Functional Analysis With a Barcoder Yeast Gene Overexpression System

Abstract Systematic analysis of gene overexpression phenotypes provides an insight into gene function, enzyme targets, and biological pathways. Here, we describe a novel functional genomics platform that enables a highly parallel and systematic assessment of overexpression phenotypes in pooled cultu...

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Bibliographic Details
Published in:G3 : genes - genomes - genetics 2012-10, Vol.2 (10), p.1279-1289
Main Authors: Douglas, Alison C, Smith, Andrew M, Sharifpoor, Sara, Yan, Zhun, Durbic, Tanja, Heisler, Lawrence E, Lee, Anna Y, Ryan, Owen, Göttert, Hendrikje, Surendra, Anu, van Dyk, Dewald, Giaever, Guri, Boone, Charles, Nislow, Corey, Andrews, Brenda J
Format: Article
Language:English
Subjects:
Computational Biology - methods
DNA Barcoding, Taxonomic
Fungal Proteins - genetics
Fungal Proteins - metabolism
Gene Expression
Gene Expression Profiling
Genome, Fungal
Genomics - methods
Investigations
Saccharomyces cerevisiae - genetics
Saccharomyces cerevisiae - metabolism
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Summary:Abstract Systematic analysis of gene overexpression phenotypes provides an insight into gene function, enzyme targets, and biological pathways. Here, we describe a novel functional genomics platform that enables a highly parallel and systematic assessment of overexpression phenotypes in pooled cultures. First, we constructed a genome-level collection of ~5100 yeast barcoder strains, each of which carries a unique barcode, enabling pooled fitness assays with a barcode microarray or sequencing readout. Second, we constructed a yeast open reading frame (ORF) galactose-induced overexpression array by generating a genome-wide set of yeast transformants, each of which carries an individual plasmid-born and sequence-verified ORF derived from the Saccharomyces cerevisiae full-length EXpression-ready (FLEX) collection. We combined these collections genetically using synthetic genetic array methodology, generating ~5100 strains, each of which is barcoded and overexpresses a specific ORF, a set we termed “barFLEX.” Additional synthetic genetic array allows the barFLEX collection to be moved into different genetic backgrounds. As a proof-of-principle, we describe the properties of the barFLEX overexpression collection and its application in synthetic dosage lethality studies under different environmental conditions.
ISSN:2160-1836
2160-1836
DOI:10.1534/g3.112.003400