Evolutionary origin and population diversity of a cryptic hybrid pathogen

JL Steenwyk, S Knowles, RW Bastos… - Nature …, 2024 - nature.com
Cryptic fungal pathogens pose disease management challenges due to their morphological
resemblance to known pathogens. Here, we investigated the genomes and phenotypes of …

Natural proteome diversity links aneuploidy tolerance to protein turnover

J Muenzner, P Trébulle, F Agostini, H Zauber… - Nature, 2024 - nature.com
Accessing the natural genetic diversity of species unveils hidden genetic traits, clarifies gene
functions and allows the generalizability of laboratory findings to be assessed. One notable …

Phylogenomics reveals extensive misidentification of fungal strains from the genus Aspergillus

JL Steenwyk, C Balamurugan, HA Raja… - Microbiology …, 2024 - Am Soc Microbiol
Modern taxonomic classification is often based on phylogenetic analyses of a few molecular
markers, although single-gene studies are still common. Here, we leverage genome-scale …

Examination of genome-wide ortholog variation in clinical and environmental isolates of the fungal pathogen Aspergillus fumigatus

MAC Horta, JL Steenwyk, ME Mead, LHB Dos Santos… - Mbio, 2022 - Am Soc Microbiol
Aspergillus fumigatus is both an environmental saprobe and an opportunistic human fungal
pathogen. Knowledge of genomic variation across A. fumigatus isolates is essential for …

Diverse signatures of convergent evolution in cactus-associated yeasts

C Gonçalves, MC Harrison, JL Steenwyk… - Plos …, 2024 - journals.plos.org
Many distantly related organisms have convergently evolved traits and lifestyles that enable
them to live in similar ecological environments. However, the extent of phenotypic …

OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

JL Steenwyk, DC Goltz, TJ Buida III, Y Li, XX Shen… - PLoS …, 2022 - journals.plos.org
Molecular evolution studies, such as phylogenomic studies and genome-wide surveys of
selection, often rely on gene families of single-copy orthologs (SC-OGs). Large gene …

Identification of the Neoaspergillic Acid Biosynthesis Gene Cluster by Establishing an In Vitro CRISPR-Ribonucleoprotein Genetic System in Aspergillus melleus

B Yuan, MF Grau, RM Murata, T Torok… - ACS …, 2023 - ACS Publications
Filamentous fungi are an essential source of bioactive mycotoxins. Recent efforts have
focused on developing antifungal agents that are effective against invasive yeasts, such as …

PhyKIT: A Multitool for Phylogenomics

JL Steenwyk, GI Martínez‐Redondo… - Current …, 2024 - Wiley Online Library
Multiple sequence alignments and phylogenetic trees are rich in biological information and
are fundamental to research in biology. PhyKIT is a tool for processing and analyzing the …

[HTML][HTML] Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen

JL Steenwyk, S Knowles, RW Bastos, C Balamurugan… - bioRxiv, 2023 - ncbi.nlm.nih.gov
Cryptic fungal pathogens pose significant identification and disease management
challenges due to their morphological resemblance to known pathogenic species while …

[HTML][HTML] Description of Asgardarchaeum abyssi gen. nov. spec. nov., a novel species within the class Asgardarchaeia and phylum Asgardarchaeota in accordance …

D Tamarit, S Köstlbacher, KE Appler… - Systematic and Applied …, 2024 - Elsevier
Asgardarchaeota, commonly referred to as Asgard archaea, are a candidatus phylum-level
archaeal clade that includes the closest archaeal relatives of eukaryotes. Despite their …