Jun 24, 2017

De novo yeast genome assemblies from MinION, PacBio and MiSeq platforms

Scientific Reports
Francesca GiordanoZemin Ning

Abstract

Long-read sequencing technologies such as Pacific Biosciences and Oxford Nanopore MinION are capable of producing long sequencing reads with average fragment lengths of over 10,000 base-pairs and maximum lengths reaching 100,000 base- pairs. Compared with short reads, the assemblies obtained from long-read sequencing platforms have much higher contig continuity and genome completeness as long fragments are able to extend paths into problematic or repetitive regions. Many successful assembly applications of the Pacific Biosciences technology have been reported ranging from small bacterial genomes to large plant and animal genomes. Recently, genome assemblies using Oxford Nanopore MinION data have attracted much attention due to the portability and low cost of this novel sequencing instrument. In this paper, we re-sequenced a well characterized genome, the Saccharomyces cerevisiae S288C strain using three different platforms: MinION, PacBio and MiSeq. We present a comprehensive metric comparison of assemblies generated by various pipelines and discuss how the platform associated data characteristics affect the assembly quality. With a given read depth of 31X, the assemblies from both Pacific Biosciences and Oxford Nanopore MinION...Continue Reading

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Mentioned in this Paper

Repetitive Region
Genome
Saccharomyces cerevisiae allergenic extract
Reconstructive Surgical Procedures
Yeasts
Nucleic Acid Sequencing
Genomics
Sequencing
Genome, Fungal
Nuclear Chromosome

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