Version 1
: Received: 26 November 2021 / Approved: 29 November 2021 / Online: 29 November 2021 (07:57:39 CET)
How to cite:
Martin-Hernandez, G.C.; Müller, B.; Brandt, C.; Hölzer, M.; Viehweger, A.; Passoth, V. Near Chromosome-Level Genome Assembly and Annotation of Rhodotorula babjevae Strains Reveals High Intraspecific Divergence. Preprints2021, 2021110517. https://doi.org/10.20944/preprints202111.0517.v1
Martin-Hernandez, G.C.; Müller, B.; Brandt, C.; Hölzer, M.; Viehweger, A.; Passoth, V. Near Chromosome-Level Genome Assembly and Annotation of Rhodotorula babjevae Strains Reveals High Intraspecific Divergence. Preprints 2021, 2021110517. https://doi.org/10.20944/preprints202111.0517.v1
Martin-Hernandez, G.C.; Müller, B.; Brandt, C.; Hölzer, M.; Viehweger, A.; Passoth, V. Near Chromosome-Level Genome Assembly and Annotation of Rhodotorula babjevae Strains Reveals High Intraspecific Divergence. Preprints2021, 2021110517. https://doi.org/10.20944/preprints202111.0517.v1
APA Style
Martin-Hernandez, G.C., Müller, B., Brandt, C., Hölzer, M., Viehweger, A., & Passoth, V. (2021). Near Chromosome-Level Genome Assembly and Annotation of <i>Rhodotorula babjevae</i> Strains Reveals High Intraspecific Divergence. Preprints. https://doi.org/10.20944/preprints202111.0517.v1
Chicago/Turabian Style
Martin-Hernandez, G.C., Adrian Viehweger and Volkmar Passoth. 2021 "Near Chromosome-Level Genome Assembly and Annotation of <i>Rhodotorula babjevae</i> Strains Reveals High Intraspecific Divergence" Preprints. https://doi.org/10.20944/preprints202111.0517.v1
Abstract
The genus Rhodotorula includes basidiomycetous oleaginous yeast species. R. babjevae can produce compounds of biotechnological interest such as lipids, carotenoids and biosurfactants from low value substrates such as lignocellulose hydrolysate. High-quality genome assemblies are needed to develop genetic tools and to understand fungal evolution and genetics. Here, we combined short- and long-read sequencing to resolve the genomes of two R. babjevae strains, CBS 7808 (type strain) and DBVPG 8058 at chromosomal level. Both genomes have a size of 21 Mbp and a GC content of 68.2%. Allele frequency analysis indicated tetraploidy in both strains. They harbor 21 putative chromosomes with sizes ranging from 0.4 to 2.4 Mb. In both assemblies, the mitochondrial genome was recovered in a single contig, which shared 97% pairwise identity. The pairwise identity between the majority of chromosomes ranges from 82% to 87%. We found indications for strain-specific extrachromosomal endogenous DNA. 7,591 protein-coding genes and 7,607 associated transcripts were annotated in CBS 7808 and 7,481 protein-coding genes and 7,516 associated transcripts in DBVPG 8058. CBS 7808 has accumulated a higher number of tandem duplications than DBVPG 8058. We identified large translocation events between putative chromosomes and a high genetic divergence between the two strains.
Biology and Life Sciences, Immunology and Microbiology
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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