whole - genome assembly of a wild type yeast isolate

The introduction of the MinION sequencing device by Oxford Background: Nanopore Technologies may greatly accelerate whole genome sequencing. It has been shown that the nanopore sequence data, in combination with other sequencing technologies, is highly useful for accurate annotation of all genes in the genome. However, it also offers great potential for assembly of de novo complex genomes without using other technologies. In this manuscript we used nanopore sequencing as a tool to classify yeast strains. We compared various technical and software developments for the Methods: nanopore sequencing protocol, showing that the R9 chemistry is, as predicted, higher in quality than R7.3 chemistry. The R9 chemistry is an essential improvement for assembly of the extremely AT-rich mitochondrial genome. In this study, we used this new technology to sequence and Results: de novo assemble the genome of a recently isolated ethanologenic yeast strain, and compared the results with those obtained by classical Illumina short read sequencing. This strain was originally named ( Candida vartiovaarae Torulopsis ) based on ribosomal RNA sequencing. We show that the vartiovaarae assembly using nanopore data is much more contiguous than the assembly using short read data. The mitochondrial and chromosomal genome sequences showed Conclusions: that our strain is clearly distinct from other yeast taxons and most closely related to published species. In conclusion, MinION-mediated Cyberlindnera long read sequencing can be used for high quality assembly of new de novo eukaryotic microbial genomes. This article is included in the Nanopore Analysis gateway. 1 1 2 2