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A. Rokas · SciRah

Researcher profile · Semantic Scholar

A. Rokas

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A. Rokas — researcher profile on SciRah

h-index: 86
Works: 424
Citations: 27K

Most-cited papers

Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts
D. A. Opulente, A. Labella, Marie-Claire Harrison, John F. Wolters +28 more
2024Science118 citations Open access
Semantic Scholar
A genome-informed higher rank classification of the biotechnologically important fungal subphylum Saccharomycotina
M. Groenewald, C. Hittinger, K. Bensch, D. A. Opulente +24 more
2023Studies in Mycology97 citations Open access
Semantic Scholar
Extensive intragenomic variation in the internal transcribed spacer region of fungi
M. Bradshaw, M. C. Aime, A. Rokas, Autumn Maust +7 more
2023iScience75 citations Open access
Semantic Scholar
The cell morphological diversity of Saccharomycotina yeasts
Christina M. Chavez, M. Groenewald, A. B. Hulfachor, Gideon Kpurubu +3 more
2023FEMS Yeast Research33 citations Open access
Semantic Scholar
A taxon-rich and genome-scale phylogeny of Opisthokonta
Hongyue Liu, J. Steenwyk, Xiao-Fan Zhou, Darrin T. Schultz +4 more
2024PLoS Biology31 citations Open access
Semantic Scholar
The role of metabolism in shaping enzyme structures over 400 million years
Oliver Lemke, B. Heineike, Sandra Viknander, Nir Cohen +12 more
2025Nature30 citations Open access
Semantic Scholar
Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning
Olivia L. Riedling, A. Walker, A. Rokas
2024Microbiology spectrum28 citations Open access
Semantic Scholar
Aspergillus fumigatus conidial surface-associated proteome reveals factors for fungal evasion and host immunity modulation
C. Pinzan, Clara Valero, P. D. de Castro, Jefferson da Silva +29 more
2024Nature Microbiology26 citations Open access
Semantic Scholar
Patterns and mechanisms of fungal genome plasticity
Thomas J. C. Sauters, A. Rokas
2025Current Biology24 citations Open access
Semantic Scholar
Genomic and ecological factors shaping specialism and generalism across an entire subphylum
D. A. Opulente, A. Labella, Marie-Claire Harrison, John F. Wolters +28 more
2023bioRxiv23 citations Open access
Semantic Scholar
Machine learning enables identification of an alternative yeast galactose utilization pathway
Marie-Claire Harrison, Emily J. Ubbelohde, A. Labella, D. A. Opulente +6 more
2024Proceedings of the National Academy of Sciences of the United States of America22 citations Open access
Semantic Scholar
Codon Optimization Improves the Prediction of Xylose Metabolism from Gene Content in Budding Yeasts
Rishitha Nalabothu, Kaitlin J. Fisher, A. Labella, Taylor A. Meyer +4 more
2023Molecular biology and evolution22 citations Open access
Semantic Scholar
A global phylogenomic analysis of the shiitake genus Lentinula
S. Sierra-Patev, B. Min, M. Naranjo-Ortiz, B. Looney +35 more
2023Proceedings of the National Academy of Sciences of the United States of America22 citations Open access
Semantic Scholar
Identification of a longevity gene through evolutionary rate covariation of insect mito-nuclear genomes
Mei Tao, Jiani Chen, Chunlai Cui, Yan-Dong Xu +16 more
2024Nature Aging20 citations
Semantic Scholar
Convergent expansions of keystone gene families drive metabolic innovation in Saccharomycotina yeasts
Kyle T. David, J. Schraiber, Johnathan G. Crandall, A. L. Labella +9 more
2025Proceedings of the National Academy of Sciences of the United States of America17 citations Open access
Semantic Scholar
The influence of the number of tree searches on maximum likelihood inference in phylogenomics.
Chao Liu, Xiao-Fan Zhou, Yuan-Ning Li, C. Hittinger +6 more
2024Systematic Biology15 citations Open access
Semantic Scholar
Create, analyze, and visualize phylogenomic datasets using PhyloFisher
Robert E. Jones, Alexander K. Tice, Marek Eliáš, Laura Eme +9 more
2024Current Protocols14 citations
Semantic Scholar
Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond
J. Steenwyk, A. Rokas, G. Goldman
2023PLoS Pathogens14 citations Open access
Semantic Scholar
mGem: How many fungal secondary metabolites are produced by filamentous fungi? Conservatively, at least 1.4 million
Olivia L. Riedling, A. Rokas
2025mBio12 citations Open access
Semantic Scholar
Saccharomycotina yeasts defy long-standing macroecological patterns
Kyle T. David, Marie-Claire Harrison, D. A. Opulente, A. Labella +7 more
2024Proceedings of the National Academy of Sciences of the United States of America12 citations Open access
Semantic Scholar
Exploring Saccharomycotina Yeast Ecology Through an Ecological Ontology Framework
Marie-Claire Harrison, D. A. Opulente, John F. Wolters, Xing-Xing Shen +5 more
2024Yeast12 citations Open access
Semantic Scholar
Convergent reductive evolution in bee-associated lactic acid bacteria
A. Pontes, Marie-Claire Harrison, A. Rokas, Carla Gonçalves
2024bioRxiv11 citations Open access
Semantic Scholar
PhyKIT: A Multitool for Phylogenomics
J. Steenwyk, Gemma I. Martínez-Redondo, Thomas J. Buida, E. Gluck-Thaler +4 more
2024Current Protocols11 citations Open access
Semantic Scholar
Population structure in a fungal human pathogen is potentially linked to pathogenicity
E. Hatmaker, A. E. Barber, Milton T. Drott, Thomas J. C. Sauters +8 more
2025Nature Communications10 citations Open access
Semantic Scholar
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage
Bo Feng, Yong-Lin Li, Hongyue Liu, J. Steenwyk +17 more
2024bioRxiv10 citations Open access
Semantic Scholar
Diverse signatures of convergent evolution in cactus-associated yeasts
Carla Gonçalves, Marie-Claire Harrison, J. Steenwyk, D. A. Opulente +7 more
2024PLoS Biology10 citations Open access
Semantic Scholar
Strain heterogeneity in a non-pathogenic Aspergillus fungus highlights factors associated with virulence
D. Rinker, Thomas J. C. Sauters, Karin Steffen, A. Gumilang +10 more
2024Communications Biology9 citations Open access
Semantic Scholar
Mitochondrial Genome Diversity across the Subphylum Saccharomycotina
John F. Wolters, A. Labella, D. A. Opulente, A. Rokas +1 more
2023bioRxiv9 citations Open access
Semantic Scholar
Ancient co-option of LTR retrotransposons as yeast centromeres
Max A. B. Haase, Luciana Lazar‐Stefanita, Lyam Baudry, A. Wudzinska +6 more
2025bioRxiv8 citations Open access
Semantic Scholar
Machine learning reveals genes impacting oxidative stress resistance across yeasts
Katarina Aranguiz, L. Horianopoulos, Logan Elkin, Kenia Segura Abá +7 more
2025Nature Communications8 citations Open access
Semantic Scholar
Mitochondrial genome diversity across the subphylum Saccharomycotina
John F. Wolters, A. Labella, D. A. Opulente, A. Rokas +1 more
2023Frontiers in Microbiology8 citations Open access
Semantic Scholar
Running a Genetic Stop Sign Accelerates Oxygen Metabolism and Energy Production in Horses
Gianni M. Castiglione, Xin Chen, Zhenhua Xu, Nadir H Dbouk +15 more
2025Science7 citations Open access
Semantic Scholar
Discovery of additional ancient genome duplications in yeasts
Kyle T. David, Linda C. Horianopoulos, Carla Gonçalves, J. Steenwyk +5 more
2025bioRxiv7 citations Open access
Semantic Scholar
Aspergillus fumigatus mitogenomes and their influence on azole-resistant and -susceptible populations
E. Delbaje, Laís Pontes, J. Rhodes, J. Steenwyk +4 more
2025npj Antimicrobials and Resistance7 citations Open access
Semantic Scholar
Evolutionary origin and population diversity of a cryptic hybrid pathogen
J. Steenwyk, Sonja L. Knowles, R. Bastos, Charu Balamurugan +25 more
2024Nature Communications7 citations Open access
Semantic Scholar
Use their names: there are no basal, lower, or early diverging fungi
Timothy Y. James, A. Rokas
2025Mycologia6 citations Open access
Semantic Scholar
Global patterns of diversity and distribution in Aspergillus fungi are driven by human and environmental influences
Olivia L. Riedling, Kyle T. David, A. Rokas
2025Current Biology6 citations Open access
Semantic Scholar
Global patterns of species diversity and distribution in the biomedically and biotechnologically important fungal genus Aspergillus
Olivia L. Riedling, Kyle T. David, A. Rokas
2024bioRxiv6 citations Open access
Semantic Scholar
Specialization Restricts the Evolutionary Paths Available to Yeast Sugar Transporters
Johnathan G. Crandall, Xiao-Fan Zhou, A. Rokas, C. Hittinger
2024Molecular biology and evolution6 citations Open access
Semantic Scholar
Machine learning reveals genes impacting oxidative stress resistance across yeasts
Katarina Aranguiz, Linda C. Horianopoulos, Logan Elkin, Kenia Segura Abá +4 more
2024bioRxiv6 citations Open access
Semantic Scholar
Genomic, transcriptomic, and ecological diversity of Penicillium species in cheese rind microbiomes.
Ruby Ye, Megan N. Biango-Daniels, J. Steenwyk, A. Rokas +3 more
2024Fungal Genetics and Biology6 citations Open access
Semantic Scholar
Tracing the Origin and Evolution of the Fungal Mycophenolic Acid Biosynthesis Pathway
B. Bidon, H. Yaakoub, A. Lanoue, A. Géry +14 more
2025Genome Biology and Evolution5 citations Open access
Semantic Scholar
Convergent evolution of aerobic fermentation through divergent mechanisms acting on key shared glycolytic genes
Linda C. Horianopoulos, A. Rokas, C. Hittinger
2025bioRxiv5 citations Open access
Semantic Scholar
Aspergillus fumigatus secondary metabolite pyripyropene is important for the dual biofilm formation with Pseudomonas aeruginosa
P. D. de Castro, D. Akiyama, C. Pinzan, T. D. dos Reis +12 more
2025mBio5 citations Open access
Semantic Scholar
The evolution of gestation length in eutherian mammals
Thodoris Danis, A. Rokas
2024Proceedings B5 citations Open access
Semantic Scholar
Tracking alternative versions of the galactose gene network in the genus Saccharomyces and their expansion after domestication
A. Pontes, F. Paraíso, Yu-Ching Liu, S. Limtong +9 more
2024iScience5 citations Open access
Semantic Scholar
Diverse signatures of convergent evolution in cacti-associated yeasts
Carla Gonçalves, Marie-Claire Harrison, J. Steenwyk, D. A. Opulente +7 more
2023bioRxiv5 citations Open access
Semantic Scholar
A genome-scale Opisthokonta tree of life: toward phylogenomic resolution of ancient divergences
Hongyue Liu, J. Steenwyk, Xiao-Fan Zhou, Darrin T. Schultz +4 more
2023bioRxiv5 citations Open access
Semantic Scholar
Gliotoxin production and self-defense in filamentous fungi
E. Delbaje, P. D. de Castro, M. T. Pupo, A. Rokas +1 more
2025Annual Review of Microbiology4 citations Open access
Semantic Scholar
Genomic factors shaping codon usage across the Saccharomycotina subphylum
Bryan Zavala, Lauren Dineen, Kaitlin J. Fisher, D. A. Opulente +8 more
2024G34 citations Open access
Semantic Scholar

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John F. Wolters×13

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