriptional regulation of the genes involved in yeast cell differentiation. Moreover, we found that approximately 16% of intronic genes in yeast are incompletely spliced during exponential growth in rich medium, which suggests that meiosis is not the only biological process regulated by splicing. Our tiling-array assay provides a snapshot of the spliced transcriptome in yeast. This robust methodology can be used to explore environmentally distinct splicing responses and should be readily adaptable to the study of other organisms, including humans.

Links

PMC Free PDF
PMC Free Full Text
Publisher Full Text
pnas.org
pnas.org

Authors+Show Affiliations

Juneau K
Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA. kjuneau@stanford.edu
Palm C
No affiliation info available
Miranda M
No affiliation info available
Davis RW
No affiliation info available

MeSH

Alternative SplicingCell DifferentiationComputational BiologyCulture MediaGene Expression Regulation, FungalGenes, FungalGenome, FungalIntronsMeiosisMolecular Sequence DataOligonucleotide Array Sequence AnalysisOpen Reading FramesRNA SplicingSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsSoftware

Pub Type(s)

Journal Article
Research Support, N.I.H., Extramural

Language

eng

PubMed ID

17244705

Citation

Juneau, Kara, et al. "High-density Yeast-tiling Array Reveals Previously Undiscovered Introns and Extensive Regulation of Meiotic Splicing." Proceedings of the National Academy of Sciences of the United States of America, vol. 104, no. 5, 2007, pp. 1522-7.
Juneau K, Palm C, Miranda M, et al. High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proc Natl Acad Sci U S A. 2007;104(5):1522-7.
Juneau, K., Palm, C., Miranda, M., & Davis, R. W. (2007). High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. Proceedings of the National Academy of Sciences of the United States of America, 104(5), 1522-7.
Juneau K, et al. High-density Yeast-tiling Array Reveals Previously Undiscovered Introns and Extensive Regulation of Meiotic Splicing. Proc Natl Acad Sci U S A. 2007 Jan 30;104(5):1522-7. PubMed PMID: 17244705.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing. AU - Juneau,Kara, AU - Palm,Curtis, AU - Miranda,Molly, AU - Davis,Ronald W, Y1 - 2007/01/23/ PY - 2007/1/25/pubmed PY - 2007/3/10/medline PY - 2007/1/25/entrez SP - 1522 EP - 7 JF - Proceedings of the National Academy of Sciences of the United States of America JO - Proc Natl Acad Sci U S A VL - 104 IS - 5 N2 - 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. Furthermore, we discovered that all 13 meiosis-specific intronic yeast genes undergo regulated splicing, which provides posttranscriptional regulation of the genes involved in yeast cell differentiation. Moreover, we found that approximately 16% of intronic genes in yeast are incompletely spliced during exponential growth in rich medium, which suggests that meiosis is not the only biological process regulated by splicing. Our tiling-array assay provides a snapshot of the spliced transcriptome in yeast. This robust methodology can be used to explore environmentally distinct splicing responses and should be readily adaptable to the study of other organisms, including humans. SN - 0027-8424 UR - https://www.unboundmedicine.com/medline/citation/17244705/High_density_yeast_tiling_array_reveals_previously_undiscovered_introns_and_extensive_regulation_of_meiotic_splicing_ L2 - http://www.pnas.org/cgi/pmidlookup?view=long&pmid=17244705 DB - PRIME DP - Unbound Medicine ER -