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RNA. 2017 Aug;23(8):1166-1171. doi: 10.1261/rna.061564.117. Epub 2017 May 3.

A resource for functional profiling of noncoding RNA in the yeast Saccharomyces cerevisiae.

Author information

1
Division of Evolution & Genomic Sciences.
2
Division of Molecular and Cellular Function, Faculty of Biology, Medicine and Health, The University of Manchester, Manchester M13 9PT, United Kingdom.
3
Department of Microbiology and Immunology, Faculty of Pharmacy, Minia University, Minya 11432, Egypt.
4
Division of Evolution & Genomic Sciences, d.delneri@manchester.ac.uk rokeefe@manchester.ac.uk.
5
Division of Molecular and Cellular Function, Faculty of Biology, Medicine and Health, The University of Manchester, Manchester M13 9PT, United Kingdom d.delneri@manchester.ac.uk rokeefe@manchester.ac.uk.

Abstract

Eukaryotic genomes are extensively transcribed, generating many different RNAs with no known function. We have constructed 1502 molecular barcoded ncRNA gene deletion strains encompassing 443 ncRNAs in the yeast Saccharomyces cerevisiae as tools for ncRNA functional analysis. This resource includes deletions of small nuclear RNAs (snRNAs), transfer RNAs (tRNAs), small nucleolar RNAs (snoRNAs), and other annotated ncRNAs as well as the more recently identified stable unannotated transcripts (SUTs) and cryptic unstable transcripts (CUTs) whose functions are largely unknown. Specifically, deletions have been constructed for ncRNAs found in the intergenic regions, not overlapping genes or their promoters (i.e., at least 200 bp minimum distance from the closest gene start codon). The deletion strains carry molecular barcodes designed to be complementary with the protein gene deletion collection enabling parallel analysis experiments. These strains will be useful for the numerous genomic and molecular techniques that utilize deletion strains, including genome-wide phenotypic screens under different growth conditions, pooled chemogenomic screens with drugs or chemicals, synthetic genetic array analysis to uncover novel genetic interactions, and synthetic dosage lethality screens to analyze gene dosage. Overall, we created a valuable resource for the RNA community and for future ncRNA research.

KEYWORDS:

noncoding RNA; snRNA; snoRNA; tRNA; yeast

PMID:
28468764
PMCID:
PMC5513061
DOI:
10.1261/rna.061564.117
[Indexed for MEDLINE]
Free PMC Article

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