Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres

Luttermann T, Rückert C, Wibberg D, Busche T, Schwarzhans J-P, Friehs K, Kalinowski J (2021)
NAR Genomics and Bioinformatics 3(4): 13.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
Yarrowia lipolytica is an oleaginous yeast that is particularly suitable for the sustainable production of secondary metabolites. The genome of this yeast is characterized by its relatively large size and its high number of different rDNA clusters located in its telomeric regions. However, due to the presence of long repetitive elements in the sub-telomeric regions, rDNA clusters and telomeres are missing in current genome assemblies of Y. lipolytica. Here, we present the near-contiguous genome sequence of the biotechnologically relevant strain DSM 3286. We employed a hybrid assembly strategy combining Illumina and nanopore sequencing reads to integrate all six rDNA clusters as well as telomeric repeats into the genome sequence. By fine-tuning of DNA isolation and library preparation protocols, we were able to create ultra-long reads that not only contained multiples of mitochondrial genomes but also shed light on the inter- and intra-chromosomal diversity of rDNA cluster types. We show that there are ten different rDNA units present in this strain that additionally appear in a predefined order in a cluster. Based on single reads, we also demonstrate that the number of rDNA repeats in a specific cluster varies from cell to cell within a population.
Erscheinungsjahr
2021
Zeitschriftentitel
NAR Genomics and Bioinformatics
Band
3
Ausgabe
4
Seite(n)
13
eISSN
2631-9268
Finanzierungs-Informationen
Open-Access-Publikationskosten wurden durch die Universität Bielefeld gefördert.
Page URI
https://pub.uni-bielefeld.de/record/2958416

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Luttermann T, Rückert C, Wibberg D, et al. Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres. NAR Genomics and Bioinformatics. 2021;3(4):13.
Luttermann, T., Rückert, C., Wibberg, D., Busche, T., Schwarzhans, J. - P., Friehs, K., & Kalinowski, J. (2021). Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres. NAR Genomics and Bioinformatics, 3(4), 13. https://doi.org/10.1093/nargab/lqab085
Luttermann, T., Rückert, C., Wibberg, D., Busche, T., Schwarzhans, J. - P., Friehs, K., and Kalinowski, J. (2021). Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres. NAR Genomics and Bioinformatics 3, 13.
Luttermann, T., et al., 2021. Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres. NAR Genomics and Bioinformatics, 3(4), p 13.
T. Luttermann, et al., “Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres”, NAR Genomics and Bioinformatics, vol. 3, 2021, pp. 13.
Luttermann, T., Rückert, C., Wibberg, D., Busche, T., Schwarzhans, J.-P., Friehs, K., Kalinowski, J.: Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres. NAR Genomics and Bioinformatics. 3, 13 (2021).
Luttermann, Tobias, Rückert, Christian, Wibberg, Daniel, Busche, Tobias, Schwarzhans, Jan-Philipp, Friehs, Karl, and Kalinowski, Jörn. “Establishment of a near-contiguous genome sequence of the citric acid producing yeast DSM 3286 with resolution of rDNA clusters and telomeres”. NAR Genomics and Bioinformatics 3.4 (2021): 13.
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2021-10-21T06:19:22Z
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