A. Rokas

Discovery of additional ancient genome duplications in yeasts.
20260 citationsauthor #9
Ancient co-option of LTR retrotransposons as yeast centromeres.
20261 citationsauthor #6
An integrative chemical and genomic similarity approach linking fungal secondary metabolites and biosynthetic gene clusters.
20260 citationsauthor #11
A bacterial gene acquired by parasitoid wasps contributes to venom secretion against host defence.
20260 citationsauthor #14
Stable hypermutators revealed by the genomic landscape of DNA repair genes among yeast species
20251 citationsauthor #13
An environmental isolate of Pseudomonas, 20EI1, reduces Aspergillus flavus growth in an iron-dependent manner and alters secondary metabolism
20251 citationsauthor #8
A trait syndrome ties cell morphology to glycolysis across the yeast subphylum
20250 citationsauthor #3
Fungal mitochondria govern both gliotoxin biosynthesis and self-protection
20251 citationsauthor #7
Genomic factors limiting the diversity of Saccharomycotina plant pathogens
20250 citationsauthor #10
Genomic factors limiting the diversity of Saccharomycotina plant pathogens
20250 citationsauthor #10
An integrative genomic and chemical similarity approach linking fungal secondary metabolites and biosynthetic gene clusters
20250 citationsauthor #11
Machine learning identifies novel signatures of antifungal drug resistance in Saccharomycotina yeasts
20253 citationsauthor #10
Running a genetic stop sign accelerates oxygen metabolism and energy production in horses.
20252 citationsauthor #17
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage
20251 citationsauthor #20
Use their names: there are no basal, lower, or early diverging fungi
20254 citationsauthor #2
Machine-Readable Structural Information Is Essential for Natural Products Research
20250 citationsauthor #3
Convergent expansions of keystone gene families drive metabolic innovation in Saccharomycotina yeasts
20258 citationsauthor #13
Machine learning reveals genes impacting oxidative stress resistance across yeasts
20252 citationsauthor #10
Ancient co-option of LTR retrotransposons as yeast centromeres
20254 citationsauthor #6
Population-Specific Transcriptomic Shifts Underlie Secondary Metabolic Diversification in Aspergillus flavus and the Domestication of Aspergillus oryzae
20251 citationsauthor #8
The macroevolution of filamentation morphology across the Saccharomycotina yeast subphylum
20250 citationsauthor #6
Gliotoxin Production and Self-Defense in Filamentous Fungi.
20250 citationsauthor #4
Gestation length both shapes and is shaped by other life history traits in terrestrial eutherian mammals
20251 citationsauthor #5
Population structure in a fungal human pathogen is potentially linked to pathogenicity
20254 citationsauthor #12
mGem: How many fungal secondary metabolites are produced by filamentous fungi? Conservatively, at least 1.4 million
20253 citationsauthor #2
Aspergillus fumigatus secondary metabolite pyripyropene is important for the dual biofilm formation with Pseudomonas aeruginosa
20250 citationsauthor #14
Stable Hypermutators Revealed by the Genomic Landscape of Genes Involved in Genome Stability Among Yeast Species
20250 citationsauthor #13
Convergent evolution of aerobic fermentation through divergent mechanisms acting on key shared glycolytic genes
20253 citationsauthor #2
Aspergillus fumigatus mitogenomes and their influence on azole-resistant and -susceptible populations
20253 citationsauthor #7
Global patterns of diversity and distribution in Aspergillus fungi are driven by human and environmental influences.
20252 citationsauthor #3
Integrating Intermediate Traits in Phylogenetic Genotype-to-Phenotype Studies.
20250 citationsauthor #4
Tracing the Origin and Evolution of the Fungal Mycophenolic Acid Biosynthesis Pathway
20251 citationsauthor #12
Patterns and mechanisms of fungal genome plasticity.
20257 citationsauthor #2
Discovery of additional ancient genome duplications in yeasts
20252 citationsauthor #9
The role of metabolism in shaping enzyme structures over 400 million years
202512 citationsauthor #12
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts
202482 citationsauthor #31
Genome-wide patterns of non-coding sequence variation in the major fungal pathogen Aspergillus fumigatus
20240 citationsauthor #3
The Role of Metabolism in Shaping Enzyme Structures Over 400 Million Years of Evolution
20240 citationsauthor #12
Create, Analyze, and Visualize Phylogenomic Datasets Using PhyloFisher
20249 citationsauthor #8
Machine learning enables identification of an alternative yeast galactose utilization pathway
202416 citationsauthor #10
Saccharomycotina yeasts defy long-standing macroecological patterns
202410 citationsauthor #11
PhyKIT: A Multitool for Phylogenomics
20247 citationsauthor #7
OrthoHMM: Improved Inference of Ortholog Groups using Hidden Markov Models
20242 citationsauthor #3
Pathogenicity is associated with population structure in a fungal pathogen of humans
20242 citationsauthor #8
The influence of the number of tree searches on maximum likelihood inference in phylogenomics.
20249 citationsauthor #8
A taxon-rich and genome-scale phylogeny of Opisthokonta
202415 citationsauthor #7
Evolutionary origin and population diversity of a cryptic hybrid pathogen
20244 citationsauthor #29
Genomic factors shaping codon usage across the Saccharomycotina subphylum
20242 citationsauthor #11
Aspergillus fumigatus conidial surface-associated proteome reveals factors for fungal evasion and host immunity modulation
202416 citationsauthor #30
Strain heterogeneity in a non-pathogenic fungus highlights factors contributing to virulence
20241 citationsauthor #14
Strain heterogeneity in a non-pathogenic Aspergillus fungus highlights factors associated with virulence
20246 citationsauthor #14
Identification of a longevity gene through evolutionary rate covariation of insect mito-nuclear genomes
202413 citationsauthor #16
Genomic, transcriptomic, and ecological diversity of Penicillium species in cheese rind microbiomes.
20243 citationsauthor #4
Global patterns of species diversity and distribution in the biomedically and biotechnologically important fungal genus Aspergillus
20244 citationsauthor #3
Convergent expansions of keystone gene families drive metabolic innovation in a major eukaryotic clade
20240 citationsauthor #13
Tracking alternative versions of the galactose gene network in the genus Saccharomyces and their expansion after domestication
20244 citationsauthor #10
Exploring Saccharomycotina Yeast Ecology Through an Ecological Ontology Framework
20247 citationsauthor #8
The evolution of gestation length in eutherian mammals
20244 citationsauthor #2
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi
20240 citationsauthor #4
Gestation length drives brain size and litter size variation in eutherian mammals
20240 citationsauthor #5
Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning
202419 citationsauthor #3
Diverse signatures of convergent evolution in cactus-associated yeasts
20247 citationsauthor #11
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage
20248 citationsauthor #19
Specialization restricts the evolutionary paths available to yeast sugar transporters
20241 citationsauthor #3
Machine learning reveals genes impacting oxidative stress resistance across yeasts
20244 citationsauthor #7
Genomic factors shaping codon usage across the Saccharomycotina subphylum
20242 citationsauthor #11
Specialization Restricts the Evolutionary Paths Available to Yeast Sugar Transporters
20245 citationsauthor #3
Functional and Evolutionary Integration of a Fungal Gene With a Bacterial Operon
20241 citationsauthor #11
Convergent reductive evolution in bee-associated lactic acid bacteria
20246 citationsauthor #3
Genome-wide patterns of noncoding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus
20241 citationsauthor #3
The cell morphological diversity of Saccharomycotina yeasts
202320 citationsauthor #7
The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi
20232 citationsauthor #4
A comprehensive map of hotspots of de novo telomere addition in Saccharomyces cerevisiae
20231 citationsauthor #11
GSEL: a fast, flexible python package for detecting signatures of diverse evolutionary forces on genomic regions
20232 citationsauthor #4
A global phylogenomic analysis of the shiitake genus Lentinula
202320 citationsauthor #9
A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis
20230 citationsauthor #16
COVID-19-Associated Pulmonary Aspergillosis Isolates Are Genomically Diverse but Similar to Each Other in Their Responses to Infection-Relevant Stresses
20234 citationsauthor #15
Draft genomes of Aspergillus nomiae and Aspergillus tamarii isolates from human eye infections
20231 citationsauthor #3
Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen
20234 citationsauthor #21
A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis
20230 citationsauthor #17
Predicting fungal secondary metabolite activity from biosynthetic gene cluster data using machine learning
20235 citationsauthor #3
Codon Optimization Improves the Prediction of Xylose Metabolism from Gene Content in Budding Yeasts
202321 citationsauthor #7
Extensive intragenomic variation in the internal transcribed spacer region of fungi
202353 citationsauthor #3
Diverse signatures of convergent evolution in cacti-associated yeasts
20235 citationsauthor #11
Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond
202312 citationsauthor #2
The evolution of gestation length in eutherian mammals
20234 citationsauthor #2
A genome-informed higher rank classification of the biotechnologically important fungal subphylum Saccharomycotina
202379 citationsauthor #28
Saccharomycotina yeasts defy longstanding macroecological patterns
20230 citationsauthor #11
The dawn of relaxed phylogenetics
20232 citationsauthor #2
Author Correction: Genetic effects on the timing of parturition and links to fetal birth weight
20231 citationsauthor #76
A genome-scale Opisthokonta tree of life: toward phylogenomic resolution of ancient divergences
20235 citationsauthor #7
Machine learning illuminates how diet influences the evolution of yeast galactose metabolism
20233 citationsauthor #10
Incongruence in the phylogenomics era
2023137 citationsauthor #5
Mitochondrial Genome Diversity across the Subphylum Saccharomycotina
20237 citationsauthor #4
Functional and evolutionary integration of a fungal gene with a bacterial operon
20231 citationsauthor #11
Genomic and ecological factors shaping specialism and generalism across an entire subphylum
202321 citationsauthor #31
Mitochondrial genome diversity across the subphylum Saccharomycotina
20236 citationsauthor #4
A comprehensive map of hotspots of de novo telomere addition in Saccharomyces cerevisiae.
20230 citationsauthor #11
How has horizontal gene transfer shaped the evolution of insect genomes?
20227 citationsauthor #6
Evolution and codon usage bias of mitochondrial and nuclear genomes in Aspergillus section Flavi
202211 citationsauthor #4

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