Welcome to Bagheera
If you use Bagheera, please cite Mühlhausen S and Kollmar M Predicting the fungal CUG codon translation with Bagheera BMC Genomics 2014, 15:411
For more information on the CTG codon usage in yeasts you might be interested in reading Mühlhausen S and Kollmar M Molecular Phylogeny of Sequenced Saccharomycetes Reveals Polyphyly of the Alternative Yeast Codon Usage Genome Biol Evol 2014, 6:3222-37.
The novel CTG translation found in P. tannophilus is described in Mühlhausen S, Findeisen P, Plessmann U, Urlaub H, Kollmar M A novel nuclear genetic code alteration in yeasts and the evolution of codon reassignment in eukaryotesGenome Res 2016, 26:945-55.
Scope of Bagheera
The translation of DNA into protein is not identical in all organisms. Some yeasts use an alternative translation of the leucine CUG codon. In the Schizosaccharomyces and the Saccharomyces clades CUG is translated as leucine, while species of the “Candida clade” translate CUG as serine, and, as we recently found, Pachysolen tannophilus translates CUG as alanine.
Species names are not sufficient to assign the correct translation scheme. In detail, some species with telemorph or anamorph named Candida translate CUG as leucine. In the figure, all species with telemorph or anamorph named Candida are highlighted in bold.
This webserver is designed to detect the most probable translation scheme of a given yeast species.