Detection and Phylogenetic Assessment of Conserved Synteny Derived from Whole Genome Duplications

Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 855)

Abstract

Identification of intragenomic conservation of gene compositions in multiple chromosomal segments led to evidence of whole genome (WGDs) duplications. The process by which WGDs have been maintained and decayed provides us with clues for understanding how the genome evolves. In this chapter, we summarize current understanding of phylogenetic distribution and evolutionary impact of WGDs, introduce basic procedures to detect conserved synteny, and discuss typical pitfalls, as well as biological insights.

Key words

Whole genome duplication Conserved synteny Chromosome rearrangement Differential gene loss Hidden paralogy 

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Copyright information

© Springer Science+Business Media, LLC 2012

Authors and Affiliations

  1. 1.Genome Resource and Analysis UnitRIKEN Center for Developmental BiologyKobeJapan
  2. 2.Department of BiologyUniversity of KonstanzConstanceGermany

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