Chapter 9 Reconciliation Approaches to Determining HGT, Duplications, and Losses in Gene Trees

Publication date: 2014 Source:Methods in Microbiology, Volume 41 Author(s): Olga K. Kamneva , Naomi L. Ward Bacterial genome content varies greatly, even between closely related species, due to processes such as gene duplication, loss, and horizontal gene transfer (HGT). New genes derived from duplication or HGT give rise to new molecular functions within microbial genomes. Therefore, an in-depth understanding of gene family evolution is fundamental to bacterial genome annotation and gene function prediction. The genomic content of ancestral bacterial species is also of interest. This unit provides a general introduction to gene and genome history reconciliation, as implemented in various statistical frameworks. Several real data analysis problems are used to illustrate the principles of different reconciliation techniques. Explicit analysis protocols for use with various software programs are included with the chapter.
Source: Methods in Microbiology - Category: Microbiology Source Type: research