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Mathematical model for studying genetic variation in terms of restriction endonucleases.
A mathematical model for the evolutionary change of restriction sites in mitochondrial DNA is developed. Formulas based on this model are presented for estimating the number of nucleotide… Expand
Statistical tests of neutrality of mutations.
Mutations in the genealogy of the sequences in a random sample from a population can be classified as external and internal. External mutations are mutations that occurred in the external branches… Expand
The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications.
A simple, effective measure of synonymous codon usage bias, the Codon Adaptation Index, is detailed. The index uses a reference set of highly expressed genes from a species to assess the relative… Expand
Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees.
To study the genomic divergences among hominoids and to estimate the effective population size of the common ancestor of humans and chimpanzees, we selected 53 autosomal intergenic nonrepetitive DNA… Expand
Date of the monocot-dicot divergence estimated from chloroplast DNA sequence data.
- K. Wolfe, M. Gouy, Y. Yang, P. Sharp, W. Li
- Biology, Medicine
- Proceedings of the National Academy of Sciences…
- 1 August 1989
The divergence between monocots and dicots represents a major event in higher plant evolution, yet the date of its occurrence remains unknown because of the scarcity of relevant fossils. We have… Expand
A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes.
A new method is proposed for estimating the number of synonymous and nonsynonymous nucleotide substitutions between homologous genes. In this method, a nucleotide site is classified as nondegenerate,… Expand
Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites.
This paper presents a maximum likelihood approach to estimating the variation of substitution rate among nucleotide sites. We assume that the rate varies among sites according to an invariant+gamma… Expand
Low nucleotide diversity in man.
The nucleotide diversity (pi) in humans is studied by using published cDNA and genomic sequences that have been carefully checked for sequencing accuracy. This measure of genetic variability is… Expand
Evidence for higher rates of nucleotide substitution in rodents than in man.
When the coding regions of 11 genes from rodents (mouse or rat) and man are compared with those from another mammalian species (usually bovine), it is found that rodents evolve significantly faster… Expand
The rate of synonymous substitution in enterobacterial genes is inversely related to codon usage bias.
Genes sequences from Escherichia coli, Salmonella typhimurium, and other members of the Enterobacteriaceae show a negative correlation between the degree of synonymous-codon usage bias and the rate… Expand