IF 2.2 4区生物学

Yeast Pub Date : 2023-11-01 Epub Date: 2023-10-11 DOI: 10.1002/yea.3901

Hong-Tao Yu, Yu-Jie Shang, Hai-Yan Zhu, Pei-Jie Han, Qi-Ming Wang, Ana Raquel O Santos, Katharina O Barros, Gisele F L Souza, Flávia B M Alvarenga, Maxwel A Abegg, Carlos A Rosa, Feng-Yan Bai

{"title":"Yueomyces silvicola sp. nov., a novel ascomycetous yeast species unable to utilize ammonium, glutamate, and glutamine as sole nitrogen sources.","authors":"Hong-Tao Yu, Yu-Jie Shang, Hai-Yan Zhu, Pei-Jie Han, Qi-Ming Wang, Ana Raquel O Santos, Katharina O Barros, Gisele F L Souza, Flávia B M Alvarenga, Maxwel A Abegg, Carlos A Rosa, Feng-Yan Bai","doi":"10.1002/yea.3901","DOIUrl":"10.1002/yea.3901","url":null,"abstract":"Five yeast strains isolated from tree bark and rotten wood collected in central and southwestern China, together with four Brazilian strains (three from soil and rotting wood collected in an Amazonian rainforest biome and one from Bromeliad collected in Alagoas state) and one Costa Rican strain isolated from a flower beetle, represent a new species closely related with Yueomyces sinensis in Saccharomycetaceae, as revealed by the 26S ribosomal RNA gene D1/D2 domain and the internal transcribed spacer region sequence analysis. The name Yueomyces silvicola sp. nov. is proposed for this new species with the holotype China General Microbiological Culture Collection Center 2.6469 (= Japan Collection of Microorganisms 34885). The new species exhibits a whole-genome average nucleotide identity value of 77.8% with Y. sinensis. The two Yueomyces species shared unique physiological characteristics of being unable to utilize ammonium and the majority of the amino acids, including glutamate and glutamine, as sole nitrogen sources. Among the 20 amino acids tested, only leucine and tyrosine can be utilized by the Yueomyces species. Genome sequence comparison showed that GAT1, which encodes a GATA family protein participating in transcriptional activation of nitrogen-catabolic genes in Saccharomyces cerevisiae, is absent in the Yueomyces species. However, the failure of the Yueomyces species to utilize ammonium, glutamate, and glutamine, which are generally preferred nitrogen sources for microorganisms, implies that more complicated alterations in the central nitrogen metabolism pathway might occur in the genus Yueomyces.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"540-549"},"PeriodicalIF":2.2,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41214477","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

Unilateral ends-out gene targeting increases mistargeting through supporting extensive single-strand assimilation. 单向终止基因靶向通过支持广泛的单链同化增加了错误靶向。

IF 2.2 4区生物学

Yeast Pub Date : 2023-11-01 Epub Date: 2023-10-08 DOI: 10.1002/yea.3899

Petar Tomev Mitrikeski

{"title":"Unilateral ends-out gene targeting increases mistargeting through supporting extensive single-strand assimilation.","authors":"Petar Tomev Mitrikeski","doi":"10.1002/yea.3899","DOIUrl":"10.1002/yea.3899","url":null,"abstract":"Ends-out gene targeting enables the swapping of endogenous alleles with exogenous ones through homologous recombination which bears great implications both fundamental and applicable. To address the recombination mechanism(s) behind it, an experimental system was designed to distinguish between a possible (but rarely active) unilateral and the expected bilateral targeting in the yeast Saccharomyces cerevisiae in which the proportions of the two alternative genetic outcomes are conceived to mirror the probabilities of the two scenarios. The quantitative analysis showed that the bilateral targeting was expectedly predominant. However, an analogous comparative analysis on a different experimental set suggested a prevalence of unilateral targeting unveiling an uncertainty whether the extensively resected targeting modules only mimic unilateral invasion. Based on this, a comprehensive qualitative analysis was conducted revealing a single basic ends-out gene targeting mechanism composed of two intertwined pathways differing in the way how the homologous invasion is initiated and/or the production of the intermediates is conducted. This study suggests that bilateral targeting lowers mistargeting plausibly by limiting strand assimilation, unlike unilateral targeting which may initiate extensive strand assimilation producing intermediates capable of supporting multiple genetic outcomes which leads to mistargeting. Some of these outcomes can also be produced by mimicking unilateral invasion.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"565-577"},"PeriodicalIF":2.2,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41116741","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

Efficient PCR-based gene targeting in isolates of the nonconventional yeast Debaryomyces hansenii. 基于PCR的高效基因靶向非常规酵母汉氏双核菌分离株。

IF 2.2 4区生物学

Yeast Pub Date : 2023-11-01 Epub Date: 2023-10-23 DOI: 10.1002/yea.3902

Sondos Alhajouj, Selva Turkolmez, Tarad Abalkhail, Zeena Hadi Obaid Alwan, Daniel James Gilmour, Phil J Mitchell, Ewald H Hettema

引用次数: 0

Yeasts from tropical forests: Biodiversity, ecological interactions, and as sources of bioinnovation. 热带森林的酵母：生物多样性，生态相互作用，以及作为生物创新的来源。

IF 2.2 4区生物学

Yeast Pub Date : 2023-11-01 Epub Date: 2023-11-03 DOI: 10.1002/yea.3903

Carlos A Rosa, Marc-André Lachance, Savitree Limtong, Ana R O Santos, Melissa F Landell, Andreas K Gombert, Paula B Morais, José P Sampaio, Carla Gonçalves, Paula Gonçalves, Aristóteles Góes-Neto, Rosângela Santa-Brígida, Marlúcia B Martins, Daniel H Janzen, Winnie Hallwachs

{"title":"Yeasts from tropical forests: Biodiversity, ecological interactions, and as sources of bioinnovation.","authors":"Carlos A Rosa, Marc-André Lachance, Savitree Limtong, Ana R O Santos, Melissa F Landell, Andreas K Gombert, Paula B Morais, José P Sampaio, Carla Gonçalves, Paula Gonçalves, Aristóteles Góes-Neto, Rosângela Santa-Brígida, Marlúcia B Martins, Daniel H Janzen, Winnie Hallwachs","doi":"10.1002/yea.3903","DOIUrl":"10.1002/yea.3903","url":null,"abstract":"Tropical rainforests and related biomes are found in Asia, Australia, Africa, Central and South America, Mexico, and many Pacific Islands. These biomes encompass less than 20% of Earth's terrestrial area, may contain about 50% of the planet's biodiversity, and are endangered regions vulnerable to deforestation. Tropical rainforests have a great diversity of substrates that can be colonized by yeasts. These unicellular fungi contribute to the recycling of organic matter, may serve as a food source for other organisms, or have ecological interactions that benefit or harm plants, animals, and other fungi. In this review, we summarize the most important studies of yeast biodiversity carried out in these biomes, as well as new data, and discuss the ecology of yeast genera frequently isolated from tropical forests and the potential of these microorganisms as a source of bioinnovation. We show that tropical forest biomes represent a tremendous source of new yeast species. Although many studies, most using culture-dependent methods, have already been carried out in Central America, South America, and Asia, the tropical forest biomes of Africa and Australasia remain an underexplored source of novel yeasts. We hope that this review will encourage new researchers to study yeasts in unexplored tropical forest habitats.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"511-539"},"PeriodicalIF":2.2,"publicationDate":"2023-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71427440","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

Visioning synthetic futures for yeast research within the context of current global techno-political trends. 在当前全球技术政治趋势的背景下，展望酵母研究的合成未来。

IF 2.6 4区生物学

Yeast Pub Date : 2023-10-01 Epub Date: 2023-08-31 DOI: 10.1002/yea.3897

Thomas A Dixon, Roy S K Walker, Isak S Pretorius

{"title":"Visioning synthetic futures for yeast research within the context of current global techno-political trends.","authors":"Thomas A Dixon, Roy S K Walker, Isak S Pretorius","doi":"10.1002/yea.3897","DOIUrl":"10.1002/yea.3897","url":null,"abstract":"Yeast research is entering into a new period of scholarship, with new scientific tools, new questions to ask and new issues to consider. The politics of emerging and critical technology can no longer be separated from the pursuit of basic science in fields, such as synthetic biology and engineering biology. Given the intensifying race for technological leadership, yeast research is likely to attract significant investment from government, and that it offers huge opportunities to the curious minded from a basic research standpoint. This article provides an overview of new directions in yeast research with a focus on Saccharomyces cerevisiae, and places these trends in their geopolitical context. At the highest level, yeast research is situated within the ongoing convergence of the life sciences with the information sciences. This convergent effect is most strongly pronounced in areas of AI-enabled tools for the life sciences, and the creation of synthetic genomes, minimal genomes, pan-genomes, neochromosomes and metagenomes using computer-assisted design tools and methodologies. Synthetic yeast futures encompass basic and applied science questions that will be of intense interest to government and nongovernment funding sources. It is essential for the yeast research community to map and understand the context of their research to ensure their collaborations turn global challenges into research opportunities.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"443-456"},"PeriodicalIF":2.6,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10502486","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

Sequential inoculation of flocculent Torulaspora delbrueckii with Saccharomyces cerevisiae increases color density of Pinot Noir wines. 用酿酒酵母连续接种絮凝的德氏Torulaspora delbrueckii可提高黑比诺葡萄酒的色密度。

IF 2.6 4区生物学

Yeast Pub Date : 2023-10-01 Epub Date: 2023-08-31 DOI: 10.1002/yea.3896

Katasha S McCullough, Yi Yang, Melodie A Lindsay, Neill Culley, Rebecca C Deed

{"title":"Sequential inoculation of flocculent Torulaspora delbrueckii with Saccharomyces cerevisiae increases color density of Pinot Noir wines.","authors":"Katasha S McCullough, Yi Yang, Melodie A Lindsay, Neill Culley, Rebecca C Deed","doi":"10.1002/yea.3896","DOIUrl":"10.1002/yea.3896","url":null,"abstract":"Pinot noir grapes require careful management in the winery to prevent loss of color density and promote aging stability. Winemaking with flocculent yeast has been shown to increase color density, which is desirable to consumers. This research explored interspecies sequential inoculation and co-flocculation of commercial yeast on Pinot noir wine color. Sedimentation rates of six non-Saccharomyces species and two Saccharomyces cerevisiae strains were assayed individually and in combination. The most flocculent pairings, Torulaspora delbrueckii BIODIVA with S. cerevisiae RC212 or VL3, were used to ferment 20 L Pinot noir must. Sequential fermentations produced wines with greater color density at 420 + 520 nm, confirmed by sensory panel. Total and monomeric anthocyanin concentrations were decreased in sequentially fermented wines, despite being the main source of red wine color. BIODIVA adsorbed more anthocyanins than S. cerevisiae, indicating a greater number of cell wall mannoproteins in flocculent yeast, that could then result in a later release of anthocyanins and enhance copigment formation in red wines.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"493-505"},"PeriodicalIF":2.6,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10122144","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

Presence of Saccharomyces eubayanus in fermentative environments reveals a new adaptive scenario in Patagonia. 真巴亚努斯酵母在发酵环境中的存在揭示了巴塔哥尼亚的一种新的适应性场景。

IF 2.6 4区生物学

Yeast Pub Date : 2023-10-01 Epub Date: 2023-08-18 DOI: 10.1002/yea.3894

Melisa Gonzalez-Flores, Ana V Delfino, María E Rodríguez, Christian A Lopes

{"title":"Presence of Saccharomyces eubayanus in fermentative environments reveals a new adaptive scenario in Patagonia.","authors":"Melisa Gonzalez-Flores, Ana V Delfino, María E Rodríguez, Christian A Lopes","doi":"10.1002/yea.3894","DOIUrl":"10.1002/yea.3894","url":null,"abstract":"Patagonia (Argentina and Chile) harbors the highest Saccharomyces eubayanus genomic diversity and its widest predominance in natural environments. In this work, S. eubayanus was isolated for the first time from a fermentative environment. This species was found dominating both a traditional apple chicha fermentation as well as feral apple trees in the Andean region of Aluminé (Argentina). S. eubayanus was the only Saccharomyces species found in the isolation substrates, although it coexisted with other non-Saccharomyces species. The absence of strong fermentative competitors of the Saccharomyces genus (like Saccharomyces uvarum or Saccharomyces cerevisiae) in the feral apples could promote the development and implantation of S. eubayanus in a spontaneous apple must fermentation. Phylogeographic analyses revealed a high intraspecific diversity in S. eubayanus, enabling the characterization of strains belonging to the genomic subpopulations PA1, PA2, and PB1 according to the sequences obtained for the intFR gene region. This result evidence that the studied sampling area represents a natural habitat for the species. Being a novel finding, studying the causes that allowed this species to prosper in a fermentative environment becomes essential. Hence, the physiological profile of the new isolates, including their ability to grow at different temperature, nitrogen, and ethanol concentrations was evaluated in comparison with a set of S. eubayanus strains previously isolated from natural environment and representing different genomic subpopulations. Greater physiological diversity was evidenced when strains isolated from both natural and fermentative environments were analyzed overall. Furthermore, no direct relationship between genomic population and physiological behavior was observed; on the opposite, strains appeared to exhibit similar behavior, primarily grouped by isolation origin.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"476-492"},"PeriodicalIF":2.6,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10024148","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

Exploring yeast-based microbial interactions: The next frontier in postharvest biocontrol. 探索基于酵母的微生物相互作用：采后生物控制的下一个前沿。

IF 2.6 4区生物学

Yeast Pub Date : 2023-10-01 Epub Date: 2023-08-31 DOI: 10.1002/yea.3895

Bilal Agirman, Erdem Carsanba, Luca Settanni, Huseyin Erten

{"title":"Exploring yeast-based microbial interactions: The next frontier in postharvest biocontrol.","authors":"Bilal Agirman, Erdem Carsanba, Luca Settanni, Huseyin Erten","doi":"10.1002/yea.3895","DOIUrl":"10.1002/yea.3895","url":null,"abstract":"Fresh fruits and vegetables are susceptible to a large variety of spoilage agents before and after harvest. Among these, fungi are mostly responsible for the microbiological deteriorations that lead to economically significant losses of fresh produce. Today, synthetic fungicides represent the first approach for controlling postharvest spoilage in fruits and vegetables worldwide. However, the emergence of fungicide-resistant pathogen biotypes and the increasing awareness of consumers toward the health implications of hazardous chemicals imposed an urgent need to reduce the use of synthetic fungicides in the food supply; this phenomenon strengthened the search for alternative biocontrol strategies that are more effective, safer, nontoxic, low-residue, environment friendly, and cost-effective. In the last decade, biocontrol with antagonistic yeasts became a promising strategy to reduce chemical compounds during fruit and vegetable postharvest, and several yeast-based biocontrol products have been commercialized. Biocontrol is a multipartite system that includes different microbial groups (spoilage mold, yeast, bacteria, and nonspoilage resident microorganisms), host fruit, vegetables, or plants, and the environment. The majority of biocontrol studies focused on yeast-mold mechanisms, with little consideration for yeast-bacteria and yeast-yeast interactions. The current review focused mainly on the unexplored yeast-based interactions and the mechanisms of actions in biocontrol systems as well as on the importance and advantages of using yeasts as biocontrol agents, improving antagonist efficiency, the commercialization process and associated challenges, and future perspectives.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":" ","pages":"457-475"},"PeriodicalIF":2.6,"publicationDate":"2023-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10483824","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: 1

Correction to "Experimental approaches to study evolutionary cell biology using yeasts". 对“利用酵母研究进化细胞生物学的实验方法”的更正。

IF 2.6 4区生物学

Yeast Pub Date : 2023-09-01 DOI: 10.1002/yea.3889

引用次数: 1

Yeasts are essential for mucilage degradation of coffee beans during wet fermentation. 酵母是湿发酵过程中咖啡豆粘液降解的关键。

IF 2.6 4区生物学

Yeast Pub Date : 2023-09-01 Epub Date: 2023-07-19 DOI: 10.1002/yea.3888

Hosam Elhalis, Julian Cox, Jian Zhao

{"title":"Yeasts are essential for mucilage degradation of coffee beans during wet fermentation.","authors":"Hosam Elhalis, Julian Cox, Jian Zhao","doi":"10.1002/yea.3888","DOIUrl":"10.1002/yea.3888","url":null,"abstract":"During wet fermentation, mucilage layers in coffee cherries must be removed completely. To explain mucilage degradation, several controversial hypotheses have been proposed. The aim of this work was to improve our understanding of the kinetics of mucilage breakdown. Pulped coffee beans were wet fermented with seven different treatments for 36 h. Endogenous bacteria and yeasts are selectively suppressed, and pectinases or lactic acid are added. They also involve maintaining the beans at pH 7 throughout fermentation and using spontaneous fermentation without additives as a control. During spontaneous fermentation, yeast and lactic acid bacteria were detected and significantly increased to 5.5 log colony-forming units (CFU)/mL and 5.2 log CFU/mL, respectively. In the first 12 h of fermentation, there was a significant degree of endogenous pectinolytic activity, which resulted in partly destroyed beans in the absence of microorganisms. By adding pectinase and lactic acid to the fermentation mass, the breakdown process was accelerated in less than 8 h. When yeast was present throughout the fermentation, complete degradation was achieved. Bacteria played no critical role in the degradation. Klebsiella pneumoniae and Erwinia soli were found in a lower population and showed weaker pectinolytic activities compared to Hanseniaspora uvarum and Pichia kudriavzevii. During wet fermentation, mucilage degradation appears to be mediated by endogenous enzymes at the early stage, whereas microbial contributions, mainly yeasts, occur subsequently. H. uvarum and P. kudriavzevii may be promising candidates to be tested in future studies as coffee starter cultures to better control the mucilage degradation process.","PeriodicalId":23870,"journal":{"name":"Yeast","volume":"40 9","pages":"425-436"},"PeriodicalIF":2.6,"publicationDate":"2023-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10192435","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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