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Genome Sequence of Flavor-Producing Yeast Saprochaete suaveolens NRRL Y-17571

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Genome Sequence of the Yeast Saprochaete ingens CBS 517.90

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Machine learning illuminates how diet influences the evolution of yeast galactose metabolismPreprint

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Genome Sequence of an Arthroconidial Yeast, Saprochaete fungicola CBS 625.85

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Trait‐Based Life History Strategies Shape Bacterial Niche Breadth

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Machine learning enables identification of an alternative yeast galactose utilization pathway

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Reviving Élie Metschnikoff's Monospora : the obligately parasitic yeast Australozyma monospora sp. nov

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Machine learning reveals genes impacting oxidative stress resistance across yeasts

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Exploring Saccharomycotina Yeast Ecology Through an Ecological Ontology Framework

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Convergent reductive evolution in bee-associated lactic acid bacteria

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The rate of glucose metabolism sets the cell morphology across yeast strains and species

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Ancient origin and high diversity of zymocin-like killer toxins in the budding yeast subphylum

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Wine Fermentation as a Model System for Microbial Ecology and Evolution

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Predicting natural variation in the yeast phenotypic landscape with machine learning

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Metabolically flexible microorganisms rapidly establish glacial foreland ecosystems

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Understanding methanol metabolism through systems biology: advances and future perspectives

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Structural genomics sheds light on protein functions and remote homologs across the insect tree of life

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Specialization Restricts the Evolutionary Paths Available to Yeast Sugar Transporters

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Reaffirming the importance of nomenclature stability for Candida auris and its associated disease of candidiasis

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Diversity of α-acetolactate decarboxylase in the Saccharomycotina yeast subphylum: From discovery to brewing application

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Discovery of additional ancient genome duplications in yeasts

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Ancient co-option of LTR retrotransposons as yeast centromeres

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Machine learning identifies novel signatures of antifungal drug resistance in Saccharomycotina yeasts

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Expanding the versatility of the protein master Pichia pastoris towards efficient biosynthesis of diterpenoid sclareol

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The genomes of nematode-trapping fungi provide insights into the origin and diversification of fungal carnivorism

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Chromosome-level genome assembly of the yeast Lodderomyces beijingensis reveals the genetic nature of metabolic adaptations and identifies subtelomeres as hotspots for amplification of mating type loci

Brejová, B., Hodorová, V., Mutalová, S., Cillingová, A., Tomáška, Ľ., Vinař, T., & Nosek, J. (2024) · DNA Research · doi:10.1093/dnares/dsae014 · Cited by 4 · see citing works

Cultures as types and the utility of viable specimens for fungal nomenclature

Yurkov, A. M., Visagie, C. M., Crous, P. W., Hashimoto, A., Baschien, C., Begerow, D., Kemler, M., Schoutteten, N., Stadler, M., Wijayawardene, N. N., et al. (2024) · IMA Fungus · doi:10.1186/s43008-024-00155-8 · Cited by 4 · see citing works

Small pangenome of Candida parapsilosis reflects overall low intraspecific diversity

Ryan, A. P., Bergin, S. A., Scully, J., Zuniga‐Soto, E., Hession, C., Barber, A. E., Gómez-Molero, E., Bader, O., Morio, F., Zhai, B., et al. (2025) · mBio · doi:10.1128/mbio.01320-25 · Cited by 3 · see citing works

Yeasty memories, yeast genomes and beyond—from controversy to collaboration

Dujon, B., & Cooper, T. (2025) · FEMS Yeast Research · doi:10.1093/femsyr/foaf073 · Cited by 3 · see citing works

Distribution of yeast species and their resistance to copper and sulfite across arboreal and viticulture habitats

Fay, J. C., Miller, J. H., Dashko, S., Hyma, K. E., Liu, P., Volk, H., Cohen, H., Rahman, N. F., Tang, K., Longan, E. R., et al. (2025) · FEMS Yeast Research · doi:10.1093/femsyr/foaf074 · Cited by 3 · see citing works

Engineering and characterization of small-molecule transporters for cell factories

Zhang, Y., Kell, D. B., & Borodina, I. (2025) · Trends in biotechnology · doi:10.1016/j.tibtech.2025.11.019 · Cited by 3 · see citing works

Centromeres in budding yeasts are conserved in chromosomal location but not in structure

Hession, C., Byrne, K. P., Wolfe, K. H., & Butler, G. (2025) · PLoS Genetics · doi:10.1371/journal.pgen.1011814 · Cited by 3 · see citing works

Ancient co-option of LTR retrotransposons as yeast centromeresPreprint

Haase, M. A. B., Lazar‐Stefanita, L., Baudry, L., Wudzinska, A. M., Zhou, X., Rokas, A., Hittinger, C. T., Musacchio, A., & Boeke, J. D. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.04.25.647736 · Cited by 3 · see citing works

Mechanisms of Thermotolerance and Thermotolerant Yeasts: Properties and Applications

Sibirny, A. А., Ruchała, J., Vasylyshyn, R. V., Péter, G., & Dmytruk, K. V. (2025) · Springer eBooks · doi:10.1007/978-3-031-97453-3_2 · Cited by 2 · see citing works

Osmotolerant and Osmophilic Yeasts

Čadež, N., Качалкин, А. В., & Péter, G. (2025) · Springer eBooks · doi:10.1007/978-3-031-97453-3_5 · Cited by 2 · see citing works

Next-generation brewing yeasts for non-alcoholic beers

Cibin, I., Spaepen, S., Steensels, J., & Verstrepen, K. J. (2026) · Current Opinion in Biotechnology · doi:10.1016/j.copbio.2026.103525 · Cited by 2 · see citing works

Is metabolic generalism the Breakfast of Champions for pathogenic Candida species?

Childers, D. S., & Usher, J. (2024) · PLoS Pathogens · doi:10.1371/journal.ppat.1012752 · Cited by 2 · see citing works

Lactose-assimilating yeasts with high fatty acid accumulation uncovered by untargeted bioprospecting

Persson, K. O., Onyema, V. O., Nwafor, I. P., Peri, K. V. R., Otti, C., Nnaemeka, P., Onyishi, C. L., Okoye, S., Moneke, A. N., Amadi, O. C., et al. (2024) · Applied and Environmental Microbiology · doi:10.1128/aem.01615-24 · Cited by 2 · see citing works

Celebrating the fifth edition of the International Symposium on Fungal Stress – ISFUS, a decade after its 2014 debut

Alder-Rangel, A., Rangel, A. E. A., Casadevall, A., Gusa, A. A., Xue, C., Boone, C. M., Hittinger, C. T., Masuda, C. A., Olivares-Yáñez, C., Bell‐Pedersen, D., et al. (2025) · Fungal Biology · doi:10.1016/j.funbio.2025.101590 · Cited by 2 · see citing works

Translating microbial kinetics into quantitative responses and testable hypotheses using Kinbiont

Angaroni, F., Peruzzi, A., Alvarenga, E. Z., & Pinheiro, F. (2025) · Nature Communications · doi:10.1038/s41467-025-61592-6 · Cited by 2 · see citing works

S. cerevisiae serves as keystone species for spoilage resistance in experimental synthetic wine yeast communitiesPreprint

Leale, A. M., Pourcelot, E., Guézenec, S., Sicard, D., & Nidelet, T. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.07.04.602080 · Cited by 2 · see citing works

Mitochondrial retrograde control of transcription evolves with respiratory stress, metabolic adaptation, and virulence in budding yeasts

Łabędzka-Dmoch, K., Bui, T. H. D., Piątkowski, J., Dilling, M., Jagiełło, P., Kabza, W., & Golik, P. (2026) · Molecular Biology and Evolution · doi:10.1093/molbev/msag005 · Cited by 1 · see citing works

The genome sequence of a marine yeast, Metschnikowia zobellii (Uden & Cast.-Branco, 1961)

Cunliffe, M., Allen, R., Chrismas, N. A. M., collective, D. T. O. L. B., & collective, T. O. L. C. I. (2023) · Wellcome Open Research · doi:10.12688/wellcomeopenres.19998.1 · Cited by 1 · see citing works

Description of Millerago gen. nov. based on taxogenomic analysis, with two new species, Millerago phaffii f.a., sp. nov. and Millerago galiae f.a., sp. nov.

García‐Acero, Á. M., Batista, T. M., Souza, G. F. L., Santos, A. R. O., Souza, D. L., Franco, G. R., Velásquez-Lozano, M. E., Yamamoto, D., Toki, W., Lachance, M., et al. (2024) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.006565 · Cited by 1 · see citing works

Genome sequence of the yeast Candida solani UCD1087, isolated from soil in Ireland

Osborne, M., Hession, C., Behnass, S., Biju, C., Dennison, J., Faulkner, A., Flynn, A., Haugh, J., Magner, S., OʼReilly, S., et al. (2025) · Microbiology Resource Announcements · doi:10.1128/mra.01168-24 · Cited by 1 · see citing works

Genomic and secretomic analyses of Blastobotrys yeasts reveal key xylanases for biomass decomposition

Ravn, J., Ristinmaa, A. S., Mazurkewich, S., Dias, G. B., Larsbrink, J., & Geijer, C. (2025) · Applied Microbiology and Biotechnology · doi:10.1007/s00253-025-13556-5 · Cited by 1 · see citing works

Genomic factors limiting the diversity of Saccharomycotina plant pathogens

Lee, S. Y., West, C., Opulente, D. A., Harrison, M., Wolters, J. F., Shen, X., Zhou, X., Groenewald, M., Hittinger, C. T., Rokas, A., et al. (2025) · G3 Genes Genomes Genetics · doi:10.1093/g3journal/jkaf184 · Cited by 1 · see citing works

Taxogenomic analysis of Pichia senei sp. nov. and new insights into hybridization events in the Pichia cactophila species complex

Barros, K. O., Al-Oboudi, J., Freitas, L. F. D., de Sousa, F. M. P., Batista, T. M., Santos, A. R. O., Morais, P. B., Sampaio, J. P., Lachance, M., Hittinger, C. T., et al. (2025) · FEMS Yeast Research · doi:10.1093/femsyr/foaf037 · Cited by 1 · see citing works

Microbial Life in Extreme Habitats

Yurkov, A. M., Turchetti, B., & Buzzini, P. (2025) · Springer eBooks · doi:10.1007/978-3-031-97453-3_1 · Cited by 1 · see citing works

Cyberlindnera hibernica sp. nov. and Barnettozyma discipulorum sp. nov., isolated from forest soil in Ireland

Ryan, A. P., Carvalho, C., Zhao, Y., Decuseara, J., Osborne, M., Heneghan, P. G., Byrne, K. P., Cróinı́n, T. Ó., Wolfe, K. H., Sampaio, J. P., et al. (2025) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.006898 · Cited by 1 · see citing works

Pathways regulating changes in soil microbial carbon use efficiency with plant cover and nitrogen addition in a desert of the Tibetan Plateau

Zhao, Y. J., Gong, J.-Y., Pei, J.-Y., Huang, F., & Ye, J. (2025) · Plant and Soil · doi:10.1007/s11104-025-07895-5 · Cited by 1 · see citing works

Advances and challenges in understanding evolution through genome comparison: meeting report of the European Molecular Biology Organization (EMBO) lecture course “Evolutionary and Comparative Genomics”

Gavriilidou, A., Stamatakis, A., Kupczok, A., Bista, I., Jiggins, C. D., Fernández, R., Skourtanioti, E., Amoutzias, G. D., Delneri, D., Kyrpides, N. C., et al. (2024) · Bioinformatics Advances · doi:10.1093/bioadv/vbaf223 · Cited by 1 · see citing works

A Global Synthesis of Yeast in Microbiomes

Lin, C.-P., Geroldi, A., Mojica, N. S., Liti, G., & Tsai, I. J. (2026) · Yeast · doi:10.1002/yea.70039 · Cited by 1 · see citing works

Complete diploid genome of the type strain Yarrowia lipolytica YB-423 (ATCC 18942™)

Crill, J. E., Nguyen, S. V., Tabron, C. L., Puthuveetil, N. P., Muhle, A., Avery, Z. W., Petrone, J. R., Bentley, K., Kirkland, J. L., Wax, N., et al. (2026) · Journal of Industrial Microbiology & Biotechnology · doi:10.1093/jimb/kuag002 · Cited by 1 · see citing works

Model-driven exploration of lactose and galactose metabolism via an oxidoreductive pathway in Sungouiella intermedia for cell factory applications

Peri, K. V. R., Domenzain, I., Alalam, H., Pianale, L. T., Rascón, A. V., Nielsen, J., & Geijer, C. (2026) · Microbial Cell Factories · doi:10.1186/s12934-026-02941-y · Cited by 1 · see citing works

Construction of a reference genome for Starmerella batistae and annotation of Starmerella species reveal an unexpected evolutionary relationship with Schizosaccharomyces pombe and suggest an alternative enzymatic route for sophorolipid production

Timouma, S., Hanak, A., Balarezo-Cisneros, L. N., Donaldson, I. J., Valle, F., & Delneri, D. (2026) · FEMS Yeast Research · doi:10.1093/femsyr/foag008 · Cited by 1 · see citing works

The role and possible mechanism of intestinal fungi in the progression of chronic liver diseases

Hu, Y. H., Yang, Y., Wang, S., & Chu, H. (2026) · npj Biofilms and Microbiomes · doi:10.1038/s41522-026-00961-5 · Cited by 3 · see citing works

Parallel but distinct adaptive routes in the budding and fission yeasts after 10,000 generations of experimental evolution

N’Guessan, A., Wang, V., Bakerlee, C. W., Belousova, J., Brenna, G., Dillingham, M. E., Dupic, T., Gopalakrishnan, S., Goyal, J., Gupta, M., et al. (2026) · Nature Ecology & Evolution · doi:10.1038/s41559-026-03017-1 · Cited by 1 · see citing works

Ecological specialization and admixture drive the genomic and phenotypic diversity in Yarrowia lipolytica

Izquierdo‐Gea, S., Vicente, J., Peña, T. A., Villarreal, P. D., Cubillos, F. A., Neuvéglise, C., Barriuso, J., Belda, I., & Ruíz, J. (2026) · Cell Reports · doi:10.1016/j.celrep.2026.117163 · Cited by 2 · see citing works

Nitrogen management in the optimization of microbial plastic waste upcycling

Noroozi, K., Chen, H., Hupp, V. M., Blenner, M., Brown, R. C., Wen, Z., & Jarboe, L. R. (2026) · Bioresources and Bioprocessing · doi:10.1186/s40643-026-01046-z · Cited by 1 · see citing works

Description of Deakozyma peteri sp. nov., a yeast isolated from substrates of neotropical regions

Santos, A. R. O., Vianei, D. D. O., Lopes, M. C. M. S., Barros, K. O., Morais, P. B., Torre, O. H. P. D., Pompéia, S. L., Santa‐Brígida, R., Martins, M. B., Souza, D. L., et al. (2026) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.007195 · Cited by 1 · see citing works

Genotypic and Phenotypic Diversity of Maudiozyma humilis : The Multiple Evolutionary Trajectories of a Domesticated Yeast

Lebleux, M., Rouil, J., Segond, D., Marlin, T., Howell, K. S., Bechara, P., Nidelet, T., Arnould, L., Sicard, D., & Devillers, H. (2026) · Genome Biology and Evolution · doi:10.1093/gbe/evag176 · Cited by 1 · see citing works

Vanderwaltozyma urihicola sp. nov., a yeast species isolated from rotting wood and beetles in a Brazilian Amazonian rainforest biome

Alvarenga, F. B. M., Barros, K. O., Batista, T. M., Souza, G. F. L., Santos, A. R. O., Abegg, M. A., Sato, T. K., Hittinger, C. T., Lachance, M., & Rosa, C. A. (2025) · INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY · doi:10.1099/ijsem.0.006718 · Cited by 1 · see citing works

Convergent expansions of keystone gene families drive metabolic innovation in a major eukaryotic cladePreprint

David, K. T., Schraiber, J. G., Crandall, J. G., LaBella, A. L., Opulente, D. A., Harrison, M., Wolters, J. F., Zhou, X., Shen, X., Groenewald, M., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.07.22.604484 · Cited by 1 · see citing works

Stable hypermutators revealed by the genomic landscape of DNA repair genes among yeast speciesPreprint

Gonçalves, C., Steenwyk, J. L., Rinker, D. C., Opulente, D. A., LaBella, A. L., Harrison, M., Wolters, J. F., Zhou, X., Shen, X., Covo, S., et al. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.03.15.643480 · Cited by 1 · see citing works

Ecology and evolution of microbial community assembly

Leale, A. M. (2024) · doi:10.18174/673035

Description of Wickerhamia europaea sp. nov. and revisitation of the ascospore number of W. fluorescens

Dlauchy, D., Качалкин, А. В., Glushakova, A. M., Buda, K., Fehér, C., & Péter, G. (2024) · International Microbiology · doi:10.1007/s10123-024-00622-7

Proposal of two new genera and seventy-seven new species of ascomycetous yeasts isolated from ChinaPreprint

Zhu, H., Li, A.-H., Liu, M.-M., Jiang, Y.-L., Zhao, X.-M., Pan, S., Liu, J.-H., Zhang, X., Wang, J.-C., Tian, Z., et al. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.06.10.658801

Filamentation Profiling Reveals Multiple Transcription Regulators Contributing to the Differences Between Candida albicans and Candida dubliniensis

Meza‐Davalos, T., García-Ortega, L. F., & Mancera, E. (2025) · Molecular Microbiology · doi:10.1111/mmi.70012

Taxogenomic Analysis of a Novel Yeast Species, Lachancea rosae Sp. Nov. F.A., Isolated From the Wild Rose Rosa californica

Bajgain, Y., Langdon, Q. K., Krien, C. M., Jarzyna, M., Buh, K. V., Haase, M. A. B., Pasles, A., Wolters, J. F., Groenewald, M., Hittinger, C. T., et al. (2025) · Yeast · doi:10.1002/yea.70000

Unveiling the genetic basis of the low pH response in the acidophilic yeast Maudiozyma bulderi as a potential host for biorefinery

Balarezo-Cisneros, L. N., Hanak, A., Zeef, L. A. H., Mironov, A., Valle, F., & Delneri, D. (2025) · FEMS Yeast Research · doi:10.1093/femsyr/foaf053

Inferring fungal cis-regulatory networks from genome sequences via unsupervised and interpretable representation learning

Moses, A. M., Stajich, J., Gasch, A. P., & Knowles, D. A. (2025) · Genetics · doi:10.1093/genetics/iyaf209

A trait syndrome ties cell morphology to glycolysis across the yeast subphylum

Horianopoulos, L. C., Chavez, C. M., Rokas, A., & Hittinger, C. T. (2026) · iScience · doi:10.1016/j.isci.2026.116395

Transcriptional Reprogramming Drives Cold Adaptation During Long-Term Starvation in Saccharomyces eubayanusPreprint

Saona, L. A., Mateluna-Cáceres, T., Villarreal, P. D., Heras, M. L., Zavaleta, V., & Cubillos, F. A. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.11.19.689257

The macroevolution of filamentation morphology across the Saccharomycotina yeast subphylum

Chavez, C. M., Harrison, M., Danis, T., Groenewald, M., Hittinger, C. T., & Rokas, A. (2026) · FEMS Yeast Research · doi:10.1093/femsyr/foag001

The interplay of plants and microbial communities in modulating dissolved organic matter dynamics in a Tibetan glacier forefield

Liu, Y., Li, S., Liu, P., Shi, Q., He, C., & Ji, M. (2026) · Plant and Soil · doi:10.1007/s11104-026-08305-0

Genome sequence of the yeast Candida solani UCD2211 isolated from soil in Ireland

Heneghan, P. G., O’Neill, R., Osinovskaia, U., Ryan, A. P., Sebastian, E., Silitrari-Chen, F., Vial, A., Vozza, I., Giguere, V. W., Cróinı́n, T. Ó., et al. (2026) · Microbiology Resource Announcements · doi:10.1128/mra.01409-25

Fungaemia Caused by the Rare Yeast Starmerella sorbosivorans: A Case Report with Identification via Molecular Phylogenetic Analysis and MALDI-TOF MS

Ikegaki, S., Nagatsuka, Y., Ban, S., Kano, D., Ohji, G., Yamamoto, H., Iwata, K., & Sato, Y. (2026) · Mycopathologia · doi:10.1007/s11046-026-01057-6

Genome sequence of the yeast Candida sake UCD2293, isolated from soil in Ireland

Osborne, M., Aherne, S. J., Bergin, S. A., Flannery, E., Hession, C., Jordan, T., Kershaw, H., Lopez, P. M., O'Connor, A., Ramanauskaite, U., et al. (2026) · Microbiology Resource Announcements · doi:10.1128/mra.01410-25

Evolutionary diversification of invertase paralogs couples carbon metabolism and sexual reproduction in fission yeasts

Noly, A., Faux, C., Shaldaeva, M., Naegelin, L. B., Fort, P., & Helmlinger, D. (2026) · Molecular Biology and Evolution · doi:10.1093/molbev/msag233

Genomic and ecological factors shaping specialism and generalism across an entire subphylumPreprint

Opulente, D. A., LaBella, A. L., Harrison, M., Wolters, J. F., Liu, C., Li, Y., Kominek, J., Steenwyk, J. L., Stoneman, H. R., VanDenAvond, J., et al. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.06.19.545611 · Cited by 26 · see citing works

Genotypic and phenotypic variation in carbon metabolism and niche breadth in wild and industrial strains of Saccharomyces cerevisiae

Opulente, D. A. (2015) · Academic Commons (Stony Brook University)

Yeast adapts to diverse ecological niches driven by genomics and metabolic reprogramming

Wang, H., Nielsen, J., Zhou, Y. J., & Lu, H. (2025) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2502044122 · Cited by 10 · see citing works

Exploring Saccharomycotina Yeast Ecology Through an Ecological Ontology Framework

Harrison, M., Opulente, D. A., Wolters, J. F., Shen, X., Zhou, X., Groenewald, M., Hittinger, C. T., Rokas, A., & LaBella, A. L. (2024) · Yeast · doi:10.1002/yea.3981 · Cited by 10 · see citing works

Niche-driven evolution of metabolic and life-history strategies in natural and domesticated populations of Saccharomyces cerevisiae

Spor, A., Nidelet, T., Simon, J., Bourgais, A., de Vienne, D., & Sicard, D. (2009) · BMC Evolutionary Biology · doi:10.1186/1471-2148-9-296 · Cited by 63 · see citing works