• Publications
  • Influence
Modeling compositional heterogeneity.
  • P. Foster
  • Mathematics, Medicine
  • Systematic biology
  • 1 June 2004
It is shown using likelihood ratio tests that adequate modeling of compositional heterogeneity can be achieved with few composition parameters, that the data may not need to be modelled with separate composition parameters for each branch in the tree. Expand
Draft Genome Sequence of the Sexually Transmitted Pathogen Trichomonas vaginalis
The genome sequence of the protist Trichomonas vaginalis predicts previously unknown functions for the hydrogenosome, which support a common evolutionary origin of this unusual organelle with mitochondria. Expand
Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods.
This work presents a meta-analyses of the response of the immune system to the presence of EMTs, which shows clear patterns of decline in the immune systems of E.coli-positive mice. Expand
An archaeal origin of eukaryotes supports only two primary domains of life
These results provide support for only two primary domains of life—Archaea and Bacteria—because eukaryotes arose through partnership between them. Expand
The genome of the protist parasite Entamoeba histolytica
The genome of E. histolytica is presented, which reveals a variety of metabolic adaptations shared with two other amitochondrial protist pathogens: Giardia lamblia and Trichomonas vaginalis, and provides new insights into the workings and genome evolution of a major human pathogen. Expand
Compositional Bias May Affect Both DNA-Based and Protein-Based Phylogenetic Reconstructions
It is reported that DNA bias not only may affect phylogenetic analysis based on DNA sequences, but also drives a protein bias which may affect analyses based on protein sequences, and that even protein-based phylogenetic trees may be misleading. Expand
A congruent phylogenomic signal places eukaryotes within the Archaea
The results provide no support for the iconic three-domain tree of life, but are consistent with an extended eocyte hypothesis whereby vital components of the eukaryotic nuclear lineage originated from within the archaeal radiation. Expand
The archaebacterial origin of eukaryotes
The analyses favor a topology that supports the eocyte hypothesis rather than archaebacterial monophyly and the 3-domains tree of life, which is thought to be central to understanding the evolution of the eukaryotic cell. Expand
Trichomonas hydrogenosomes contain the NADH dehydrogenase module of mitochondrial complex I
Recruitment of complex I subunits into a H2-producing pathway provides evidence that mitochondria and hydrogenosomes are aerobic and anaerobic homologues of the same endosymbiotically derived organelle. Expand
Inference of the phylogenetic position of oxymonads based on nine genes: support for metamonada and excavata.
It is demonstrated that the genes are in conflict regarding the position of oxymonads, and a well-supported group of Metamonada that branched weakly with euglenozoans is recovered, providing conditional support for the existence of Excavata. Expand