Annotation of Protein-Coding Genes in Plant Genomes.

Advances in next-generation sequencing technologies and the lower sequencing costs are paving the way to more plant genome sequencing, assembly, and annotation projects. While genome assembly is the first step toward elucidating the genome structure of a species, it is the annotation of the protein-coding genes that provide meaningful information to biologists. However, genome annotation is not a trivial task. Therefore, the aim of this chapter is to provide a detailed view of this important process, including tools and commands that can be used to carry out such a process.