Stajich Laboratory for Fungal Evolutionary Genomics

Research

Research in the Stajich lab encompass a variety of topics from Evolution, Genomics, Mycology, Microbiology, and Bioinformatics.

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2025

2024

2023

Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned
Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned?
Andrii P Gryganskyi, Jacob Golan, Anna Muszewska, Alexander Idnurm, Somayeh Dolatabadi, …, Nicole Reynolds, Timothy Y James, Igor V Grigoriev, Joseph W Spatafora, Jason E Stajich
Microorganisms  ·  18 Jul 2023  ·  pmid:37513002
zygolife genome
Patterns and determinants of the global herbivorous mycobiome.
Patterns and determinants of the global herbivorous mycobiome.
Casey H Meili, Adrienne L Jones, Alex X Arreola, Jeffrey Habel, Carrie J Pratt, …, Joan A Edwards, Sumit Singh Dagar, Andrew P Foote, Noha H Youssef, Mostafa S Elshahed
Nature communications  ·  26 Jun 2023  ·  pmid:37365172
herbivore microbiome chytrid neocallimastigomycota anaerobic-gut-fungi agf
Divergent Evolution of Early Terrestrial Fungi Reveals the Evolution of Mucormycosis Pathogenicity Factors.
Divergent Evolution of Early Terrestrial Fungi Reveals the Evolution of Mucormycosis Pathogenicity Factors.
Yan Wang, Ying Chang, Jericho Ortañez, Jesús F Peña, Derreck Carter-House, …, Mi Yan, Kerrie Barry, Igor V Grigoriev, Joseph W Spatafora, Jason E Stajich
Genome biology and evolution  ·  06 Apr 2023  ·  pmid:36930540
zygolife zygomycete genome
Phylogenomic analysis of the Neocallimastigomycota 58; proposal of i Caecomycetaceae i fam. nov., i Piromycetaceae i fam. nov., and emended description of the families Neocallimastigaceae and Anaeromycetaceae
Phylogenomic analysis of the Neocallimastigomycota: proposal of Caecomycetaceae fam. nov., Piromycetaceae fam. nov., and emended description of the families Neocallimastigaceae and Anaeromycetaceae
Radwa A Hanafy, Yan Wang, Jason E Stajich, Carrie J Pratt, Noha H Youssef, Mostafa S Elshahed
International journal of systematic and evolutionary microbiology  ·  01 Feb 2023  ·  pmid:36827202
agf rumen-fungi neocallimastigomycota

2022

Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies
Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies
Ying Chang, Yan Wang, Stephen Mondo, Steven Ahrendt, William Andreopoulos, …, Matthew E. Smith, Adrian Tsang, Igor V. Grigoriev, Jason E. Stajich, Joseph W. Spatafora
iScience  ·  01 Aug 2022  ·  doi:10.1016/j.isci.2022.104840
zygomycete secretome mucoromycota zoopagomycota comparative-genomics
Early branching arbuscular mycorrhizal fungus i Paraglomus occultum i carries a small and repeat-poor genome compared to relatives in the Glomeromycotina
Early branching arbuscular mycorrhizal fungus Paraglomus occultum carries a small and repeat-poor genome compared to relatives in the Glomeromycotina
Mathu Malar C, Yan Wang, Jason E. Stajich, Vasilis Kokkoris, Matthew Villeneuve-Laroche, Gokalp Yildirir, Nicolas Corradi
Microbial Genomics  ·  26 Apr 2022  ·  doi:10.1099/mgen.0.000810
amf zygomycete glomeromycota

2021

A genome-scale phylogeny of the kingdom Fungi.
A genome-scale phylogeny of the kingdom Fungi.
Yuanning Li, Jacob L Steenwyk, Ying Chang, Yan Wang, Timothy Y James, …, Marizeth Groenewald, Casey W Dunn, Chris Todd Hittinger, Xing-Xing Shen, Antonis Rokas
Current biology : CB  ·  18 Feb 2021  ·  pmid:33607033
fungi phylogenomics systematics evolution
The genome of Geosiphon pyriformis reveals ancestral traits linked to the emergence of the arbuscular mycorrhizal symbiosis.
The genome of Geosiphon pyriformis reveals ancestral traits linked to the emergence of the arbuscular mycorrhizal symbiosis.
Mathu Malar C, Manuela Krüger, Claudia Krüger, Yan Wang, Jason E Stajich, …, Gokalp Yildirir, Matthew Villeneuve-Laroche, Christophe Roux, Pierre-Marc Delaux, Nicolas Corradi
Current biology : CB  ·  15 Feb 2021  ·  pmid:33592192
geosiphon amf zygomycete genome comparative-genomics
Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi.
Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi.
Ying Chang, D’Ann Rochon, Satoshi Sekimoto, Yan Wang, Mansi Chovatia, Laura Sandor, Asaf Salamov, Igor V Grigoriev, Jason E Stajich, Joseph W Spatafora
Scientific reports  ·  05 Feb 2021  ·  pmid:33547391
fungi phylogenomics zygomycete chytrid evolution metagenomics genome

2020

Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont,
Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont,
Javier F Tabima, Ian A Trautman, Ying Chang, Yan Wang, Stephen Mondo, Alan Kuo, Asaf Salamov, Igor V Grigoriev, Jason E Stajich, Joseph W Spatafora
G3 (Bethesda, Md.)  ·  02 Sep 2020  ·  pmid:32727924
phylogenomics basidiobolus hgt fungi zygomycete
The monophyletic Sarcogyne canadensis wheeleri clade, a newly recognized group sister to the European Acarospora glaucocarpa group
The monophyletic Sarcogyne canadensis–wheeleri clade, a newly recognized group sister to the European Acarospora glaucocarpa group
Kerry Knudsen, Julia N. Adams, Jana Kocourková, Yan Wang, Jericho Ortañez, Jason E. Stajich
The Bryologist  ·  13 Jan 2020  ·  doi:10.1639/0007-2745-123.1.011
lichen acarospora sarcogyne taxonomy

2019

Molecular Dating of the Emergence of Anaerobic Rumen Fungi and the Impact of Laterally Acquired Genes.
Molecular Dating of the Emergence of Anaerobic Rumen Fungi and the Impact of Laterally Acquired Genes.
Yan Wang, Noha H Youssef, Matthew Brian Couger, Radwa A Hanafy, Mostafa S Elshahed, Jason E Stajich
mSystems  ·  27 Aug 2019  ·  pmid:31455637
hgt systematics agf neocallimastigomycota transcriptome
Horizontal Gene Transfer as an Indispensable Driver for Evolution of Neocallimastigomycota into a Distinct Gut-Dwelling Fungal Lineage.
Horizontal Gene Transfer as an Indispensable Driver for Evolution of Neocallimastigomycota into a Distinct Gut-Dwelling Fungal Lineage.
Chelsea L Murphy, Noha H Youssef, Radwa A Hanafy, M B Couger, Jason E Stajich, …, Sumit S Dagar, Gareth W Griffith, Ibrahim F Farag, T M Callaghan, Mostafa S Elshahed
Applied and environmental microbiology  ·  18 Jul 2019  ·  pmid:31126947
hgt neocallimastigomycota agf

2018

Comparative Genomics Reveals the Core Gene Toolbox for the Fungus-Insect Symbiosis.
Comparative Genomics Reveals the Core Gene Toolbox for the Fungus-Insect Symbiosis.
Yan Wang, Matt Stata, Wei Wang, Jason E Stajich, Merlin M White, Jean-Marc Moncalvo
mBio  ·  15 May 2018  ·  pmid:29764946
comparative-genomics insect-fungal-interactions symbiosis

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