| Year |
Citation |
Score |
| 2024 |
Steenwyk JL, Knowles S, Bastos RW, Balamurugan C, Rinker D, Mead ME, Roberts CD, Raja HA, Li Y, Colabardini AC, de Castro PA, Dos Reis TF, Gumilang A, Almagro-Molto M, Alanio A, et al. Evolutionary origin and population diversity of a cryptic hybrid pathogen. Nature Communications. 15: 8412. PMID 39333551 DOI: 10.1038/s41467-024-52639-1 |
0.738 |
|
| 2024 |
Gonçalves C, Harrison MC, Steenwyk JL, Opulente DA, LaBella AL, Wolters JF, Zhou X, Shen XX, Groenewald M, Hittinger CT, Rokas A. Diverse signatures of convergent evolution in cactus-associated yeasts. Plos Biology. 22: e3002832. PMID 39312572 DOI: 10.1371/journal.pbio.3002832 |
0.845 |
|
| 2024 |
Liu H, Steenwyk JL, Zhou X, Schultz DT, Kocot KM, Shen XX, Rokas A, Li Y. A taxon-rich and genome-scale phylogeny of Opisthokonta. Plos Biology. 22: e3002794. PMID 39283949 DOI: 10.1371/journal.pbio.3002794 |
0.728 |
|
| 2024 |
Zhang W, Fan Y, Deng W, Chen Y, Wang S, Kang S, Steenwyk JL, Xiang M, Liu X. Characterization of genome-wide phylogenetic conflict uncovers evolutionary modes of carnivorous fungi. Mbio. e0213324. PMID 39207102 DOI: 10.1128/mbio.02133-24 |
0.416 |
|
| 2024 |
Pinzan CF, Valero C, de Castro PA, da Silva JL, Earle K, Liu H, Horta MAC, Kniemeyer O, Krüger T, Pschibul A, Cömert DN, Heinekamp T, Brakhage AA, Steenwyk JL, Mead ME, et al. Aspergillus fumigatus conidial surface-associated proteome reveals factors for fungal evasion and host immunity modulation. Nature Microbiology. PMID 39191887 DOI: 10.1038/s41564-024-01782-y |
0.773 |
|
| 2024 |
Feng B, Li Y, Liu H, Steenwyk JL, David KT, Tian X, Xu B, Gonçalves C, Opulente DA, LaBella AL, Harrison MC, Wolters JF, Shao S, Chen Z, Fisher KJ, et al. Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage. Biorxiv : the Preprint Server For Biology. PMID 38895429 DOI: 10.1101/2024.06.05.597512 |
0.816 |
|
| 2024 |
Steenwyk JL, King N. The promise and pitfalls of synteny in phylogenomics. Plos Biology. 22: e3002632. PMID 38768403 DOI: 10.1371/journal.pbio.3002632 |
0.317 |
|
| 2024 |
Brown A, Steenwyk JL, Rokas A. Genome-wide patterns of non-coding and protein-coding sequence variation in the major fungal pathogen Aspergillus fumigatus. G3 (Bethesda, Md.). PMID 38696662 DOI: 10.1093/g3journal/jkae091 |
0.817 |
|
| 2024 |
Opulente DA, LaBella AL, Harrison MC, Wolters JF, Liu C, Li Y, Kominek J, Steenwyk JL, Stoneman HR, VanDenAvond J, Miller CR, Langdon QK, Silva M, Gonçalves C, Ubbelohde EJ, et al. Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts. Science (New York, N.Y.). 384: eadj4503. PMID 38662846 DOI: 10.1126/science.adj4503 |
0.821 |
|
| 2024 |
Balamurugan C, Steenwyk JL, Goldman GH, Rokas A. The evolution of the gliotoxin biosynthetic gene cluster in Penicillium fungi. G3 (Bethesda, Md.). PMID 38507596 DOI: 10.1093/g3journal/jkae063 |
0.753 |
|
| 2024 |
Steenwyk JL, Balamurugan C, Raja HA, Gonçalves C, Li N, Martin F, Berman J, Oberlies NH, Gibbons JG, Goldman GH, Geiser DM, Houbraken J, Hibbett DS, Rokas A. Phylogenomics reveals extensive misidentification of fungal strains from the genus . Microbiology Spectrum. e0398023. PMID 38445873 DOI: 10.1128/spectrum.03980-23 |
0.845 |
|
| 2024 |
O'Meara MJ, Rapala JR, Nichols CB, Alexandre AC, Billmyre RB, Steenwyk JL, Alspaugh JA, O'Meara TR. CryptoCEN: A Co-Expression Network for Cryptococcus neoformans reveals novel proteins involved in DNA damage repair. Plos Genetics. 20: e1011158. PMID 38359090 DOI: 10.1371/journal.pgen.1011158 |
0.314 |
|
| 2024 |
Brown A, Steenwyk JL, Rokas A. Genome-wide patterns of non-coding sequence variation in the major fungal pathogen . Biorxiv : the Preprint Server For Biology. PMID 38260267 DOI: 10.1101/2024.01.08.574724 |
0.807 |
|
| 2024 |
Wang JJ, Steenwyk JL, Brem RB. Natural trait variation across Saccharomycotina species. Fems Yeast Research. PMID 38218591 DOI: 10.1093/femsyr/foae002 |
0.303 |
|
| 2024 |
Ye R, Biango-Daniels M, Steenwyk JL, Rokas A, Louw NL, Nardella R, Wolfe BE. Genomic, transcriptomic, and ecological diversity of Penicillium species in cheese rind microbiomes. Fungal Genetics and Biology : Fg & B. 171: 103862. PMID 38218228 DOI: 10.1016/j.fgb.2023.103862 |
0.692 |
|
| 2023 |
Steenwyk JL, Rokas A, Goldman GH. Know the enemy and know yourself: Addressing cryptic fungal pathogens of humans and beyond. Plos Pathogens. 19: e1011704. PMID 37856485 DOI: 10.1371/journal.ppat.1011704 |
0.615 |
|
| 2023 |
Goldman G, Valero C, Pinzan C, de Castro P, van Rhijn N, Earle K, Liu H, Horta MA, Kniemeyer O, Kruger T, Pschibul A, Coemert D, Heinekamp T, Brakhage A, Steenwyk J, et al. A phylogenetic approach to explore the conidial surface-associated proteome and its role in pathogenesis. Research Square. PMID 37790311 DOI: 10.21203/rs.3.rs-3306535/v1 |
0.805 |
|
| 2023 |
Gonçalves C, Harrison MC, Steenwyk JL, Opulente DA, LaBella AL, Wolters JF, Zhou X, Shen XX, Groenewald M, Hittinger CT, Rokas A. Diverse signatures of convergent evolution in cacti-associated yeasts. Biorxiv : the Preprint Server For Biology. PMID 37745407 DOI: 10.1101/2023.09.14.557833 |
0.833 |
|
| 2023 |
Valero C, Pinzan CF, de Castro PA, van Rhijn N, Earle K, Liu H, Horta MAC, Kniemeyer O, Krüger T, Pschibul A, Coemert DN, Heinekamp T, Brakhage AA, Steenwyk JL, Mead ME, et al. A phylogenetic approach to explore the conidial surface-associated proteome and its role in pathogenesis. Biorxiv : the Preprint Server For Biology. PMID 37662192 DOI: 10.1101/2023.08.22.553365 |
0.805 |
|
| 2023 |
O'Meara MJ, Rapala JR, Nichols CB, Alexandre C, Billmyre RB, Steenwyk JL, Alspaugh JA, O'Meara TR. CryptoCEN: A Co-Expression Network for reveals novel proteins involved in DNA damage repair. Biorxiv : the Preprint Server For Biology. PMID 37645941 DOI: 10.1101/2023.08.17.553567 |
0.313 |
|
| 2023 |
Steenwyk JL, Knowles S, Bastos RW, Balamurugan C, Rinker D, Mead ME, Roberts CD, Raja HA, Li Y, Colabardini AC, de Castro PA, Dos Reis TF, Canóvas D, Sanchez RL, Lagrou K, et al. Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen. Biorxiv : the Preprint Server For Biology. PMID 37461539 DOI: 10.1101/2023.07.03.547508 |
0.847 |
|
| 2023 |
Opulente DA, LaBella AL, Harrison MC, Wolters JF, Liu C, Li Y, Kominek J, Steenwyk JL, Stoneman HR, VanDenAvond J, Miller CR, Langdon QK, Silva M, Gonçalves C, Ubbelohde EJ, et al. Genomic and ecological factors shaping specialism and generalism across an entire subphylum. Biorxiv : the Preprint Server For Biology. PMID 37425695 DOI: 10.1101/2023.06.19.545611 |
0.818 |
|
| 2023 |
Steenwyk JL, Li Y, Zhou X, Shen XX, Rokas A. Incongruence in the phylogenomics era. Nature Reviews. Genetics. PMID 37369847 DOI: 10.1038/s41576-023-00620-x |
0.823 |
|
| 2023 |
Mead ME, de Castro PA, Steenwyk JL, Gangneux JP, Hoenigl M, Prattes J, Rautemaa-Richardson R, Guegan H, Moore CB, Lass-Flörl C, Reizine F, Valero C, Van Rhijn N, Bromley MJ, Rokas A, et al. COVID-19-Associated Pulmonary Aspergillosis Isolates Are Genomically Diverse but Similar to Each Other in Their Responses to Infection-Relevant Stresses. Microbiology Spectrum. e0512822. PMID 36946762 DOI: 10.1128/spectrum.05128-22 |
0.823 |
|
| 2023 |
Sierra-Patev S, Min B, Naranjo-Ortiz M, Looney B, Konkel Z, Slot JC, Sakamoto Y, Steenwyk JL, Rokas A, Carro J, Camarero S, Ferreira P, Molpeceres G, Ruiz-Dueñas FJ, Serrano A, et al. A global phylogenomic analysis of the shiitake genus . Proceedings of the National Academy of Sciences of the United States of America. 120: e2214076120. PMID 36848567 DOI: 10.1073/pnas.2214076120 |
0.83 |
|
| 2023 |
Balamurugan C, Steenwyk JL, Goldman GH, Rokas A. The evolution of the gliotoxin biosynthetic gene cluster in fungi. Biorxiv : the Preprint Server For Biology. PMID 36711793 DOI: 10.1101/2023.01.17.524442 |
0.754 |
|
| 2023 |
Steenwyk JL, Rokas A. The dawn of relaxed phylogenetics. Plos Biology. 21: e3001998. PMID 36696649 DOI: 10.1371/journal.pbio.3001998 |
0.639 |
|
| 2022 |
Brown A, Mead ME, Steenwyk JL, Goldman GH, Rokas A. Extensive non-coding sequence divergence between the major human pathogen and its relatives. Frontiers in Fungal Biology. 3. PMID 36866034 DOI: 10.3389/ffunb.2022.802494 |
0.818 |
|
| 2022 |
Li Y, Liu H, Steenwyk JL, LaBella AL, Harrison MC, Groenewald M, Zhou X, Shen XX, Zhao T, Hittinger CT, Rokas A. Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum. Current Biology : Cb. PMID 36334587 DOI: 10.1016/j.cub.2022.10.025 |
0.836 |
|
| 2022 |
Steenwyk JL, Goltz DC, Buida TJ, Li Y, Shen XX, Rokas A. OrthoSNAP: A tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees. Plos Biology. 20: e3001827. PMID 36228036 DOI: 10.1371/journal.pbio.3001827 |
0.832 |
|
| 2022 |
Horta MAC, Steenwyk JL, Mead ME, Dos Santos LHB, Zhao S, Gibbons JG, Marcet-Houben M, Gabaldón T, Rokas A, Goldman GH. Examination of Genome-Wide Ortholog Variation in Clinical and Environmental Isolates of the Fungal Pathogen Aspergillus fumigatus. Mbio. e0151922. PMID 35766381 DOI: 10.1128/mbio.01519-22 |
0.823 |
|
| 2022 |
Steenwyk JL, Buida Iii TJ, Gonçalves C, Goltz DC, Morales G, Mead ME, LaBella AL, Chavez CM, Schmitz JE, Hadjifrangiskou M, Li Y, Rokas A. BioKIT: a versatile toolkit for processing and analyzing diverse types of sequence data. Genetics. PMID 35536198 DOI: 10.1093/genetics/iyac079 |
0.8 |
|
| 2022 |
Steenwyk JL, Phillips MA, Yang F, Date SS, Graham TR, Berman J, Hittinger CT, Rokas A. An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function. Science Advances. 8: eabn0105. PMID 35507651 DOI: 10.1126/sciadv.abn0105 |
0.693 |
|
| 2022 |
Bradley NP, Wahl KL, Steenwyk JL, Rokas A, Eichman BF. Resistance-Guided Mining of Bacterial Genotoxins Defines a Family of DNA Glycosylases. Mbio. e0329721. PMID 35311535 DOI: 10.1128/mbio.03297-21 |
0.643 |
|
| 2022 |
de Castro PA, Colabardini AC, Moraes M, Horta MAC, Knowles SL, Raja HA, Oberlies NH, Koyama Y, Ogawa M, Gomi K, Steenwyk JL, Rokas A, Gonçales RA, Duarte-Oliveira C, Carvalho A, et al. Regulation of gliotoxin biosynthesis and protection in Aspergillus species. Plos Genetics. 18: e1009965. PMID 35041649 DOI: 10.1371/journal.pgen.1009965 |
0.685 |
|
| 2021 |
Dos Santos RAC, Mead ME, Steenwyk JL, Rivero-Menéndez O, Alastruey-Izquierdo A, Goldman GH, Rokas A. Examining Signatures of Natural Selection in Antifungal Resistance Genes Across Fungi. Frontiers in Fungal Biology. 2: 723051. PMID 37744093 DOI: 10.3389/ffunb.2021.723051 |
0.793 |
|
| 2021 |
Steenwyk JL, Rokas A. ggpubfigs: Colorblind-Friendly Color Palettes and ggplot2 Graphic System Extensions for Publication-Quality Scientific Figures. Microbiology Resource Announcements. 10: e0087121. PMID 34734767 DOI: 10.1128/MRA.00871-21 |
0.564 |
|
| 2021 |
LaBella AL, Opulente DA, Steenwyk JL, Hittinger CT, Rokas A. Correction: Variation and selection on codon usage bias across an entire subphylum. Plos Genetics. 17: e1009824. PMID 34570754 DOI: 10.1371/journal.pgen.1009824 |
0.739 |
|
| 2021 |
Phillips MA, Steenwyk JL, Shen XX, Rokas A. Examination of gene loss in the DNA mismatch repair pathway and its mutational consequences in a fungal phylum. Genome Biology and Evolution. PMID 34554246 DOI: 10.1093/gbe/evab219 |
0.817 |
|
| 2021 |
Steenwyk JL, Rokas A. orthofisher: a broadly applicable tool for automated gene identification and retrieval. G3 (Bethesda, Md.). 11. PMID 34544141 DOI: 10.1093/g3journal/jkab250 |
0.713 |
|
| 2021 |
Ries LNA, Alves de Castro P, Pereira Silva L, Valero C, Dos Reis TF, Saborano R, Duarte IF, Persinoti GF, Steenwyk JL, Rokas A, Almeida F, Costa JH, Fill T, Sze Wah Wong S, Aimanianda V, et al. Aspergillus fumigatus Acetate Utilization Impacts Virulence Traits and Pathogenicity. Mbio. e0168221. PMID 34311583 DOI: 10.1128/mBio.01682-21 |
0.634 |
|
| 2021 |
Steenwyk JL, Mead ME, de Castro PA, Valero C, Damasio A, Dos Santos RAC, Labella AL, Li Y, Knowles SL, Raja HA, Oberlies NH, Zhou X, Cornely OA, Fuchs F, Koehler P, et al. Genomic and Phenotypic Analysis of COVID-19-Associated Pulmonary Aspergillosis Isolates of Aspergillus fumigatus. Microbiology Spectrum. e0001021. PMID 34106569 DOI: 10.1128/Spectrum.00010-21 |
0.826 |
|
| 2021 |
Mead ME, Steenwyk JL, Silva LP, de Castro PA, Saeed N, Hillmann F, Goldman GH, Rokas A. An evolutionary genomic approach reveals both conserved and species-specific genetic elements related to human disease in closely related Aspergillus fungi. Genetics. PMID 33944921 DOI: 10.1093/genetics/iyab066 |
0.851 |
|
| 2021 |
LaBella AL, Opulente DA, Steenwyk JL, Hittinger CT, Rokas A. Signatures of optimal codon usage in metabolic genes inform budding yeast ecology. Plos Biology. 19: e3001185. PMID 33872297 DOI: 10.1371/journal.pbio.3001185 |
0.823 |
|
| 2021 |
Shen XX, Steenwyk JL, Rokas A. Dissecting incongruence between concatenation- and quartet-based approaches in phylogenomic data. Systematic Biology. PMID 33616672 DOI: 10.1093/sysbio/syab011 |
0.78 |
|
| 2021 |
Li Y, Steenwyk JL, Chang Y, Wang Y, James TY, Stajich JE, Spatafora JW, Groenewald M, Dunn CW, Hittinger CT, Shen XX, Rokas A. A genome-scale phylogeny of the kingdom Fungi. Current Biology : Cb. PMID 33607033 DOI: 10.1016/j.cub.2021.01.074 |
0.849 |
|
| 2021 |
Steenwyk JL, Buida TJ, Labella AL, Li Y, Shen XX, Rokas A. PhyKIT: a broadly applicable UNIX shell toolkit for processing and analyzing phylogenomic data. Bioinformatics (Oxford, England). PMID 33560364 DOI: 10.1093/bioinformatics/btab096 |
0.793 |
|
| 2020 |
Steenwyk JL, Buida TJ, Li Y, Shen XX, Rokas A. ClipKIT: A multiple sequence alignment trimming software for accurate phylogenomic inference. Plos Biology. 18: e3001007. PMID 33264284 DOI: 10.1371/journal.pbio.3001007 |
0.794 |
|
| 2020 |
Li Y, David KT, Shen XX, Steenwyk JL, Halanych KM, Rokas A. Feature frequency profile-based phylogenies are inaccurate. Proceedings of the National Academy of Sciences of the United States of America. PMID 33234569 DOI: 10.1073/pnas.2013143117 |
0.749 |
|
| 2020 |
Steenwyk JL, Mead ME, de Castro PA, Valero C, Damasio A, Dos Santos RAC, Labella AL, Li Y, Knowles SL, Raja HA, Oberlies NH, Zhou X, Cornely OA, Fuchs F, Koehler P, et al. Genomic and phenotypic analysis of COVID-19-associated pulmonary aspergillosis isolates of . Biorxiv : the Preprint Server For Biology. PMID 33173866 DOI: 10.1101/2020.11.06.371971 |
0.834 |
|
| 2020 |
Shen XX, Steenwyk JL, LaBella AL, Opulente DA, Zhou X, Kominek J, Li Y, Groenewald M, Hittinger CT, Rokas A. Genome-scale phylogeny and contrasting modes of genome evolution in the fungal phylum Ascomycota. Science Advances. 6. PMID 33148650 DOI: 10.1126/sciadv.abd0079 |
0.838 |
|
| 2020 |
Filho APDC, Brancini GTP, de Castro PA, Valero C, Ferreira Filho JA, Silva LP, Rocha MC, Malavazi I, Pontes JGM, Fill T, Silva RN, Almeida F, Steenwyk JL, Rokas A, Dos Reis TF, et al. Aspergillus fumigatus G-Protein Coupled Receptors GprM and GprJ Are Important for the Regulation of the Cell Wall Integrity Pathway, Secondary Metabolite Production, and Virulence. Mbio. 11. PMID 33051372 DOI: 10.1128/mBio.02458-20 |
0.655 |
|
| 2020 |
Dos Santos RAC, Rivero-Menendez O, Steenwyk JL, Mead ME, Goldman GH, Alastruey-Izquierdo A, Rokas A. Draft Genome Sequences of Four Section Clinical Strains. Microbiology Resource Announcements. 9. PMID 33004453 DOI: 10.1128/MRA.00856-20 |
0.822 |
|
| 2020 |
Steenwyk JL, Mead ME, Knowles SL, Raja HA, Roberts CD, Bader O, Houbraken J, Goldman GH, Oberlies NH, Rokas A. Variation Among Biosynthetic Gene Clusters, Secondary Metabolite Profiles, and Cards of Virulence Across Species. Genetics. PMID 32817009 DOI: 10.1534/Genetics.120.303549 |
0.845 |
|
| 2020 |
Ries LNA, Pardeshi L, Dong Z, Tan K, Steenwyk JL, Colabardini AC, Ferreira Filho JA, de Castro PA, Silva LP, Preite NW, Almeida F, de Assis LJ, Dos Santos RAC, Bowyer P, Bromley M, et al. The Aspergillus fumigatus transcription factor RglT is important for gliotoxin biosynthesis and self-protection, and virulence. Plos Pathogens. 16: e1008645. PMID 32667960 DOI: 10.1371/Journal.Ppat.1008645 |
0.659 |
|
| 2020 |
Steenwyk JL, Lind AL, Ries LNA, Dos Reis TF, Silva LP, Almeida F, Bastos RW, Fraga da Silva TFC, Bonato VLD, Pessoni AM, Rodrigues F, Raja HA, Knowles SL, Oberlies NH, Lagrou K, et al. Pathogenic Allodiploid Hybrids of Aspergillus Fungi. Current Biology : Cb. PMID 32502407 DOI: 10.1016/J.Cub.2020.04.071 |
0.838 |
|
| 2020 |
Dos Santos RAC, Steenwyk JL, Rivero-Menendez O, Mead ME, Silva LP, Bastos RW, Alastruey-Izquierdo A, Goldman GH, Rokas A. Genomic and Phenotypic Heterogeneity of Clinical Isolates of the Human Pathogens , , and . Frontiers in Genetics. 11: 459. PMID 32477406 DOI: 10.3389/fgene.2020.00459 |
0.841 |
|
| 2020 |
Mead ME, Borowsky AT, Joehnk B, Steenwyk JL, Shen XX, Sil A, Rokas A. Recurrent loss of abaA, a master regulator of asexual development in filamentous fungi, correlates with changes in genomic and morphological traits. Genome Biology and Evolution. PMID 32442273 DOI: 10.1093/Gbe/Evaa107 |
0.848 |
|
| 2020 |
Bastos RW, Valero C, Silva LP, Schoen T, Drott M, Brauer V, Silva-Rocha R, Lind A, Steenwyk JL, Rokas A, Rodrigues F, Resendiz-Sharpe A, Lagrou K, Marcet-Houben M, Gabaldón T, et al. Functional Characterization of Clinical Isolates of the Opportunistic Fungal Pathogen Aspergillus nidulans. Msphere. 5. PMID 32269156 DOI: 10.1128/mSphere.00153-20 |
0.811 |
|
| 2020 |
Rokas A, Mead ME, Steenwyk JL, Oberlies NH, Goldman GH. Evolving moldy murderers: Aspergillus section Fumigati as a model for studying the repeated evolution of fungal pathogenicity. Plos Pathogens. 16: e1008315. PMID 32106242 DOI: 10.1371/Journal.Ppat.1008315 |
0.784 |
|
| 2020 |
Knowles SL, Mead ME, Silva LP, Raja HA, Steenwyk JL, Goldman GH, Oberlies NH, Rokas A. Gliotoxin, a Known Virulence Factor in the Major Human Pathogen Aspergillus fumigatus, Is Also Biosynthesized by Its Nonpathogenic Relative . Mbio. 11. PMID 32047138 DOI: 10.1128/Mbio.03361-19 |
0.833 |
|
| 2020 |
Libkind D, Peris D, Cubillos FA, Steenwyk JL, Opulente DA, Langdon QK, Rokas A, Hittinger CT. Into the wild: new yeast genomes from natural environments and new tools for their analysis. Fems Yeast Research. 20. PMID 32009143 DOI: 10.1093/Femsyr/Foaa008 |
0.727 |
|
| 2020 |
Rokas A, Mead ME, Steenwyk JL, Raja HA, Oberlies NH. Biosynthetic gene clusters and the evolution of fungal chemodiversity. Natural Product Reports. PMID 31898704 DOI: 10.1039/C9Np00045C |
0.825 |
|
| 2019 |
Bodinaku I, Shaffer J, Connors AB, Steenwyk JL, Biango-Daniels MN, Kastman EK, Rokas A, Robbat A, Wolfe BE. Rapid Phenotypic and Metabolomic Domestication of Wild Molds on Cheese. Mbio. 10. PMID 31615965 DOI: 10.1128/Mbio.02445-19 |
0.661 |
|
| 2019 |
Mead ME, Raja HA, Steenwyk JL, Knowles SL, Oberlies NH, Rokas A. Draft Genome Sequence of the Griseofulvin-Producing Fungus Xylaria flabelliformis Strain G536. Microbiology Resource Announcements. 8. PMID 31537670 DOI: 10.1128/MRA.00890-19 |
0.839 |
|
| 2019 |
Steenwyk JL, Rokas A. Treehouse: a user-friendly application to obtain subtrees from large phylogenies. Bmc Research Notes. 12: 541. PMID 31455362 DOI: 10.1186/s13104-019-4577-5 |
0.587 |
|
| 2019 |
Labella AL, Opulente DA, Steenwyk JL, Hittinger CT, Rokas A. Variation and selection on codon usage bias across an entire subphylum. Plos Genetics. 15: e1008304. PMID 31365533 DOI: 10.1371/Journal.Pgen.1008304 |
0.835 |
|
| 2019 |
Steenwyk JL, Shen XX, Lind AL, Goldman GH, Rokas A. A Robust Phylogenomic Time Tree for Biotechnologically and Medically Important Fungi in the Genera and . Mbio. 10. PMID 31289177 DOI: 10.1128/Mbio.00925-19 |
0.848 |
|
| 2019 |
Steenwyk JL, Opulente DA, Kominek J, Shen XX, Zhou X, Labella AL, Bradley NP, Eichman BF, Čadež N, Libkind D, DeVirgilio J, Hulfachor AB, Kurtzman CP, Hittinger CT, Rokas A. Extensive loss of cell-cycle and DNA repair genes in an ancient lineage of bipolar budding yeasts. Plos Biology. 17: e3000255. PMID 31112549 DOI: 10.1371/Journal.Pbio.3000255 |
0.817 |
|
| 2019 |
Ries LNA, Steenwyk JL, de Castro PA, de Lima PBA, Almeida F, de Assis LJ, Manfiolli AO, Takahashi-Nakaguchi A, Kusuya Y, Hagiwara D, Takahashi H, Wang X, Obar JJ, Rokas A, Goldman GH. Nutritional Heterogeneity Among Strains Has Consequences for Virulence in a Strain- and Host-Dependent Manner. Frontiers in Microbiology. 10: 854. PMID 31105662 DOI: 10.3389/Fmicb.2019.00854 |
0.668 |
|
| 2019 |
Knowles SL, Raja HA, Wright AJ, Lee AML, Caesar LK, Cech NB, Mead ME, Steenwyk JL, Ries LNA, Goldman GH, Rokas A, Oberlies NH. Mapping the Fungal Battlefield: Using Chemistry and Deletion Mutants to Monitor Interspecific Chemical Interactions Between Fungi. Frontiers in Microbiology. 10: 285. PMID 30837981 DOI: 10.3389/Fmicb.2019.00285 |
0.778 |
|
| 2019 |
Mead ME, Knowles SL, Raja HA, Beattie SR, Kowalski CH, Steenwyk JL, Silva LP, Chiaratto J, Ries LNA, Goldman GH, Cramer RA, Oberlies NH, Rokas A. Characterizing the Pathogenic, Genomic, and Chemical Traits of , a Close Relative of the Major Human Fungal Pathogen . Msphere. 4. PMID 30787113 DOI: 10.1128/mSphere.00018-19 |
0.839 |
|
| 2018 |
Eidem HR, Steenwyk JL, Wisecaver JH, Capra JA, Abbot P, Rokas A. integRATE: a desirability-based data integration framework for the prioritization of candidate genes across heterogeneous omics and its application to preterm birth. Bmc Medical Genomics. 11: 107. PMID 30453955 DOI: 10.1186/S12920-018-0426-Y |
0.811 |
|
| 2018 |
Shen XX, Opulente DA, Kominek J, Zhou X, Steenwyk JL, Buh KV, Haase MAB, Wisecaver JH, Wang M, Doering DT, Boudouris JT, Schneider RM, Langdon QK, Ohkuma M, Endoh R, et al. Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum. Cell. PMID 30415838 DOI: 10.1016/J.Cell.2018.10.023 |
0.84 |
|
| 2018 |
Segal ES, Gritsenko V, Levitan A, Yadav B, Dror N, Steenwyk JL, Silberberg Y, Mielich K, Rokas A, Gow NAR, Kunze R, Sharan R, Berman J. Gene Essentiality Analyzed by Transposon Mutagenesis and Machine Learning in a Stable Haploid Isolate of . Mbio. 9. PMID 30377286 DOI: 10.1128/Mbio.02048-18 |
0.732 |
|
| 2018 |
Steenwyk JL, Rokas A. Copy Number Variation in Fungi and Its Implications for Wine Yeast Genetic Diversity and Adaptation. Frontiers in Microbiology. 9: 288. PMID 29520259 DOI: 10.3389/fmicb.2018.00288 |
0.673 |
|
| 2017 |
Steenwyk J, Rokas A. Extensive Copy Number Variation in Fermentation-Related Genes Among Saccharomyces cerevisiae Wine Strains. G3 (Bethesda, Md.). PMID 28292787 DOI: 10.1534/g3.117.040105 |
0.721 |
|
| 2016 |
Steenwyk JL, Soghigian JS, Perfect JR, Gibbons JG. Copy number variation contributes to cryptic genetic variation in outbreak lineages of Cryptococcus gattii from the North American Pacific Northwest. Bmc Genomics. 17: 700. PMID 27590805 DOI: 10.1186/S12864-016-3044-0 |
0.814 |
|
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