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Comparative Analysis of Authenticated Genomic and Phenotypic Data for Yarrowia lipolytica Reference Strains

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46th Symposium on Biomaterials, Fuels and Chemicals (SBFC)

Alexandria, Virginia, United States

April 28, 2024


Yarrowia lipolytica stands as a pivotal microbial platform in the realm of bioindustrial applications. This presentation delves into a comparative analysis encompassing genomic and phenotypic data from over 30 haploid and diploid strains of Y. lipolytica within the ATCC reference collection. Employing long-read (Oxford Nanopore) and short-read (Illumina) sequencing technologies, we pursued whole-genome sequencing and de novo hybrid assembly for each strain, all conducted under ISO 9000 quality standards at ATCC.

Phylogenetic scrutiny revealed five distinct sub-clades among Y. lipolytica reference strains, unveiling conserved alleles within shared metabolic pathways. Subsequently, representative strains from each sub-clade underwent comprehensive phenotypic profiling on the Biolog Omnilog platform. Discrepancies in metabolic responsiveness to diverse growth conditions correlated with allelic distinctions within each subclade. This multidimensional approach identifies strains boasting optimal traits for augmented biofuel and biomaterials synthesis.

This presentation not only provides an overview of foundational reference data, accessible through the ATCC Genome Portal (, but also imparts key insights facilitating future genetic engineering endeavors. By optimizing Y. lipolytica strains, our study contributes to the sustainable evolution of bioindustrial applications, propelling advancements in biofuel and biomaterials production.

Download the poster to learn about our multidimensional approach for identifying strains with biofuel applications.



Jonathan Jacobs, headshot.

Jonathan Jacobs, PhD

Senior Director of Bioinformatics, ATCC

Dr. Jonathan Jacobs leads ATCC’s Sequencing & Bioinformatics Center and the development of the ATCC Genome Portal. He has over 20 years of experience in molecular genetics, bioinformatics, and microbial genomics, and he has worked throughout his career at the interface of academia, government, and industry. He holds a joint Research Professor appointment at Syracuse University’s Forensic & National Security Sciences Institute in support of microbial forensics graduate student training and research, and he actively collaborates with several US public health laboratories involved in pathogen genomics research and surveillance. Dr. Jacobs is also certified in Product Management from Pragmatic Institute, and he has led successful commercial launches of several bioinformatics products into the market.

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