Fractionation, rearrangement and subgenome dominance.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 22962459.
- Also identified by DOI 10.1093/bioinformatics/bts392 and PMC identifier 3436819.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
Fractionation is arguably the greatest cause of gene order disruption following whole genome duplication, causing severe biases in chromosome rearrangement-based estimates of evolutionary divergence. We show how to correct for this bias almost entirely by means of a 'consolidation' algorithm for detecting and suitably transforming identifiable regions of fractionation. We characterize the process of fractionation and the performance of the algorithm through realistic simulations. We apply our method to a number of core eudicot genomes, we and by studying the fractionation regions detected, are able to address topical issues in polyploid evolution. Code for the consolidation algorithm, and sample data, is available at: http://137.122.149.195/Software/Fractionation/fractionation.html sankoff@uottawa.ca.
Medical subject headings
- Algorithms
- Evolution, Molecular
- Genome