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Where does fission yeast sit on the tree of life?

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Phylogenomic Insights into Animal Evolution

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Comparative Analysis of Superintegrons: Engineering Extensive Genetic Diversity in the VibrionaceaePreprint

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Ancient Rapid Radiations of Insects: Challenges for Phylogenetic Analysis

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Inventing the dynamo machine: the evolution of the F-type and V-type ATPases

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Evolution of the gyrB gene and the molecular phylogeny of Enterobacteriaceae: a model molecule for molecular systematic studies.

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Genes of the most conserved WOX clade in plants affect root and flower development in Arabidopsis

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Archaeal Phylogeny Based on Ribosomal Proteins

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Phylogeny of Ultra-Rapidly Evolving Dinoflagellate Chloroplast Genes: A Possible Common Origin for Sporozoan and Dinoflagellate Plastids

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Ancient Phylogenetic Relationships

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An updated view of kinetoplastid phylogeny using environmental sequences and a closer outgroup: proposal for a new classification of the class Kinetoplastea

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Improvement of molecular phylogenetic inference and the phylogeny of Bilateria

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Molecular evolutionary relationships between partulid land snails of the Pacific

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Dating the common ancestor of SIVcpz and HIV‐1 group M and the origin of HIV‐1 subtypes by using a new method to uncover clock‐like molecular evolution

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Sequence Alignment of 18S Ribosomal RNA and the Basal Relationships of Adephagan Beetles: Evidence for Monophyly of Aquatic Families and the Placement of Trachypachidae

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The nature of the last universal common ancestor

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A phylogeny of the land snails (Gastropoda: Pulmonata)

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Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum

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Rooting the Domain Archaea by Phylogenomic Analysis Supports the Foundation of the New Kingdom Proteoarchaeota

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Phylogeny of eukaryotes based on ribosomal RNA: Long-branch attraction and models of sequence evolution

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Rodent Evolution: Back to the Root

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Phylogenetic analysis of Magnoliales and Myristicaceae based on multiple data sets: implications for character evolution

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Nuclear versus mitochondrial DNA: evidence for hybridization in colobine monkeys

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Loss of the flagellum happened only once in the fungal lineage: phylogenetic structure of kingdom Fungi inferred from RNA polymerase II subunit genes.

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Re‐examining Alveolate Evolution Using Multiple Protein Molecular Phylogenies

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The Peroxidase Gene Family in Plants: A Phylogenetic Overview

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Phylogeny and Comparative Substitution Rates of Frogs Inferred from Sequences of Three Nuclear Genes

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Molecular phylogenetics of Vespoidea indicate paraphyly of the superfamily and novel relationships of its component families and subfamilies

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Total evidence requires exclusion of phylogenetically misleading data

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Compartment-Specific Isoforms of TPI and GAPDH are Imported into Diatom Mitochondria as a Fusion Protein: Evidence in Favor of a Mitochondrial Origin of the Eukaryotic Glycolytic Pathway

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Recent advances in Blastocystis hominis research: hot spots in terra incognita

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A Survey of Flagellate Diversity at Four Deep‐Sea Hydrothermal Vents in the Eastern Pacific Ocean Using Structural and Molecular Approaches

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Phylogenomics of type II DNA topoisomerases

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Conflicting phylogenetic signals at the base of the metazoan tree

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Where Do Rodents Fit? Evidence from the Complete Mitochondrial Genome of Sciurus vulgaris

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Lineage-Specific Evolutionary Rate in Mammalian mtDNA

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Phylogeny of the genera Entamoeba and Endolimax as deduced from small- subunit ribosomal RNA sequences

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Phylogenetic Analysis of Molluscan Mitochondrial LSU rDNA Sequences and Secondary Structures

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Nuclear protein phylogenies support the monophyly of the three bryophyte groups (Bryophyta Schimp.)

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Evolution of Cyclin-Dependent Kinases (CDKs) and CDK-Activating Kinases (CAKs): Differential Conservation of CAKs in Yeast and Metazoa

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Error in Phylogenetic Estimation for Bushes in the Tree of Life

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Mitochondrial genomes of parasitic arthropods: implications for studies of population genetics and evolution

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Widespread Occurrence of a Novel Division of Bacteria Identified by 16S rRNA Gene Sequences Originally Found in Deep Marine Sediments

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The new phylogeny of eukaryotes

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Evolution of the Archaea

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Phylogenetic Inferences from Molecular Sequences: Review and Critique

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A multi criterion approach for the selection of optimal outgroups in phylogeny: recovering some support for Mandibulata over Myriochelata using mitogenomics.

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Phylogenetic Analyses of Small Subunit Ribosomal RNA Coding Regions Reveal a Monophyletic Lineage of Euglyphid Testate Amoebae (Order Euglyphida)

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Evolution and Phylogenetic Utility of Alignment Gaps Within Intron Sequences of Three Nuclear Genes in Bumble Bees (Bombus)

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Rooting a Phylogeny with Homologous Genes on Opposite Sex Chromosomes (Gametologs): A Case Study Using Avian CHD

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On the origin of the Hirudinea and the demise of the Oligochaeta

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Phylogeny of 33 ribosomal and six other proteins encoded in an ancient gene cluster that is conserved across prokaryotic genomes: influence of excluding poorly alignable sites from analysis.

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Molecular phylogeny of Zygomycota based on EF-1α and RPB1 sequences: limitations and utility of alternative markers to rDNA

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What is the phylogenetic position of Cryptosporidium?

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Patterns of septal biomineralization in Scleractinia compared with their 28S rRNA phylogeny: a dual approach for a new taxonomic framework

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Bacterial molecular phylogeny using supertree approach.

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Phylogenetic Signal, Congruence, and Uncertainty across Bacteria and Archaea

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DOI: 10.1080/10635150500234609 An Empirical Assessment of Long-Branch Attraction Artefacts in Deep

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An Empirical Assessment of Long-Branch Attraction Artefacts in Deep Eukaryotic Phylogenomics

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Ancient Phylogenetic Relationships

Gribaldo, S., & Philippe, H. (2002) · Theoretical Population Biology · doi:10.1006/tpbi.2002.1593 · Cited by 314 · see citing works

"Early-Diverging" Lineages Provide Little Information about Ancestors

Beaulieu, J. M., Alverson, A. J., & O’Meara, B. C. (2026) · Systematic Biology · doi:10.1093/sysbio/syag074

Fast-Evolving Alignment Sites Are Highly Informative for Reconstructions of Deep Tree of Life Phylogenies

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