As more complete genomes are sequenced, phylogenetic analysis is entering a new era—
that of phylogenomics. One branch of this expanding field aims to reconstruct the …

To what extent is the tree of life the best representation of the evolutionary history of
microorganisms? Recent work has shown that, among sets of prokaryotic genomes in which …

The class Alphaproteobacteria is comprised of a diverse assemblage of Gram-negative
bacteria that includes organisms of varying morphologies, physiologies and habitat …

It is now well known that incomplete lineage sorting can cause serious difficulties for
phylogenetic inference, but little attention has been paid to methods that attempt to …

The mechanisms that underlie the origin of major prokaryotic groups are poorly understood.
In principle, the origin of both species and higher taxa among prokaryotes should entail …

Phylogenomics refers to the inference of historical relationships among species using
genome-scale sequence data and to the use of phylogenetic analysis to infer protein …

Genomes hold within them the record of the evolution of life on Earth. But genome fusions
and horizontal gene transfer seem to have obscured sufficiently the gene sequence record …

▪ Abstract The continuous flow of genomic data is creating unprecedented opportunities for
the reconstruction of molecular phylogenies. Access to whole-genome data means that …

Given the considerable promise whole-genome sequencing offers for phylogeny and
classification, it is surprising that microbial systematics and genomics have not yet been …

Analyses of 55 individual and 31 concatenated protein data sets encoded in Reclinomonas
americana and Marchantia polymorpha mitochondrial genomes revealed that current …