1. Validating genome-wide CRISPR-Cas9 function in the non-conventional yeast Yarrowia lipolytica
- Author
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Yasuo Yoshikuni, Robert Evans, Anglin S, Schwartz Ca, Jan Fang Cheng, Weihua Pan, Beitz A, Ian Wheeldon, Hal S. Alper, Stefano Lonardi, Mark Blenner, Cory Schwartz, and James M. Wagner
- Subjects
0303 health sciences ,DNA repair ,Yarrowia ,Computational biology ,Biology ,biology.organism_classification ,Genome ,03 medical and health sciences ,Synthetic biology ,0302 clinical medicine ,Genome editing ,CRISPR ,Gene ,030217 neurology & neurosurgery ,Function (biology) ,030304 developmental biology - Abstract
Genome-wide mutational screens are central to understanding the genetic underpinnings of evolved and engineered phenotypes. The widespread adoption of CRISPR-Cas9 genome editing has enabled such screens in many organisms, but identifying functional sgRNAs still remains a challenge. To address this limitation, we developed a methodology to quantify the cutting efficiency of each sgRNA in a genome-scale library in the biotechnologically important yeast Yarrowia lipolytica. Screening in the presence and absence of native DNA repair enabled high-throughput quantification of sgRNA function leading to the identification of high efficiency sgRNAs that cover 94% of genes. Library validation enhanced the classification of essential genes by identifying inactive guides that create false negatives and mask the effects of successful disruptions. Quantification of guide effectiveness also creates a dataset from which functional determinants of CRISPR-Cas9 can be identified. Finally, application of the library identified mutations that led to high lipid accumulation and eliminated pseudohyphal morphology.
- Published
- 2018
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