Fungal pathogens cause more than a billion human infections every year, resulting in more
than 1.6 million deaths annually. Understanding the natural history and evolutionary ecology …

In this review, we discuss the current status and future challenges for fully elucidating the
fungal tree of life. In the last 15 years, advances in genomic technologies have …

Phylogenomic studies using genome-scale amounts of data have greatly improved
understanding of the tree of life. Despite the diversity, ecological significance, and …

Highly divergent sites in multiple sequence alignments (MSAs), which can stem from
erroneous inference of homology and saturation of substitutions, are thought to negatively …

Biodiversity loss from disturbances caused by human activities means that species are
disappearing at an ever increasing rate. The high number of species that have yet to be …

Motivation Diverse disciplines in biology process and analyze multiple sequence alignments
(MSAs) and phylogenetic trees to evaluate their information content, infer evolutionary …

Accessory genes are variably present among members of a species and are a reservoir of
adaptive functions. In bacteria, differences in gene distributions among individuals largely …

Organisms exhibit extensive variation in ecological niche breadth, from very narrow
(specialists) to very broad (generalists). Two general paradigms have been proposed to …

Ascomycota account for about two-thirds of named fungal species. 1 Over 98% of known
Ascomycota belong to the Pezizomycotina, including many economically important species …

In eukaryotic organisms, genetic information is usually carried on multiple chromosomes.
Whether and how the number and configuration of chromosomes affect organismal fitness …