Yeast最新文献 - Book学术

A Global Synthesis of Yeast in Microbiomes. 酵母在微生物组中的全局合成。

IF 2.2 4区生物学

Yeast Pub Date : 2026-08-08 DOI: 10.1002/yea.70039

Chieh-Ping Lin, Alberto Geroldi, Nelly Selem, Gianni Liti, Isheng Jason Tsai

{"title":"A Global Synthesis of Yeast in Microbiomes.","authors":"Chieh-Ping Lin, Alberto Geroldi, Nelly Selem, Gianni Liti, Isheng Jason Tsai","doi":"10.1002/yea.70039","DOIUrl":"https://doi.org/10.1002/yea.70039","url":null,"abstract":"Yeasts are widespread members of microbial communities across terrestrial, aquatic, and host-associated environments, yet they remain underrepresented in microbiome studies due to low abundance and methodological biases. By combining a literature review with a meta-analysis of ~44,000 fungal metabarcoding samples from the GlobalFungi database, we show that yeasts occur in over 90% of samples, confirming their global ubiquity. Basidiomycetous lineages-especially Agaricomycotina-were most frequently detected, whereas Saccharomycotina showed stronger signals in anthropogenic, aquatic, host-associated, and food-related settings depending on the dataset. Although yeasts typically comprised only ~0.1% of fungal reads, their distributions were structured rather than uniform and reflected distinct habitat associations across environments. In ~3% of samples, yeasts exceeded 25% of reads, with genera such as Aureobasidium, Hanseniaspora, and Saccharomyces episodically dominating nutrient-rich or human-influenced environments. Cosmopolitan genera including Vishniacozyma, Solicoccozyma and Rhodotorula were broadly distributed but remain underreported in microbiome surveys. Shotgun metagenomic data further confirmed yeast presence across diverse microbiomes, with yeast-derived reads being a small fraction of total metagenomic sequences, reflecting the 'curse of low abundance'. Despite their rarity, yeasts are likely to contribute to nutrient cycling, plant growth, and host interactions. We recommend inclusive multi-kingdom approaches-improved primer design, optimised fungal DNA recovery, long-read sequencing, and quantitative tools-to better integrate yeasts into microbiome research.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":""},"PeriodicalIF":2.2,"publicationDate":"2026-08-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148698049","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

Identification of Yeast Protein Sequences With Similarity to the ESCRT-III Protein Snf7. 与ESCRT-III蛋白Snf7相似的酵母蛋白序列鉴定

IF 2.2 4区生物学

Yeast Pub Date : 2026-08-07 DOI: 10.1002/yea.70040

Thomas Brune, Ralf Kölling

{"title":"Identification of Yeast Protein Sequences With Similarity to the ESCRT-III Protein Snf7.","authors":"Thomas Brune, Ralf Kölling","doi":"10.1002/yea.70040","DOIUrl":"https://doi.org/10.1002/yea.70040","url":null,"abstract":"Endosomal sorting complex required for transport (ESCRT-III) is a membrane remodeling complex involved in a large number of cellular processes. It appears to perform an essential function in eukaryotes, since to date no eukaryotic organism completely devoid of ESCRT-III has been found. Yet, yeast cells with a deletion of all eight known ESCRT-III genes are viable. We therefore searched for new, previously undiscovered ESCRT-III like proteins in yeast. HHPred uncovered several proteins with similarity to Snf7. The similarity was mostly restricted to the α1-α2 hairpin region of Snf7. A conserved pattern of amino acids was detected in this region. One of the proteins with an ESCRT-III like sequence pattern, which strikingly resembled Snf7 in its secondary structure, was studied more closely. We named the protein encoded by ORF YPL199c Etl1 (ESCRT-three-like 1). Etl1 is palmitoylated and localizes to the plasma membrane. In contrast to other palmitoylated proteins, Etl1 does not appear to be associated with lipid rafts, since it could be easily extracted from the membrane by Triton X-100 treatment. When ETL1 was deleted in the octuple ESCRT-III deletion background, the yeast cells were still viable. So far, despite a number of experiments, a bona fide ESCRT-III function could not be demonstrated for Etl1.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":""},"PeriodicalIF":2.2,"publicationDate":"2026-08-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148685922","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

Guidelines for Studying Mutagenesis in Quiescent Schizosaccharomyces pombe. 静止裂糖菌突变研究指南。

IF 2.2 4区生物学

Yeast Pub Date : 2026-08-05 DOI: 10.1002/yea.70038

Claire Denis, Constance Kowal, Ying Liu, Benoit Arcangioli, Serge Gangloff, Stefania Francesconi

引用次数: 0

Transposons as Tools for Future Genome Engineering in Yeasts and Filamentous Fungi. 转座子作为酵母和丝状真菌未来基因组工程的工具。

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-13 DOI: 10.1002/yea.70036

Bingyin Peng, Masahiro Tominaga, Chengqiang Wang, Robert E Speight, Jun Ishii

引用次数: 0

Research on the Mechanism of Mating-Type-Specific Gene Expression by Transcription Factor Mata2 in Miso and Soy Sauce Yeast. 转录因子Mata2在味噌和酱油酵母中表达交配型特异性基因的机制研究

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-11 DOI: 10.1002/yea.70037

Tomoo Ogata, Kotori Koide, Shunpei Hoshino, Ryotarou Hori, Momoka Fukuda, Katsuaki Kuroki

{"title":"Research on the Mechanism of Mating-Type-Specific Gene Expression by Transcription Factor Mata2 in Miso and Soy Sauce Yeast.","authors":"Tomoo Ogata, Kotori Koide, Shunpei Hoshino, Ryotarou Hori, Momoka Fukuda, Katsuaki Kuroki","doi":"10.1002/yea.70037","DOIUrl":"https://doi.org/10.1002/yea.70037","url":null,"abstract":"The mating-type locus of the miso and soy sauce yeast Zygosaccharomyces sp. contains a gene encoding the transcription factor Mata2 (hereafter ZygoMata2), which has a DNA-binding domain containing a high mobility group (HMG)-box not found in the baker's yeast Saccharomyces cerevisiae. To investigate the role of ZygoMata2 in mating-type a expression, we constructed mutant strains of ZygoMATa2 using CRISPR-Cas9. The resulting mutants showed reduced expression of ZygoSTE6, which is specific to mating-type a, and did not mate, suggesting that ZygoMata2 regulates the expression of mating-type a in Zygosaccharomyces sp. Expression of ZygoSTE6 was observed when the HMG-box of ZygoMata2 was exchanged with that of Mat1-Mc, which regulates mating-type expression in Schizosaccharomyces pombe, indicating that ZygoMata2 recognizes its target DNA sequence via the HMG-box. Substitution of the predicted upstream activation sequence (UAS) in ZygoSTE6 with the UAS of a mating-type a-specific gene from another yeast species led to mating-type a-specific gene expression in transformed Zygosaccharomyces sp. yeast, indicating that ZygoMata2 can recognize the UAS of mating-type a-specific genes of other species. We speculated that the flexibility in the binding sequences of ZygoMata2 is due to synergistic or cooperative binding with the DNA-binding protein ZygoMcm1. This hypothesis was supported by replacement of the UAS of ZygoSTE6 with the complete palindrome sequence, P(PAL), and by the results of protein and DNA structure prediction using AlphaFold. Collectively, our study indicates that ZygoMata2 regulates mating-type a-specific gene expression via its HMG-box, which shows flexible recognition of the binding sequence of other HMG-box transcription factors.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":""},"PeriodicalIF":2.2,"publicationDate":"2026-07-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148424792","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

Yeast at Forty. 酵母在四十。

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-01 Epub Date: 2026-05-20 DOI: 10.1002/yea.70027

Stephen G Oliver

引用次数: 0

One Yeast, Sixteen Synthetic Chromosomes, Infinite Possibilities. 一个酵母菌，16条合成染色体，无限可能。

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-01 Epub Date: 2026-05-19 DOI: 10.1002/yea.70026

Edward Archer, Roy S K Walker, Paige E Erpf, Ian T Paulsen, Isak S Pretorius

{"title":"One Yeast, Sixteen Synthetic Chromosomes, Infinite Possibilities.","authors":"Edward Archer, Roy S K Walker, Paige E Erpf, Ian T Paulsen, Isak S Pretorius","doi":"10.1002/yea.70026","DOIUrl":"10.1002/yea.70026","url":null,"abstract":"The evolution of the yeast, Saccharomyces cerevisiae, from a genetically tractable model organism to a chassis for genome-scale engineering represents one of the most influential trajectories in eukaryotic biology. The Synthetic Yeast Genome Project (Sc2.0) embodies the current height of this trajectory, having now delivered functional synthetic versions of all 16 native yeast chromosomes and bringing the construction of the first fully synthetic eukaryotic cell within reach. Beyond its technical achievements, Sc2.0 has reshaped how eukaryotic genomes are understood and explored through iterative design-build-test-learn (DBTL) cycles, and reframed the yeast genome as a dynamic, highly modifiable system rather than a static biological blueprint. Moreover, the progress on genome engineering pipelines and synthetic biology has laid the foundations for the de novo development of modular synthetic chromosomes (neochromosomes) that operate orthogonally to the native genome. These synthetic platforms provide dedicated, large-scale genomic landing pads for refactoring genetic networks, reallocating redundancy, and introducing large, multiplexed gene assemblies, thereby extending yeast engineering toward programmable and hyper-versatile biological systems. To commemorate the 40th anniversary of the journal Yeast, this minireview celebrates the exceptional power of yeast genetics, outlining key conceptual and technological advances emerging from the Sc2.0 endeavour and beyond. Finally, we examine the cross-cutting engineering insights and the future potential of neochromosomes for the next generation of synthetic yeasts.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"143-158"},"PeriodicalIF":2.2,"publicationDate":"2026-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13340996/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147975536","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

EL222-Based Optogenetic Gene Regulation in Methylotrophic Yeasts: Mechanisms, Applications, and Future Directions. 甲基营养酵母中基于el222的光遗传基因调控：机制、应用和未来方向

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-01 Epub Date: 2026-05-13 DOI: 10.1002/yea.70025

Riya Joon, Rhythm Phutela, Prashant Khare

{"title":"EL222-Based Optogenetic Gene Regulation in Methylotrophic Yeasts: Mechanisms, Applications, and Future Directions.","authors":"Riya Joon, Rhythm Phutela, Prashant Khare","doi":"10.1002/yea.70025","DOIUrl":"10.1002/yea.70025","url":null,"abstract":"Methylotrophic yeasts such as Pichia pastoris are widely used for heterologous protein production because they contain strong and tightly regulated promoters. However, the use of methanol as an inducer presents several practical challenges, including toxicity, flammability, high oxygen demand during fermentation, and increased production costs. To overcome these limitations, researchers have been working on redesigning the AOX1 regulatory system and developing alternative induction strategies that do not rely on methanol. One promising approach is optogenetics, which uses light to control gene expression in a non-invasive way. These systems rely on light-sensitive proteins such as phytochromes, cryptochromes, LOV-domain proteins, and UVR8, allowing gene activity to be regulated in a precise and reversible manner without adding chemical inducers to the culture medium. This review brings together key advances in yeast optogenetics, with a focus on the EL222 system, highlighting its implementation for light-controlled heterologous protein production in P. pastoris and its broad application in synthetic biology and metabolic engineering in Saccharomyces cerevisiae. The growing versatility and scalability of EL222-based circuits highlight their potential to reshape both fundamental research and industrial bioprocessing through safer, more controllable, and energy-efficient gene regulation strategies.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"130-142"},"PeriodicalIF":2.2,"publicationDate":"2026-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147933998","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

The Role of Mannose in Saccharomyces pastorianus Flocculation During Industrial Brewing Fermentations. 甘露糖在工业酿造发酵酵母絮凝中的作用。

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-01 Epub Date: 2026-05-14 DOI: 10.1002/yea.70024

Devanshu V Mehta, Mary T Serviss, Keith R Schneider, Renee Goodrich, Andrew J MacIntosh

{"title":"The Role of Mannose in Saccharomyces pastorianus Flocculation During Industrial Brewing Fermentations.","authors":"Devanshu V Mehta, Mary T Serviss, Keith R Schneider, Renee Goodrich, Andrew J MacIntosh","doi":"10.1002/yea.70024","DOIUrl":"10.1002/yea.70024","url":null,"abstract":"Yeast flocculation is a phenomenon in which yeast zymolectins bind to mannose on adjacent cells resulting in aggregation within fermentation media. Flocculation has been extensively studied and is often assumed to occur only after media sugars are depleted as these are thought to competitively bind to zymolectins. However, yeast within the brewing industry have often been observed flocculating prematurely or staying suspended after media sugars were depleted. In this study, the mechanism of yeast (Saccharomyces pastorianus) flocculation was further investigated, specifically, how flocculation ability, zymolectins, and mannose associated with yeast cells changed throughout fermentation. It was observed that yeast flocculation behavior changed throughout fermentation despite no changes in zymolectin concentrations (as measured using bound fluoroprobes) independent of media sugar concentration. However, a strong positive correlation was observed between yeast flocculation ability and mannose concentration which increased as the fermentation progressed. This implies that the changes observed in flocculation behavior during fermentation may be more dependent on cell mannose rather than media sugars or lectins. These results have implications for yeast immobilization and flocculation control schemes. This research enhances the current understanding of the yeast flocculation mechanism with applications in brewing, bioethanol production, pharmaceutical production, precision fermentation, and cell biomass industries.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"159-169"},"PeriodicalIF":2.2,"publicationDate":"2026-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147933977","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

rDNAmine: A New Tool for the Analysis of Long Repetitive Sequences. rnamine：长重复序列分析的新工具。

IF 2.2 4区生物学

Yeast Pub Date : 2026-07-01 Epub Date: 2026-05-26 DOI: 10.1002/yea.70023

Agnieszka Czarnocka-Cieciura, Natalia Gumińska

{"title":"rDNAmine: A New Tool for the Analysis of Long Repetitive Sequences.","authors":"Agnieszka Czarnocka-Cieciura, Natalia Gumińska","doi":"10.1002/yea.70023","DOIUrl":"10.1002/yea.70023","url":null,"abstract":"In this study, we introduce a novel approach for analysing long, repetitive genomic sequences. Our methods significantly advance research on rDNA polymorphism. First, we describe a technique for isolating high-molecular-weight DNA from individual chromosomes, enabling selective enrichment of sequencing libraries for extensive genomic regions of interest. Second, we present rDNAmine, a bioinformatic toolkit for capturing and examining large repetitive arrays in Oxford Nanopore sequencing data. This approach facilitates the study of polymorphisms within long repeats, bypassing traditional alignment-based methods and providing a more efficient and scalable solution for investigating repetitive regions. We demonstrate the effectiveness of our approach through the analysis of rDNA arrays in two yeast species, Saccharomyces cerevisiae and Candida albicans. In S. cerevisiae, rDNA arrays show limited polymorphism, while in C. albicans, we observe substantial variation in rDNA module size, with two distinct repeat populations within the array. These findings reveal species-specific differences in the structural organisation of rDNA loci, highlighting the diverse nature of tandem repeat architecture. The rDNAmine toolkit is broadly applicable to various organisms and repetitive genomic contexts, offering a versatile platform for studying repetitive sequences.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"170-183"},"PeriodicalIF":2.2,"publicationDate":"2026-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13340991/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148035938","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