<i>De Novo</i> Assembly of Bacterial Genomes: Using Mate Pair Technology and the MiSeq® System to Generate High-Quality Genome Assemblies

Mate pair sequencing offers a cost-effective strategy, delivering long contigs, high genomic coverage, and high-quality genome assemblies quickly and at a low cost per sample. The Nextera® Mate Pair Sample Preparation Kit provides an affordable, easy-to-use solution for mate pair sequencing, generating DNA libraries from as little as 1 μg of DNA. This application note describes how to use the Nextera kit, the MiSeq desktop sequencer, and the BaseSpace® Nextera Mate Pair Assembly App for de novo assembly of nine bacterial specimens in less than 4 days.