Nanopore sequencing enables near-complete de novo assembly of Saccharomyces cerevisiae reference strain CEN.PK113-7D Alex N. Salazar, Arthur R. Gorter de Vries, Marcel van den Broek, Melanie Wijsman, Pilar de la Torre Cortés, Anja Brickwedde, Nick Brouwers, Jean-Marc G. Daran, Thomas Abeel FEMS Yeast Research, Volume 17, Issue 7, 1 November 2017, fox74
Open-Access at FEMS Yeast: http://dx.doi.org/10.1093/femsyr/fox074
PubMed: https://www.ncbi.nlm.nih.gov/pubmed/28961779
All data is available under SRA project accession number PRJNA393501: https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA393501
The nature of the raw data is as follows:
- MinION long read data from single R9 run of CEN.PK113-7D (Frankfurt): https://www.ncbi.nlm.nih.gov/sra/SRX3058151
- Illumina paired-end data of CEN.PK113-7D (Frankfurt): https://www.ncbi.nlm.nih.gov/sra/SRX3058150
- Combined MinION long read data from R9 and R7.3 runs of CEN.PK113-7D (Delft ): https://www.ncbi.nlm.nih.gov/sra/SRX3084768
The assembly from the long reads of the Frankfurt sample, followed by long-read polishing using Nanopolish (https://github.com/jts/nanopolish) and short-read polishing with Pilon (https://github.com/broadinstitute/pilon) can be found under project code PCYP0
Genbank location: https://www.ncbi.nlm.nih.gov/nuccore/PCYP00000000.1
Fasta file and GFF annotations are hosted in this github respository.