NSF Postdoctoral Fellowship in Biology FY 2021: Replaying the tape of Genotype-Phenotype Evolution: Integrating Evidence of Climbing Habit Evolution across Alstroemeriaceae

2021 财年 NSF 生物学博士后奖学金：重播基因型-表型进化的磁带：整合六出花科攀爬习惯进化的证据

• 批准号: 2109835
• 负责人: Carrie Tribble
• 金额: $ 21.6万
• 依托单位: Tribble, Carrie M
• 依托单位国家: 美国
• 项目类别: Fellowship Award
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-02-01 至 2025-01-31
• 项目状态: 未结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=2109835&HistoricalAwards=false
• 关键词: NSF; Postdoctoral; Fellowship; Biology; FY

This action funds an NSF Plant Genome Postdoctoral Research Fellowship in Biology for FY 2021. The fellowship supports a research and training plan in a host laboratory for the Fellow who also presents a plan to broaden participation in biology. The title of the research and training plan for this fellowship to Carrie M. Tribble is "Replaying the tape of Genotype-Phenotype Evolution: Integrating Genetic, Anatomical, and Phylogenetic Evidence of Climbing Habit Evolution across Alstroemeriaceae" The host institution for the fellowship is the University of Hawai`i at Manoa and the Universidad de Antioquia (Colombia) and the sponsoring scientists are Dr. Rosana Zenil-Ferguson and Dr. Fernando Alzate-Guarín.Different species occasionally evolve the same feature independently. This process, called convergent evolution, can occur in distantly or closely related species and may be due to different or similar changes in the underlying DNA. Often, convergent evolution occurs when distinct species evolve in response to similar environments. To better understand how and why convergent evolution occurs, this research will gather data on the convergent evolution of climbing vines and model how changes in the environment where plants grow and modifications to DNA can lead to the evolution of shared, independently evolved features. Training objectives include acquiring new skills in mathematical modeling, fieldwork, plant anatomy and systematics. Support through this fellowship will provide new opportunities for the Fellow to train students through two educational programs: a Spanish-language undergraduate and graduate student methods course at partner institutions in Colombia and an educational botany internship program for high school students at Lyon Arboretum at the University of Hawai`i. Convergent and parallel evolution have generated some of the most iconic examples of environmental pressures driving phenotypes, including the mind-boggling similarity of distantly related succulent plants, the extraordinary ability to fly among vertebrate and invertebrate animals, and the novel emergence of antibiotic-resistance in bacteria despite the lack of resistance in common ancestors. Yet, despite the importance of these processes in producing much of the observed phenotypic variation, knowledge of the genomic and environmental factors that generate repeated phenotypes is lacking. It is still unknown to what extent “convergence” at the morphological level is matched by convergence at the anatomical or molecular level. To better understand how repeated phenotypes are produced, the project will include detailed studies on a botanical family – Alstroemeriaceae – with clear variation in the climbing habit, a repeated phenotype and key innovation in flowering plants. Through three aims, this research will characterize the detailed environmental, morphological, anatomical, and genetic underpinnings of this habit and test the hypothesis that shared genetic, environmental, and anatomical changes are responsible for the evolution of climbing by: (1) developing a novel model for identifying the molecular basis of repeated phenotypic evolution; (2) modeling the evolution of stem anatomy and environments of climbing and non-climbing plants; and (3) implementing the new model to identify the genetic underpinnings of climbing in Alstroemeriaceae. The data generated by this project include (1) field-measured environmental variables, (2) herbarium vouchers, (3) stem anatomy descriptions over a developmental series, (4) evolutionary relationships (phylogenies) of Alstroemeriaceae, (5) genome-level genetic sequences (RADSeq regions), and (6) a whole genome of Luzuriaga radicans. All data will be made publicly available through online data repositories such as NCBI, TreeBASE, and Data Dryad. Keywords: convergent evolution, climbing, Alstroemeriaceae, phylogenetic comparative methodsThis 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.

这一行动为2021财年NSF植物基因组生物学博士后研究奖学金提供了资金。该奖学金支持在东道主实验室为该研究员制定的研究和培训计划，该研究员还提出了扩大生物学参与度的计划。Carrie M.Tribble奖学金研究和培训计划的标题为“重放基因-表型进化的磁带：整合攀爬习性进化的遗传、解剖学和系统发育证据”。该奖学金的主办机构是夏威夷大学马诺阿分校和安蒂奥基亚大学(哥伦比亚)，赞助科学家是Rosana Zenil-Ferguson博士和Fernando AD-Guarín博士。不同物种偶尔会独立进化相同的特征。这一过程称为聚合进化，可发生在远亲或亲缘关系密切的物种中，可能是由于潜在DNA的不同或相似的变化。通常，当不同的物种对相似的环境做出反应而进化时，就会发生趋同进化。为了更好地了解收敛进化是如何发生的以及为什么会发生，这项研究将收集关于攀缘植物收敛进化的数据，并模拟植物生长环境的变化和对DNA的修饰如何导致共享的、独立进化的特征的进化。培训目标包括获得数学建模、田野工作、植物解剖学和分类学方面的新技能。通过这项奖学金的支持将为该研究员提供新的机会，通过两个教育项目来培训学生：哥伦比亚合作机构的西班牙语本科生和研究生方法课程，以及夏威夷大学里昂植物园针对高中生的教育植物学实习项目。汇聚和平行的进化产生了一些环境压力驱动表型的最典型的例子，包括远缘多肉植物令人难以置信的相似性，在脊椎动物和无脊椎动物之间飞行的非凡能力，以及尽管共同祖先没有抗药性，细菌中出现了新的抗药性。然而，尽管这些过程在产生大量观察到的表型变异方面很重要，但对产生重复表型的基因组和环境因素缺乏了解。形态水平上的“融合”在多大程度上与解剖学或分子水平上的融合相匹配，目前尚不清楚。为了更好地了解重复表型是如何产生的，该项目将包括对一个植物科--百里香科--的详细研究，该科在攀援习性上有明显的变化，重复的表型和开花植物的关键创新。通过三个目标，这项研究将描述这种习性的详细的环境、形态、解剖和遗传基础，并通过以下三个方面检验共同的遗传、环境和解剖变化导致攀援进化的假设：(1)开发一个新的模型来确定重复表型进化的分子基础；(2)模拟攀援植物和非攀援植物的茎解剖和环境的进化；以及(3)实施新的模型来确定攀援的遗传基础。该项目产生的数据包括(1)实地测量的环境变量，(2)植物标本凭证，(3)发育系列的茎解剖描述，(4)豆科植物的进化关系(系统发育)，(5)基因组水平的遗传序列(RADSeq区)，以及(6)根芦荟的整个基因组。所有数据将通过NCBI、TreeBASE和Data Dryad等在线数据库公开提供。关键词：汇聚进化、攀援、百里香科、系统发育比较方法这个奖项反映了NSF的法定使命，通过使用基金会的智力价值和更广泛的影响审查标准进行评估，被认为值得支持。

项目成果

Commonly used Bayesian diversification methods lead to biologically meaningful differences in branch-specific rates on empirical phylogenies

常用的贝叶斯多样化方法导致经验系统发育的分支特定率具有生物学意义的差异

• DOI: 10.1093/evlett/qrad044
• 发表时间: 2023
• 期刊: Evolution Letters
• 影响因子: 5
• 作者: Martínez-Gómez, Jesús;Song, Michael J.;Tribble, Carrie M.;Kopperud, Bjørn T.;Freyman, William A.;Höhna, Sebastian;Specht, Chelsea D.;Rothfels, Carl J.
• 通讯作者: Rothfels, Carl J.

The rapid radiation of Bomarea (Alstroemeriaceae: Liliales), driven by the rise of the Andes

• DOI: 10.1093/evolut/qpad184
• 发表时间: 2023-10-13
• 期刊: EVOLUTION
• 影响因子: 3.3
• 作者: Tribble，Carrie M.;Alzate-Guarin，Fernando;Rothfels，Carl J.
• 通讯作者: Rothfels，Carl J.