Microbial sequence assembly

Abstract Microbial genomes are assembled by the whole‐genome shotgun method, where random sequencing is performed to high redundancy and the sequencing reads are assembled en masse. Although the early microbial genome projects relied on a large insert clone tiling path and a clone‐by‐clone sequencing approach, current assembly software makes it possible to overcome challenges posed by repeated sequences and perform whole‐genome shotgun assemblies.