Collaborative Research: ABI Development: Cultivating a sustainable Open Tree of Life

合作研究：ABI 开发：培育可持续开放的生命之树

• 批准号: 1759846
• 负责人: Emily Jane McTavish
• 金额: $ 43.52万
• 依托单位: University of California - Merced
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2018
• 资助国家: 美国
• 起止时间: 2018-05-01 至 2024-04-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1759846&HistoricalAwards=false
• 关键词: Collaborative; Research; ABI; Development; Cultivating

For over 150 years, scientists have been classifying different plants, animals, fungi, and microbes based on how these organisms are related to one another. The Open Tree of Life project created a comprehensive website that summarizes these relationships. This website makes it easier for biologists to find previously discovered knowledge about evolutionary relationships and to obtain the data that underlies this knowledge. Understanding the evolutionary relationships between organisms is crucial to answering questions in all areas of biological research. The website is used in research that improves agriculture, fights diseases, conserves biodiversity, ensures food safety, and improves our understanding of basic processes in biology. The Open Tree of Life website also provides students and teachers with up-to-date biological information across the entire tree of life. This project will add several features to the core of the Open Tree of Life project to make it sustainable and to keep the resource up to date.The Open Tree of Life project has built and deployed the first comprehensive tree of life. That project is used by individual biologists and by other informatics projects. This project will ensure the sustainability of the Open Tree of Life effort by adding new features to the user interface that motivate data deposition and curation, improving the rate and reliability of automated procedures for incorporating new data into the tree, and fixing several aspects of the core infrastructure to make the site easier to maintain and cheaper to run. The results of this work will be available at the Open Tree of Life site (https://tree.opentreeoflife.org) throughout the project.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.

150多年来，科学家们一直在根据不同的植物、动物、真菌和微生物之间的关系对它们进行分类。开放的生命之树项目创建了一个综合网站，总结了这些关系。该网站使生物学家更容易找到以前发现的关于进化关系的知识，并获得这些知识的基础数据。了解生物体之间的进化关系对于回答生物学研究各个领域的问题至关重要。该网站用于改善农业，防治疾病，保护生物多样性，确保食品安全以及提高我们对生物学基本过程的理解的研究。开放的生命树网站还为学生和教师提供了整个生命树的最新生物信息。该项目将为Open Tree of Life项目的核心增加几个功能，以使其可持续发展并保持资源更新。Open Tree of Life项目已经构建并部署了第一个综合性的生命树。该项目被个别生物学家和其他信息学项目使用。该项目将确保开放生命树工作的可持续性，方法是在用户界面中增加新的功能，促进数据存放和管理，提高将新数据纳入生命树的自动化程序的速度和可靠性，并修复核心基础设施的几个方面，使网站更容易维护，运行成本更低。 这项工作的结果将在整个项目的开放生命之树网站（https：//www.example.com）上提供。该奖项反映了NSF的法定使命，并通过使用基金会的知识价值和更广泛的影响审查标准进行评估，被认为值得支持。tree.opentreeoflife.org

项目成果

Linking Biodiversity Data Using Evolutionary History

使用进化历史链接生物多样性数据

• DOI: 10.3897/biss.3.36207
• 发表时间: 2019
• 期刊: Biodiversity Information Science and Standards
• 作者: McTavish, Emily Jane

Approachable Case Studies Support Learning and Reproducibility in Data Science: An Example from Evolutionary Biology

平易近人的案例研究支持数据科学的学习和可重复性：进化生物学的一个例子

• DOI: 10.1080/26939169.2022.2099487
• 发表时间: 2022
• 期刊: Journal of Statistics and Data Science Education
• 影响因子: 1.7
• 作者: Sanchez Reyes, Luna L.;McTavish, Emily Jane
• 通讯作者: McTavish, Emily Jane

Rapid alignment updating with Extensiphy

使用 Extensiphy 快速更新对准

• DOI: 10.1111/2041-210x.13790
• 发表时间: 2022
• 期刊: Methods in Ecology and Evolution
• 影响因子: 6.6
• 作者: Field, Jasper Toscani;Abrams, A. Jeanine;Cartee, John C.;McTavish, Emily Jane
• 通讯作者: McTavish, Emily Jane