Circular De Novo Assembly of Organelle Genomes

Circular genomes, such as viruses, bacteria, mitochondria and plasmids, are common. However, assembly of such genomes can be difficult in the absence of a reference genome, as most de novo assemblers do not account for circularity and produce linear sequences with an arbitrarily defined start and end.

The Geneious de novo assembler overcomes these issues by allowing contigs to circularize during the assembly process. In this study we assemble two mitochondrial genomes from short-read NGS sequence data using the Geneious de novo assembler and compare the results with assemblies produced by Velvet, MIRA and SPAdes.

Circular de novo Assembly App Note