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Genome sequence assembly and annotation of MATA and MATB strains of Yarrowia lipolytica

Zali, Narges12; El Demerdash, Osama1; Chougule, Kapeel1; Lu, Zhenyuan1; Ware, Doreen13; Stillman, Bruce1

Research facility: Cold Spring Harbor Laboratory
Published Oct 12, 2025 on Dryad. https://doi.org/10.5061/dryad.v15dv427f

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Abstract

Yeast is commonly utilized in molecular and cell biology research, and Yarrowia lipolytica is favored by bio-engineers due to its ability to produce copious amounts of lipids, chemicals, and enzymes for industrial applications. Y. lipolytica is a dimorphic yeast that can proliferate in aerobic and hydrophobic environments conducive to industrial use. However, there is limited knowledge about the basic molecular biology of this yeast, including how the genome is duplicated and how gene silencing occurs. Genome sequences of Y. lipolytica strains have offered insights into the genetic basis of this yeast species and have facilitated the development of new industrial applications. Although previous studies have reported the genome sequence of a few Y. lipolytica strains, it is of value to have more precise sequences and annotation, particularly for studies of the biology of this yeast. To further study and characterize the molecular biology of this microorganism, a high-quality reference genome assembly and annotation has been produced for two related Y. lipolytica strains of the opposite mating type, MATA (E122) and MATB (22301-5). The combination of short-read and long-read sequencing of genome DNA and short-read and long-read sequencing of transcript cDNAs allowed the genome assembly and a comparison with a distantly related Yarrowia strain.