DNA diversity varies across the genome of many species. Variation in diversity across a
genome might arise from regional variation in the mutation rate, variation in the intensity and …

Phylogenetic codon models are routinely used to characterize selective regimes in coding
sequences. Their parametric design, however, is still a matter of debate, in particular …

Selection modulates gene sequence evolution in different ways by constraining potential
changes of amino acid sequences (purifying selection) or by favoring new and adaptive …

The nearly neutral theory of molecular evolution predicts that small populations should
accumulate deleterious mutations at a faster rate than large populations. The analysis of …

Allelic dropouts (ADO) are an important source of genotyping error and because of their
negative impact on non-invasive sampling techniques, have become the focus of …

The selective pressure on a protein-coding gene can be measured by comparing silent
(synonymous) and replacement (nonsynonymous) substitution rates. Higher replacement …

Codon usage bias (CUB) is defined as the usage of synonymous codons unequally for an
amino acid in a gene transcript. It is influenced by both mutation pressure and natural …

Understanding why some species accumulate more deleterious substitutions than others is
an important question relevant in evolutionary biology and conservation sciences. Previous …

Neutrality plots revealed that selection probably dominates codon bias, whereas mutation
plays only a minor role, in shaping the codon bias in three loaches, Misgurnus …