The identification of functionally equivalent, orthologous genes (functional orthologs) across
genomes is necessary for accurate transfer of experimental knowledge from well …

Model systems have played a crucial role for understanding biological processes at genetic,
molecular and systems levels. Arabidopsis thaliana is one of the best studied model species …

We aim to enable the accurate and efficient transfer of knowledge about gene function
gained from Arabidopsis thaliana and other model organisms to other plant species. This …

Large numbers of sequences are now readily available for many plant species, allowing
easy identification of homologous genes. However, orthologous gene identification across …

Background Identifying functions for all gene products in all sequenced organisms is a
central challenge of the post-genomic era. However, at least 30-50% of the proteins …

Operon-like arrangements of genes occur in eukaryotes ranging from yeasts and
filamentous fungi to nematodes, plants, and mammals. In plants, several examples of …

Background In eukaryotic genomes, most genes are members of gene families. When
comparing genes from two species, therefore, most genes in one species will be …

Episodes of whole-genome duplication (WGD) followed by gene loss dominate the
evolutionary history of flowering plants. Despite the importance of understanding gene …

Duplicated genes can contribute to the evolution of new functions and they are common in
eukaryotic genomes. After duplication, genes can show divergence in their sequence and/or …

Background Theoretically, paralogous genes generated through whole genome
duplications should share identical expression levels due to their identical sequences and …