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Climie, D.

Publications and source records attributed to Climie, D..

2 recordsLinked to original sources

Exploring roles for essential proteins in yeast filamentous growth identifies the WASP homolog Las17 as a regulator of the Cdc42-dependent fMAPK pathway

Cell differentiation into distinct cell types generates functional specialization in eukaryotic organisms. Many fungal species undergo filamentous growth, where cells differentiate into elongated and adhesive filaments capable of expansion and invasion into new environments. The budding yeast Saccharomyces cerevisiae also undergoes filamentous growth, and the regulatory pathways that control the response have been well characterized; however, the roles essential proteins play in this response have not been systematically explored. To address this gap in understanding, we constructed a collection of 332 temperature-sensitive (ts) alleles in 320 essential genes in a strain background that undergoes filamentous growth (called {Sigma}1278b or Sigma). The ts Sigma collection showed differences in temperature sensitivity compared to a ts laboratory strain collection, revealing unexpected phenotypic diversity in essential alleles across populations of individuals. Screening the ts Sigma collection for phenotypes related to filamentous growth uncovered new phenotypes for >35% of essential alleles. New regulators of the Mitogen-Activated Protein Kinase (MAPK) pathway that regulates filamentous growth (fMAPK) were identified, including Las17, a homolog of Wiskott-Aldrich Syndrome Protein (WASP) in humans. Las17 regulated the fMAPK pathway by promoting delivery of the sensor protein, Sho1, and Rho GTPase Cdc42 to the plasma membrane. Las17 also functioned as a hub coordinating separate parallel aspects of the filamentation response. The widespread roles for essential proteins in regulating a eukaryotic differentiation response suggest broader roles essential proteins than is currently appreciated.

genetics↗

A genome-scale yeast library with inducible expression of individual genes

The ability to switch a gene from off to on and monitor dynamic changes provides a powerful approach for probing gene function and elucidating causal regulatory relationships, including instances of feedback control. Here, we developed and characterized YETI (Yeast Estradiol strains with Titratable Induction), a collection in which 5,687 yeast genes are engineered for transcriptional inducibility with single-gene precision at their native loci and without plasmids. Each strain contains Synthetic Genetic Array (SGA) screening markers and a unique molecular barcode, enabling high-throughput yeast genetics. We characterized YETI using quantitative growth phenotyping and pooled BAR-seq screens, and we used a YETI allele to characterize the regulon of ROF1, showing that it is a transcriptional repressor. We observed that strains with inducible essential genes that have low native expression can often grow without inducer. Analysis of data from other eukaryotic and prokaryotic systems shows that low native expression is a critical variable that can bias promoter-perturbing screens, including CRISPRi. We engineered a second expression system, Z3EB42, that gives lower expression than Z3EV, a feature enabling both conditional activation and repression of lowly expressed essential genes that grow without inducer in the YETI library.

synthetic biology↗