FEMS yeast research最新文献

Indigenous Microorganisms and Benefit Sharing. 本土微生物与惠益分享。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-05-05 DOI: 10.1093/femsyr/foag016

K L Riddle, R Sterling, M Hudson, J Anderson

引用次数: 0

A CRISPR/Cas9-based genome-editing platform enabling efficient and precise gene replacement in Lipomyces starkeyi. 一种基于CRISPR/ cas9的基因组编辑平台，可在starkeyi脂菌中实现高效和精确的基因替换。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-04-23 DOI: 10.1093/femsyr/foag014

Rikako Sato, Kaito Maruyama, Satoshi Ara, Masayuki Shibata, Yosuke Shida, Wataru Ogasawara, Harutake Yamazaki, Hiroaki Takaku

{"title":"A CRISPR/Cas9-based genome-editing platform enabling efficient and precise gene replacement in Lipomyces starkeyi.","authors":"Rikako Sato, Kaito Maruyama, Satoshi Ara, Masayuki Shibata, Yosuke Shida, Wataru Ogasawara, Harutake Yamazaki, Hiroaki Takaku","doi":"10.1093/femsyr/foag014","DOIUrl":"https://doi.org/10.1093/femsyr/foag014","url":null,"abstract":"Lipomyces starkeyi is a promising oleaginous yeast with industrial potential. However, its genome engineering remains constrained by low gene-targeting efficiency and the requirement for long homologous regions. Herein, we established a CRISPR/Cas9 genome-editing platform for L. starkeyi by expressing codon-optimized Streptococcus pyogenes Cas9 fused to an SV40 nuclear localization signal. Furthermore, in vitro-transcribed single-guide RNAs (sgRNAs) were directly delivered into the host, eliminating the need for endogenous RNA polymerase III-dependent sgRNA expression. CRISPR/Cas9 activity was validated using a codon-optimized Aequorea coerulescens GFP reporter. Cas9-induced frameshift mutations caused GFP disruption, leading to fluorescence loss. Gene replacement at the LsURA3 locus was evaluated using donor constructs with homologous regions ranging from 50-3000 bp. In a Cas9-expressing wild-type background, precise gene replacement was dependent on homology arm length, increasing from 36% with 50-bp arms to 80% with 3000-bp arms. Notably, in a Cas9-expressing Δlslig4 strain with suppressed non-homologous end joining (NHEJ), precise gene replacement was achieved with 100% accuracy using 50-bp homology arms under CRISPR/Cas9-dependent conditions. Together, these results demonstrate that a Pol III-independent CRISPR/Cas9 system combined with NHEJ suppression enables precise genome editing in L. starkeyi, providing a foundation for functional genomics and metabolic engineering.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-04-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147766849","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Optimisation and scale up of L-malic acid production from methanol by the methylotrophic yeast Ogataea polymorpha. 多态甲基营养酵母甲醇生产l -苹果酸的优化及规模化生产。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-04-05 DOI: 10.1093/femsyr/foag017

Alessandra Mauri, Miroslava Yovcheva, Philipp Demling, Eva Miriam Buhl, Hendrik Ballerstedt, Lars M Blank

{"title":"Optimisation and scale up of L-malic acid production from methanol by the methylotrophic yeast Ogataea polymorpha.","authors":"Alessandra Mauri, Miroslava Yovcheva, Philipp Demling, Eva Miriam Buhl, Hendrik Ballerstedt, Lars M Blank","doi":"10.1093/femsyr/foag017","DOIUrl":"https://doi.org/10.1093/femsyr/foag017","url":null,"abstract":"Industrial production of malic acid remains dependent on fossil resources or, when performed microbiologically, on sugar-based feedstocks. Both routes come with caveats, generating emissions and competing with food supply. The use of CO₂-derived one-carbon substrates offers a promising alternative to circumvent these constraints. In this study, the malic acid production process from methanol in metabolically engineered Ogataea polymorpha NYCY495 LEU-ΔSTE12 Pyc Mdh MAE1 strain was optimised and scaled up. A two-phase cultivation strategy, using glycerol for biomass formation and methanol for product synthesis, was established in shake flasks and subsequently transferred to a 1 L bioreactor. Process optimisation through automated feeding strategies was evaluated. DO-based feeding was the most effective approach, using a combination of methanol and glycerol, achieving a final molar yield of 0.1 molMA molMeOH ⁻¹ and a maximum productivity of 0.5 g L⁻¹ h⁻¹. This successful fermentation strategy was validated using green methanol, showcasing the feasibility of \"closing the loop\" as envisioned in the bioeconomy. Finally, a comparative study of the effect of glycerol, methanol, and their mixture on O. polymorpha NYCY495 LEU-ΔSTE12 Pyc Mdh MAE1 methanol metabolism, peroxisome biogenesis, and cellular redox balance is presented, supporting the positive cumulative effect of both on gene transcription.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-04-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147812832","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

High-throughput yeast engineering in biofoundries: towards autonomous and scalable synthetic biology. 生物铸造厂的高通量酵母工程：走向自主和可扩展的合成生物学。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foag003

Juan P O Martinez, Robert E Speight

{"title":"High-throughput yeast engineering in biofoundries: towards autonomous and scalable synthetic biology.","authors":"Juan P O Martinez, Robert E Speight","doi":"10.1093/femsyr/foag003","DOIUrl":"10.1093/femsyr/foag003","url":null,"abstract":"High-throughput yeast engineering is being transformed by biofoundries that integrate automation, artificial intelligence (AI), and standardized workflows. This review examines how these facilities accelerate strain development through the Design-Build-Test-Learn (DBTL) cycle, with advances in genome editing, phenotypic screening, and predictive modelling. It highlights Australia's involvement through the Australian Genome Foundry, Idea-BIO, and the CSIRO Biofoundiry and explores global efforts to overcome reproducibility and standardization challenges. Despite progress, key barriers remain, including protocol variability and integration of AI tools. We also highlight the opportunity for a shift toward autonomous, self-optimizing 'self-driving labs' that transition from DBTL to Design-Build-Deploy cycles. The future of yeast engineering depends not only on technological innovation, but also on the harmonization of international standards, data governance, and ethical safeguards. If fully realized, the convergence of robotics, AI, and synthetic biology will redefine yeast engineering, leading to step changes in strain performance for a variety of important products, thus enabling economic and sustainable biomanufacturing at scale.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12927428/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146051091","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

From discovery to application: twenty years of Meyerozyma caribbica. 从发现到应用：加勒比密生菌的二十年。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foag010

Elisângela de Souza Miranda Muynarsk, Angela Alves Dos Santos, Cristina Link Rüntzel, Brigitte Sthepani Orozco Colonia, Rafaela de Oliveira Penha, Bárbara Braga Vieira Marques, Danilo Grunig Humberto da Silva, Sergio Luiz Alves

{"title":"From discovery to application: twenty years of Meyerozyma caribbica.","authors":"Elisângela de Souza Miranda Muynarsk, Angela Alves Dos Santos, Cristina Link Rüntzel, Brigitte Sthepani Orozco Colonia, Rafaela de Oliveira Penha, Bárbara Braga Vieira Marques, Danilo Grunig Humberto da Silva, Sergio Luiz Alves","doi":"10.1093/femsyr/foag010","DOIUrl":"10.1093/femsyr/foag010","url":null,"abstract":"Over the past two decades, Meyerozyma caribbica has been identified as a metabolically versatile and ecologically adaptable yeast with significant relevance to biotechnology, agriculture, environmental remediation, and food applications. Since its formal description in 2005, this species has demonstrated the ability to grow on a wide range of substrates and under various stress conditions, facilitating the production of valuable bioproducts such as ethanol, xylitol, arabitol, and volatile aroma compounds. Multiple strains efficiently ferment lignocellulosic hydrolysates, tolerate inhibitory compounds, and remain active at elevated temperatures, which supports their application in integrated biorefineries. In addition to its fermentative capabilities, M. caribbica serves as an effective biocontrol agent through the production of antifungal metabolites, hydrolytic enzymes, mycoparasitism, nutrient competition, and the induction of plant defense responses. Environmental functions include the degradation of dyes, hydrocarbons, and organochlorine pesticides, as well as metal biosorption and the mitigation of oxidative stress in plants. There is also increasing interest in its potential as a probiotic and as a starter culture that can modulate sensory attributes in fermented foods. This review synthesizes 20 years of research on M. caribbica, focusing on its roles in bioproduct production, plant disease management, bioremediation, and probiotic or food-related applications.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12923170/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146164516","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Yeasts associated with microalgal cultures in marine environments: ecological roles and biotechnological potential. 海洋环境中与微藻培养相关的酵母：生态作用和生物技术潜力。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foag002

Isabel Sá-Correia, Mónica A Fernandes, Madalena Matos

{"title":"Yeasts associated with microalgal cultures in marine environments: ecological roles and biotechnological potential.","authors":"Isabel Sá-Correia, Mónica A Fernandes, Madalena Matos","doi":"10.1093/femsyr/foag002","DOIUrl":"10.1093/femsyr/foag002","url":null,"abstract":"The large-scale cultivation of microalgae for aquaculture feed, biofuels, and high value bioproducts is often limited by microbial contamination. While bacteria have long been recognized as major algal symbionts, yeasts, though typically less abundant, are emerging as functionally significant members of the phycosphere. Yeast physiological versatility, stress tolerance, and production of bioactive metabolites enable them to exert disproportionate ecological and biotechnological influence relative to their abundance. Yeasts contribute to algal systems through metabolic complementarity, enhancing nutrient cycling, stress resilience, and culture stability. Several yeast species secrete auxins such as indole-3-acetic acid, stimulating algal cell division and photosynthetic efficiency. Biosurfactants that suppress microbial contaminants, prevent biofilm formation, and stabilize algal cultures are also produced by several yeast species. In co-cultivation systems, yeast-microalgae interactions enhance biomass, lipids, and pigment yields whilst enabling efficient use of waste substrates. Moreover, yeasts associated with microalgae are valuable producers of compounds of biotechnological relevance such as lipids, biosurfactants, pigments, enzymes, and other proteins. This review synthesizes current knowledge on yeast-microalgae associations, emphasizing their ecological relevance, functional versatility, and underexplored potential in sustainable bioprocesses and circular bioeconomy. Highlighting yeasts within algal microbiomes provides new insight into cross-kingdom cooperation and tools for developing resilient, high-performance cultivation systems.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12878336/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146009544","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mechanism of the synergistic action of oxythiamine and ketoconazole against the yeast Malassezia pachydermatis. 氧硫胺素与酮康唑协同防治厚皮马拉色菌的作用机制。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foaf059

Magdalena Czerniecka, Adam Więcko, Adam Tylicki

引用次数: 0

Prey preference and cell wall-mediated resistance shape predation efficiency in Saccharomycopsis schoenii. 舍氏酵母菌的食饵偏好和细胞壁介导的抗性决定了其捕食效率。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foaf075

Jan Ryno Smith, Rene K Naidoo-Blassoples, Florian F Bauer

{"title":"Prey preference and cell wall-mediated resistance shape predation efficiency in Saccharomycopsis schoenii.","authors":"Jan Ryno Smith, Rene K Naidoo-Blassoples, Florian F Bauer","doi":"10.1093/femsyr/foaf075","DOIUrl":"10.1093/femsyr/foaf075","url":null,"abstract":"Microbial antagonism, including predation and competition, shapes microbial community diversity and dynamics. Saccharomycopsis schoenii, a unicellular predatory yeast, serves as a distinct model for bona fide fungal predation, characterized by penetration pegs that enable predation. This study examined prey preferences of S. schoenii within wine-associated yeast consortia and assessed the role of prey adhesion and cell wall features in modulating predation efficiency. Predation assays revealed species-specific dynamics, with Saccharomyces cerevisiae showing pronounced susceptibility and Torulaspora delbrueckii displaying resistance indicative of density-dependent prey switching. Expression of prey Flo-adhesins in S. cerevisiae did not affect predation outcomes, highlighting that prey adhesion phenotypes are not primary determinants of susceptibility. In contrast, S. cerevisiae VIN13-related mutant strains with increased cell wall chitin showed variable resistance phenotypes, suggesting that chitin contributes to resistance, but that broader cell wall remodelling and structural features are relevant factors independent of chitin levels. While these findings provide a mechanistic framework for understanding predator-prey interactions and prey resistance, the ecological and evolutionary significance of these interactions remains uncertain due to the rarity of Saccharomycopsis species in natural communities. Ultimately, these results emphasize the importance of integrating laboratory and ecological perspectives to fully comprehend the evolutionary implications of fungal predatory behaviour.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12857228/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145888787","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The macroevolution of filamentation morphology across the Saccharomycotina yeast subphylum. 酵母菌亚门纤维形态的宏观进化。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foag001

Christina M Chavez, Marie-Claire Harrison, Thodoris Danis, Marizeth Groenewald, Chris Todd Hittinger, Antonis Rokas

{"title":"The macroevolution of filamentation morphology across the Saccharomycotina yeast subphylum.","authors":"Christina M Chavez, Marie-Claire Harrison, Thodoris Danis, Marizeth Groenewald, Chris Todd Hittinger, Antonis Rokas","doi":"10.1093/femsyr/foag001","DOIUrl":"10.1093/femsyr/foag001","url":null,"abstract":"Saccharomycotina is a subphylum of ascomycete fungi with diverse asexual growth morphologies. Filamentous growth can comprise linear and branched budding cells that do not undergo cell separation, termed pseudohyphae, or tubular filaments with septa that perforate allowing movement of organelles, termed true hyphae. We integrated phenotypic, genomic, metabolic, and environmental data on isolation sources from 1051 species to examine the variation and evolutionary history of filamentation across Saccharomycotina and determine whether these data could predict filamentation types. We found that 63.37% of strains can form filaments; 6.56% true hyphae, 42.40% pseudohyphae, and 14.39% both true hyphae and pseudohyphae. The distributions of species that can produce true hyphae or filament were more strongly correlated with the yeast phylogeny than the distribution of species with pseudohyphae. Ancestral state reconstruction suggested that true hyphal and pseudohyphal morphologies evolved several times, that most yeast ancestors likely produced pseudohyphae or lacked filaments, and that the Saccharomycotina last common ancestor likely produced pseudohyphae but not true hyphae. Machine learning models trained on genomic and metabolic features predicted filament morphologies with ∼70% accuracy. Connecting the evolution of morphologies to their genomic, physiological, and ecological characteristics will enrich our understanding of how the diversity of lifestyles evolved in Saccharomycotina.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12878333/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145997699","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

MFS-transporter Flr1 is a major drug-efflux transporter in Saccharomyces cerevisiae ascospores. mfs转运蛋白Flr1是酿酒酵母子囊孢子中主要的药物外排转运蛋白。

IF 2.7 4区生物学

FEMS yeast research Pub Date : 2026-01-05 DOI: 10.1093/femsyr/foag011

Arina M Adamovich, Dmitry A Knorre, Kseniia V Galkina

{"title":"MFS-transporter Flr1 is a major drug-efflux transporter in Saccharomyces cerevisiae ascospores.","authors":"Arina M Adamovich, Dmitry A Knorre, Kseniia V Galkina","doi":"10.1093/femsyr/foag011","DOIUrl":"10.1093/femsyr/foag011","url":null,"abstract":"In fungi, spores represent a highly resilient stage of the life cycle, characterized by low metabolic activity that confers resistance to xenobiotics. However, as soon as spores start germination, they become vulnerable to low-molecular-weight toxins. We hypothesized that during sporulation fungi presynthesize spore-specific drug-efflux transporters to mitigate this vulnerability. To test this hypothesis, we compared the repertoire of ATP-binding cassette- and major facilitator superfamily (MFS)- transporters involved in multidrug resistance (MDR) between spores and proliferating cells of yeast Saccharomyces cerevisiae. Using a set of strains in which MDR-transporters are tagged with a GFP, we showed that in spores the major efflux pump is MFS transporter Flr1, whereas in proliferating vegetative cells it is Pdr5p. In the presence of xenobiotics, deletion of the FLR1 gene reduced the growth rate of microcolonies originating from spores but did not affect growth from vegetative cells. We propose that Pdr5p's basal ATPase activity may be disadvantageous for spores, as it could be detrimental during prolonged dormancy.","PeriodicalId":12290,"journal":{"name":"FEMS yeast research","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12974944/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"146212793","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0