Jacob L. Steenwyk

May 20, 2024 | journals.plos.org | Jacob L. Steenwyk |Nicole King

As highly contiguous genome assemblies become more commonplace, our understanding of synteny as a phylogenomic marker will mature. Here, we provide a roadmap of research opportunities and identify challenges that will shape the use of synteny as a phylogenomic character (Fig 4A). Fig 4. A roadmap of challenges and opportunities for synteny-based phylogenomics. (A) A high-level summary of steps toward best practices in synteny-based phylogenomics.

Jan 9, 2024 | biorxiv.org | Alec Brown |Jacob L. Steenwyk |Antonis Rokas

AbstractA. fumigatus is a deadly fungal pathogen, responsible for >400,000 infections/year and high mortality rates. A. fumigatus strains exhibit variation in infection-relevant traits, including in their virulence. However, most A. fumigatus protein-coding genes, including those that modulate its virulence, are shared between A. fumigatus strains and closely related non-pathogenic relatives. We hypothesized that A.

Oct 19, 2023 | journals.plos.org | Jacob L. Steenwyk |Antonis Rokas |Gustavo H. Goldman |PLOS Pathogens

Loading metrics Open Access Pearls Pearls provide concise, practical and educational insights into topics that span the pathogens field. See all article types » Citation: Steenwyk JL, Rokas A, Goldman GH (2023) Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond. PLoS Pathog 19(10): e1011704.

Sep 6, 2023 | preprints.org | Jacob L. Steenwyk |Nicole King

Preprint Review Version 2 This version is not peer-reviewed Version 1 : Received: 6 September 2023 / Approved: 7 September 2023 / Online: 7 September 2023 (07:21:52 CEST) Version 2 : Received: 8 February 2024 / Approved: 8 February 2024 / Online: 8 February 2024 (10:45:41 CET) Steenwyk, J.; King, N. From Genes to Genomes: Opportunities, Challenges, and a Roadmap for Synteny-based Phylogenomics. Preprints 2023, 2023090495. https://doi.org/10.20944/preprints202309.0495.v2 Steenwyk, J.; King, N.

Aug 28, 2023 | biorxiv.org | Jacob L. Steenwyk |Jef Boeke

AbstractAcross eukaryotic species, core histone genes display a remarkable diversity of cis-regulatory mechanisms despite their protein sequence conservation. However, the dynamics and significance of this regulatory turnover are not well understood. Here we describe the evolutionary history of core histone gene regulation across 400 million years in Saccharomycotina yeasts. We reveal diverse lineage-specific solutions to core histone expression.