IF 2.2 4区生物学

Yeast Pub Date : 2026-06-23 DOI: 10.1002/yea.70033

Alya N Hussain, Kevin T Fotso, Michael A McMurray

引用次数: 0

Enhanced Production of Recombinant Thermophilic Xylanase X11P in Ogataea polymorpha via In-Silico Signal Peptide Discovery and Fed-Batch Fermentation. 利用硅信号肽发现和补料分批发酵提高多形Ogataea重组耐热木聚糖酶X11P的产量。

IF 2.6 4区生物学

Yeast Pub Date : 2026-06-15 DOI: 10.1002/yea.70032

Kanokarn Kocharin, Chitwadee Phithakrotchanakoon, Somsak Likhitrattanapisal, Aekkachai Puseenam, Kitisak Sansatchanon, Jedsadakorn Ninrat, Wannaporn Sagasae, Paopit Siriarchawatana, Warasirin Sornlek, Supawadee Ingsriswang, Niran Roongsawang

{"title":"Enhanced Production of Recombinant Thermophilic Xylanase X11P in Ogataea polymorpha via In-Silico Signal Peptide Discovery and Fed-Batch Fermentation.","authors":"Kanokarn Kocharin, Chitwadee Phithakrotchanakoon, Somsak Likhitrattanapisal, Aekkachai Puseenam, Kitisak Sansatchanon, Jedsadakorn Ninrat, Wannaporn Sagasae, Paopit Siriarchawatana, Warasirin Sornlek, Supawadee Ingsriswang, Niran Roongsawang","doi":"10.1002/yea.70032","DOIUrl":"https://doi.org/10.1002/yea.70032","url":null,"abstract":"Efficient secretion of heterologous proteins is essential for advancing yeast-based bioprocesses, yet signal peptide (SP) optimization in the thermotolerant methylotrophic yeast Ogataea polymorpha remains limited. This study integrates in-silico SP discovery, experimental validation, and bioprocess engineering to enhance secretion of the thermophilic xylanase X11P under sucrose-inducible expression. Genome-wide screening of 5184 O. polymorpha proteins using SignalP, Phobius, DeepLoc, WoLF PSORT, and ProP identified 11 high-confidence SP candidates. Comparative analysis with Komagataella phaffii endogenous proteins guided selection of seven SPs for experimental evaluation. Among these, the novel O. polymorpha α-mating factor-like peptide FUN_005010 exhibited strong secretion-promoting activity, with its prepro-sequence yielding the highest extracellular xylanase levels and outperforming the classical Saccharomyces cerevisiae α-MF. To evaluate industrial applicability, sucrose-based fermentation strategies were systematically optimized in a 5-L bioreactor. Controlled sucrose feeding and balanced C/N ratios were found to be critical for maximizing maltase (MAL) promoter-driven expression. A stepwise increasing sucrose feed combined with induction at 30°C enabled X11P titers up to 770 U/mL, representing a 15-fold improvement over shake-flask cultures. This work demonstrates that the combination of SP evaluation and optimized sucrose-inducible fed-batch operation significantly enhances X11P production in O. polymorpha. The identified FUN_005010-prepro SP and the refined process framework provide valuable tools for developing O. polymorpha as a high-performance industrial expression platform.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-06-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148259828","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

Sugar Metabolisms Altered By Undissociated Forms of Organic Acids Based on the Emergence of [GAR⁺] Cells in Saccharomyces cerevisiae. 基于酿酒酵母[GAR+]细胞出现的未解离有机酸改变糖代谢

IF 2.6 4区生物学

Yeast Pub Date : 2026-06-08 DOI: 10.1002/yea.70031

Koichi Tanabe, Atsuhiko Nakata, Mizuki Hosotani, Jun Shima

引用次数: 0

Methods to Study Mitochondrial Metabolism and Homeostasis in Fission Yeast. 方法研究分裂酵母的线粒体代谢和体内平衡。

IF 2.6 4区生物学

Yeast Pub Date : 2026-06-08 DOI: 10.1002/yea.70030

Ferran Gómez-Armengol, Elena Hidalgo, Montserrat Vega

引用次数: 0

Genetic Tools in the Nakaseomyces clade for Evolutionary Comparisons of Signal Transduction Pathways. 用于信号转导途径进化比较的中孢菌进化工具。

IF 2.6 4区生物学

Yeast Pub Date : 2026-06-03 DOI: 10.1002/yea.70029

Maria Abraham, Christine L Iosue, Dennis D Wykoff

{"title":"Genetic Tools in the Nakaseomyces clade for Evolutionary Comparisons of Signal Transduction Pathways.","authors":"Maria Abraham, Christine L Iosue, Dennis D Wykoff","doi":"10.1002/yea.70029","DOIUrl":"https://doi.org/10.1002/yea.70029","url":null,"abstract":"The genus Nakaseomyces provides four species that are closely related but have different characteristics. For example, N. glabratus (formerly known as Candida glabrata) is a common human pathogen, whereas N. bracarensis and N. nivariensis have been isolated in clinical settings but are not common human pathogens. N. delphensis was isolated from fruit and there is no evidence it is pathogenic. Given the differences, we developed the clade as a molecular genetic system where we could introduce plasmids and assess transcriptional output from cloned promoters. We engineered a CRISPR/Cas9 plasmid that allows for rapid Gibson cloning of gRNAs, generated auxotrophic strains for amino acids and nucleotides, and introduced plasmids into each species. We used promoter-YFP plasmids to determine that while there are differences between the species, each species likely has intact thiamine and phosphate (THI and PHO) signal transduction pathways, and that gene expression in N. glabratus and N. bracarensis is more similar to one another than to the other two species. Finally, we determine that N. glabratus, N. bracarensis, and N. nivariensis persist in a murine macrophage for 24 h, whereas N. delphensis does not. This work describes new molecular tools for genetic manipulation in the Nakaseomyces clade and allows for evolutionary questions to be explored.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":""},"PeriodicalIF":2.6,"publicationDate":"2026-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148151730","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

Twenty-Five Years of the Environmental Stress Response and the Enduring Power of Yeast in Stress Biology. 25年的环境应激反应和酵母在应激生物学中的持久能力。

IF 2.6 4区生物学

Yeast Pub Date : 2026-05-21 DOI: 10.1002/yea.70028

Audrey P Gasch

引用次数: 0

CRISPR/Cas9 Genome Engineering in Non-Conventional Oleaginous Yeasts: Applications, Challenges, and Prospects. CRISPR/Cas9基因组工程在非常规产油酵母中的应用、挑战和前景

IF 2.2 4区生物学

Yeast Pub Date : 2026-05-01 Epub Date: 2026-03-19 DOI: 10.1002/yea.70015

Rodrigo Gonçalves Dias, Fernanda Pinheiro Moreira Freitas, Eduardo Luís Menezes de Almeida, Luciano Gomes Fietto, Agustin Zsögön, Wendel Batista da Silveira

{"title":"CRISPR/Cas9 Genome Engineering in Non-Conventional Oleaginous Yeasts: Applications, Challenges, and Prospects.","authors":"Rodrigo Gonçalves Dias, Fernanda Pinheiro Moreira Freitas, Eduardo Luís Menezes de Almeida, Luciano Gomes Fietto, Agustin Zsögön, Wendel Batista da Silveira","doi":"10.1002/yea.70015","DOIUrl":"10.1002/yea.70015","url":null,"abstract":"Given the biotechnological potential of yeast-derived oils for oleochemical production, genes encoding lipid metabolism enzymes are key targets for metabolic engineering. Genetic engineering tools such as Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)/Cas9, Transcription Activator-Like Effector Nucleases (TALENs), Zinc-Finger Nucleases (ZFNs), RNA interference (RNAi), and integrative plasmids can be used to modulate fatty acid biosynthesis and optimize lipid production. Among them, the CRISPR/Cas9 system, recognized for its simplicity and efficiency, has been deployed as a tool to create oleaginous yeast strains with high lipid productivity and features suitable for application in biorefineries. Species such as Cutaneotrichosporon oleaginosus, Rhodotorula toruloides, Candida spp., and Yarrowia lipolytica have already been engineered using CRISPR/Cas9 to enhance the production of fatty acids and their derivatives. However, designing and constructing an efficient CRISPR/Cas9 platform for oleaginous yeasts faces several hurdles, including low transformation efficiency, difficulties in expressing Cas9 and sgRNAs efficiently and consistently, the lack of well-characterized promoters, limited availability of PAM sequences, and poorly understood DNA repair mechanisms. Here, we address the application of the CRISPR/Cas9 system in oleaginous yeasts, laying out the challenges to developing efficient platforms and highlighting key trends in the field. We compare and discuss alternative CRISPR-Cas9 expression strategies to provide an overview of the current landscape and support the development of new approaches.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"77-88"},"PeriodicalIF":2.2,"publicationDate":"2026-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13159405/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147487535","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

Schizosaccharomyces Orthogroup (SOG) Resource: A Web Platform for Exploring Gene Conservation in Fission Yeasts. Schizosaccharomyces Orthogroup （SOG）资源：一个探索裂变酵母基因保护的网络平台。

IF 2.2 4区生物学

Yeast Pub Date : 2026-05-01 Epub Date: 2026-04-22 DOI: 10.1002/yea.70019

Guo-Song Jia, Fang Suo, Ambre Noly, Philippe Fort, Yue Liang, Wen Li, Wen-Cai Zhang, Heng-Le Li, Xiao-Min Du, Fan-Yi Zhang, Tong-Yang Du, Yu Hua, Feng-Yan Bai, Qi-Ming Wang, Michael Brysch-Herzberg, Dominique Helmlinger, Li-Lin Du

{"title":"Schizosaccharomyces Orthogroup (SOG) Resource: A Web Platform for Exploring Gene Conservation in Fission Yeasts.","authors":"Guo-Song Jia, Fang Suo, Ambre Noly, Philippe Fort, Yue Liang, Wen Li, Wen-Cai Zhang, Heng-Le Li, Xiao-Min Du, Fan-Yi Zhang, Tong-Yang Du, Yu Hua, Feng-Yan Bai, Qi-Ming Wang, Michael Brysch-Herzberg, Dominique Helmlinger, Li-Lin Du","doi":"10.1002/yea.70019","DOIUrl":"10.1002/yea.70019","url":null,"abstract":"The fission yeast Schizosaccharomyces pombe is a prominent model organism widely used to investigate fundamental cellular mechanisms. In addition to S. pombe, the genus Schizosaccharomyces includes six other species-S. octosporus, S. japonicus, S. cryophilus, S. osmophilus, S. lindneri, and S. versatilis. These fission yeast species share a common ancestor from which the genus diversified over more than 200 million years. This extensive evolutionary divergence provides opportunities for comparative genomics. Here, we present the Schizosaccharomyces orthogroup (SOG) resource, a web platform developed from our high-quality genome assemblies, gene annotations, and orthology assignments. Most fission yeast genes are assigned to one of over 5,000 orthogroups. The platform enables users to visualize orthogroup sequence alignments and phylogenetic trees, retrieve coding and flanking sequences, and explore the conservation of local synteny. This resource will benefit researchers focusing on individual genes as well as those investigating gene evolution at broader scales. It is freely accessible at https://www.sogweb.org.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"101-111"},"PeriodicalIF":2.2,"publicationDate":"2026-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147783114","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

A New Set of Optogenetic Switches in Yeast Based on the BcWCL1 Photoreceptor. 一组基于BcWCL1光感受器的酵母光遗传开关。

IF 2.2 4区生物学

Yeast Pub Date : 2026-05-01 Epub Date: 2026-04-29 DOI: 10.1002/yea.70021

Matías Guerrero, Josefa Oyarzún, Diego Ruiz, Claudio Martínez, Eduardo I Kessi-Pérez, Francisco Salinas

{"title":"A New Set of Optogenetic Switches in Yeast Based on the BcWCL1 Photoreceptor.","authors":"Matías Guerrero, Josefa Oyarzún, Diego Ruiz, Claudio Martínez, Eduardo I Kessi-Pérez, Francisco Salinas","doi":"10.1002/yea.70021","DOIUrl":"10.1002/yea.70021","url":null,"abstract":"Optogenetic switches are molecular systems enabling light-controlled gene expression. These systems are based on the reconstitution of chimeric Transcription Factors (TFs) including a DNA-binding Domain (DBD), a photoreceptor domain, and an Activation Domain (AD). Thus, depending on the light-mediated homodimerization or heteromerization of the chimeric TF, the optogenetic switches can be classified as single-component or two-component systems, respectively. In the budding yeast Saccharomyces cerevisiae, optogenetic switches have shown multiple applications in metabolic engineering and biotechnology. Here, we expand the repertory of optogenetic switches available in yeast, developing a collection of plasmids and yeast strains carrying single-component or two-component optogenetic switches based on the BcWCL1 protein, a blue-light photoreceptor from Botrytis cinerea that contains a LOV (Light Oxygen Voltage) domain. By dissecting the N-terminal, C-terminal, and both protein regions simultaneously, we developed 18 plasmids encoding the BcWCL1 versions fused to the Gal4-DBD and Gal4-AD. Assembled plasmids were combined and transformed into yeast to generate single-component and two-component optogenetic switches, whose blue-light response was measured as transcriptional activity of the luciferase reporter. In general, we observed that the two-component configuration increased the luciferase expression in response to blue-light compared to single-component switches. Importantly, BcWCL1 versions with deletions in the C-terminal region showed the highest luciferase expression upon blue-light stimulation with the lowest background in the dark condition, suggesting that the C-terminal region modulates the blue-light response of this protein. Altogether, we generated new single-component and two-component optogenetic switches, each of them achieving different levels of light-activated luciferase expression, enabling their potential applications in yeast biotechnology.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"112-123"},"PeriodicalIF":2.2,"publicationDate":"2026-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147783096","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

Glucose Restriction Extends Chronological Lifespan of Budding Yeast by Avoiding Commonly Used Auxotrophic Marker Nutrient Starvation. 葡萄糖限制通过避免常用的营养不良标记物营养饥饿延长出芽酵母的时间顺序寿命。

IF 2.2 4区生物学

Yeast Pub Date : 2026-05-01 Epub Date: 2026-04-15 DOI: 10.1002/yea.70016

Yukinori Ozaki, Taku Ozaki, Qiu-Mei Zhang-Akiyama

{"title":"Glucose Restriction Extends Chronological Lifespan of Budding Yeast by Avoiding Commonly Used Auxotrophic Marker Nutrient Starvation.","authors":"Yukinori Ozaki, Taku Ozaki, Qiu-Mei Zhang-Akiyama","doi":"10.1002/yea.70016","DOIUrl":"10.1002/yea.70016","url":null,"abstract":"Dietary restriction (DR) is a robust lifespan-extending intervention across species. While budding yeast is a fundamental model for DR, results from glucose restriction (GR) often show inconsistencies. This may stem from auxotrophic markers in engineered strains, which can induce abnormal cellular states under starvation. We hypothesized that GR extends chronological lifespan (CLS) primarily by avoiding auxotrophic starvation, thereby allowing cells to better adapt to nutrient depletion. Using non-dividing survival assays for precise nutritional control, we observed that yeast survive significantly longer under carbon starvation than under auxotrophic starvation. The extent of CLS extension was diminished when auxotrophic starvation was absent. Yeast cells under auxotrophic starvation showed decreased resistance to H2O2 and increased mutation rate-phenotypes that suggest a failure to enter a robust, quiescent-like state. These findings suggest that auxotrophic starvation may bias not only CLS studies but also broader yeast studies. By reconsidering previous studies with attention to auxotrophic starvation, more meaningful conclusions could emerge. Since auxotrophic nutrients in yeast are analogous to essential amino acids in higher organisms, our findings have broader implications for understanding DR in various species.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"89-100"},"PeriodicalIF":2.2,"publicationDate":"2026-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147692704","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

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