DIMENSIONS: Collaborative Research: The Making of Biodiversity Across the Yeast Subphylum

维度：合作研究：酵母亚门生物多样性的形成

• 批准号: 1442148
• 负责人: Christopher Hittinger
• 金额: $ 114.89万
• 依托单位: University of Wisconsin-Madison
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2015
• 资助国家: 美国
• 起止时间: 2015-02-01 至 2023-01-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1442148&HistoricalAwards=false
• 关键词: DIMENSIONS; Collaborative; Research; Making; Biodiversity

The yeasts are model organisms for understanding and integrating the genetic and ecological factors that drive species diversification and generate biodiversity. Yeasts show remarkably different types of metabolism, allowing them to successfully inhabit every continent and every major aquatic and terrestrial habitat, however little is known about the distribution of these traits among the diversity of yeast species. By creating and analyzing the first comprehensive genomic dataset and catalog of metabolic diversity for a high-level taxonomic rank (subphylum), this project will provide insight into how key changes in metabolism shape eukaryotic microbial ecology and diversity. Inclusive large-scale analysis of the genome data will be fostered by creating an interactive web-based interface for researchers, clinicians, teachers, and students to explore the subphylum as a model for understanding the making of biodiversity. These data will be of potential value for practitioners using yeast to improve industrial and medical processes. The goals of this project are to determine the metabolic and ecological diversity of the Saccharomycotina subphylum at the genetic and phenotypic (e.g. metabolism, morphology) levels, and then to infer the tempo and mode of change across its history. To determine the genetic basis of metabolic diversity, the project will generate functionally annotated genome sequences for all ~1,000 known species and compare genome content with ecological and metabolic data from the entire subphylum. The project will accurately reconstruct the phylogenetic relationships of all known species and will use these relationships to develop a stable taxonomy of medically and biotechnologically important yeasts. The project will provide new insights into the manner in which biodiversity arises and the key changes that drive and shape it by tracing the history of yeast metabolism, ecology, and pathogenicity.

酵母是理解和整合遗传和生态因素的模式生物，这些因素推动物种多样化并产生生物多样性。酵母表现出显着不同类型的代谢，使它们能够成功地栖息在每个大陆和每个主要的水生和陆生栖息地，但很少有人知道这些特征在酵母物种的多样性中的分布。通过创建和分析第一个全面的基因组数据集和代谢多样性目录的高级分类等级（亚门），该项目将提供深入了解代谢的关键变化如何塑造真核微生物生态和多样性。将通过为研究人员、临床医生、教师和学生创建一个基于网络的交互式界面来促进对基因组数据的包容性大规模分析，以探索亚门作为理解生物多样性形成的模型。这些数据对于使用酵母改善工业和医疗过程的从业者具有潜在价值。该项目的目标是在遗传和表型（例如代谢，形态）水平上确定真菌亚门的代谢和生态多样性，然后推断其历史上的变化克里思和模式。为了确定代谢多样性的遗传基础，该项目将生成所有约1 000个已知物种的功能注释基因组序列，并将基因组内容与整个亚门的生态和代谢数据进行比较。该项目将准确地重建所有已知物种的系统发育关系，并将利用这些关系来开发医学和生物技术重要酵母的稳定分类。该项目将通过追踪酵母代谢、生态和致病性的历史，为生物多样性的产生方式以及驱动和塑造生物多样性的关键变化提供新的见解。

项目成果

Contrasting modes of macro and microsynteny evolution in a eukaryotic subphylum

• DOI: 10.1016/j.cub.2022.10.025
• 发表时间: 2022-12-19
• 期刊: CURRENT BIOLOGY
• 影响因子: 9.2
• 作者: Li, Yuanning;Liu, Hongyue;Rokas, Antonis
• 通讯作者: Rokas, Antonis

Comparative functional genomics identifies an iron-limited bottleneck in a Saccharomyces cerevisiae strain with a cytosolic-localized isobutanol pathway.

• DOI: 10.1016/j.synbio.2022.02.007
• 发表时间: 2022-06
• 期刊: Synthetic and systems biotechnology
• 影响因子: 4.8
• 作者: Gambacorta FV;Wagner ER;Jacobson TB;Tremaine M;Muehlbauer LK;McGee MA;Baerwald JJ;Wrobel RL;Wolters JF;Place M;Dietrich JJ;Xie D;Serate J;Gajbhiye S;Liu L;Vang-Smith M;Coon JJ;Zhang Y;Gasch AP;Amador-Noguez D;Hittinger CT;Sato TK;Pfleger BF
• 通讯作者: Pfleger BF

The Brazilian Amazonian rainforest harbors a high diversity of yeasts associated with rotting wood, including many candidates for new yeast species

• DOI: 10.1002/yea.3837
• 发表时间: 2023-01-22
• 期刊: YEAST
• 影响因子: 2.6
• 作者: Barros，Katharina O.;Alvarenga，Flavia B. M.;Rosa，Carlos A.
• 通讯作者: Rosa，Carlos A.

A role for ion homeostasis in yeast ionic liquid tolerance.

• DOI: 10.17912/micropub.biology.000718
• 发表时间: 2023
• 期刊: microPublication biology
• 作者: Liu, Lisa;Ansari, Rahim U;Vang-Smith, Maikayeng;Hittinger, Chris Todd;Sato, Trey K
• 通讯作者: Sato, Trey K

Crabtree/Warburg-like aerobic xylose fermentation by engineered Saccharomyces cerevisiae

• DOI: 10.1016/j.ymben.2021.09.008
• 发表时间: 2021-10-04
• 期刊: METABOLIC ENGINEERING
• 影响因子: 8.4
• 作者: Lee, Sae-Byuk;Tremaine, Mary;Sato, Trey K.
• 通讯作者: Sato, Trey K.