• Publications
  • Influence
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
TLDR
A new statistical method for estimating divergence dates of species from DNA sequence data by a molecular clock approach is developed, and this dating may pose a problem for the widely believed hypothesis that the bipedal creatureAustralopithecus afarensis, which lived some 3.7 million years ago, was ancestral to man and evolved after the human-ape splitting. Expand
Multiple Comparisons of Log-Likelihoods with Applications to Phylogenetic Inference
TLDR
A modification of the KH test to take into account a multiplicity of testings is presented, which shows how the test was designed for comparing two topologies but is often used for comparing many topologies. Expand
CONSEL: for assessing the confidence of phylogenetic tree selection
TLDR
UNLABELLED CONSEL is a program to assess the confidence of the tree selection by giving the p-values for the trees using the multi-scale bootstrap technique, which is less biased than the other conventional p- values. Expand
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea
TLDR
A new method for estimating the variance of the difference between log likelihood of different tree topologies is developed by expressing it explicitly in order to evaluate the maximum likelihood branching order among Hominoidea. Expand
Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus
TLDR
A phylogeny of chloroplast genomes inferred from 41 proteins and 8,303 amino acids sites indicates that at least two independent secondary endosymbiotic events have occurred involving red algae and that amino acid composition bias in chloropleft proteins strongly affects plastid genome phylogeny. Expand
Phylogenomic datasets provide both precision and accuracy in estimating the timescale of placental mammal phylogeny
TLDR
A powerful Bayesian method is used to analyse 36 nuclear genomes and 274 mitochondrial genomes to reject a pre K–Pg model of placental ordinal diversification, and it is suggested other infamous instances of mismatch between molecular and palaeontological divergence time estimates will be resolved with this same approach. Expand
Model of amino acid substitution in proteins encoded by mitochondrial DNA
TLDR
A transition probability matrix of the general reversible Markov model of amino acid substitution for mtDNA-encoded proteins is presented and shows some differences from the matrix estimated from the nuclear-encoding proteins. Expand
Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes.
TLDR
A composite phylogenetic tree with two clusters corresponding to different proteins, from which the evolutionary relationship of the primary kingdoms is determined uniquely is proposed, revealing that archaebacteria are more closely related to eukaryotes than to eubacteria for all the cases. Expand
Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions.
TLDR
The interordinal mammalian relationships presented here provide a cornerstone for future studies in the reconstruction of mammalian classifications, including extinct species, on evolution of large genomic sequences and structure, and in developmental analysis of morphological diversification. Expand
Gene transfer to the nucleus and the evolution of chloroplasts
TLDR
The process of gene loss from chloroplast genomes across the inferred tree is mapped and it is found that independent parallel gene losses in multiple lineages outnumber phylogenetically unique losses by more than 4:1. Expand
...
1
2
3
4
5
...