We constructed a concatenated alignment of 574
orthologous genes and conducted statistical model selection as in a previous study (5) and, on that alignment, constructed a maximum-likelihood phylogeny by PhyML (7).
MitoCOGs: Clusters of
orthologous genes from mitochondria and implications for the evolution of eukaryotes.
We searched for
orthologous genes of these three genes for which the detailed function had been discovered in placental mammals; there were no one-to-one
orthologous genes and only many-to-many
orthologous genes (Table 5).
Significant differences in functions can be reported between
orthologous genes with highly similar sequences.
metallicus, lack
orthologous genes to pitA and [P.sub.i] is also supposed to be exported after a copper shift in those species.
The predicted proteomes were used with OrthoFinder [39] to identify
orthologous genes.
The parameter settings were as follows: minimum identity between
orthologous genes, 0.05 and maximum false discovery rate on motif similarity, 0.001.
The parameters were set as follows: minimum identity between
orthologous genes: 0.05 and maximum false discovery rate on motif similarity: 0.001.
Characterization of AtSTOP1
orthologous genes in tobacco and other plant species.
A major feature of our approach is the fact that it relied on a pathway enrichment analysis, thereby allowing comparisons to be made between species without the need to rely on a limited subset of
orthologous genes. In this context, it is worth contrasting our findings with those of Iskar et al.
evansi
orthologous genes that encode for these hypothetical proteins.