NSFOCE-BSF: COLLABORATIVE RESEARCH: Elucidating adaptive potential through coral holobiont functional integration

NSFOCE-BSF：合作研究：通过珊瑚全生物功能整合阐明适应性潜力

• 批准号: 1756623
• 负责人: Hollie Putnam
• 金额: $ 48.91万
• 依托单位: University of Rhode Island
• 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: 2018-06-15 至 2022-05-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1756623&HistoricalAwards=false
• 关键词: NSFOCE; BSF; COLLABORATIVE; RESEARCH; Elucidating

The remarkable success of coral reefs is explained by interactions of the coral animal with its symbiotic microbiome that is comprised of photosynthetic algae and bacteria. This total organism, or "holobiont", enables high ecosystem biodiversity and productivity in coral reefs. These ecosystems are, however, under threat from a rapidly changing environment. This project aims to integrate information from the cellular to organismal level to identify key mechanisms of adaptation and acclimatization to environmental stress. Specific areas to be investigated include the role of symbionts and of epigenetics (molecular "marks" on coral DNA that regulate gene expression). These aspects will be studied in Hawaiian corals to determine whether they explain why some individuals are sensitive or resistant to environmental perturbation. Results from the proposed project will also provide significant genomic resources that will contribute to fundamental understanding of how complex biological systems generate emergent (i.e., unexpected) properties when faced with fluctuating environments. Broader impacts will extend beyond scientific advancements to include postdoctoral and student training in Science, Technology, Engineering and Mathematics (STEM). Data generated in the project will be used to train university students and do public outreach through live videos of experimental work, and short stop-action animations for topics such as symbiosis, genomics, epigenetics, inheritance, and adaptation. The research approaches and results will be shared with the public in Hawaii through the Hawaii Institute of Marine Biology education department and presentations at Hawaiian hotels, as well as at Rutgers University through its 4-H Rutgerscience Saturdays and 4-H Rutgers Summer Science Programs.Symbiosis is a complex and ecologically integrated interaction between organisms that provides emergent properties key to their survival. Such is the case for the relationship between reef-building corals and their microbiome, a meta-organism, where nutritional and biogeochemical recycling provide the necessary benefits that fuel high reef productivity and calcification. The rapid warming and acidification of our oceans threatens this symbiosis. This project addresses how relatively stress resistant and stress sensitive corals react to the environmental perturbations of increased temperature and reduced pH. It utilizes transcriptomic, epigenetic, and microbial profiling approaches, to elucidate how corals respond to environmental challenges. In addition to this profiling, work by the BSF Israeli partner will implement powerful analytical techniques such as network theory to detect key transcriptional hubs in meta-organisms and quantify biological integration. This work will generate a stress gene inventory for two ecologically important coral species and a (epi)genome and microbiome level of understanding of how they respond to the physical environment. Acknowledgment of a role for epigenetic mechanisms in corals overturns the paradigm of hardwired genetic control and highlights the interplay of genetic and epigenetic variation that may result in emergent evolutionary and ecologically relevant properties with implications for the future of reefs. Furthermore, clarifying the joint contribution of the microbiome and host in response to abiotic change will provide an important model in metazoan host-microbiome biotic interactions.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.

珊瑚礁的显著成功是由珊瑚动物与由光合藻类和细菌组成的共生微生物组的相互作用解释的。这种生物体，或称“全生物”，使珊瑚礁具有高度的生态系统生物多样性和生产力。然而，这些生态系统正受到迅速变化的环境的威胁。该项目旨在整合从细胞到生物体水平的信息，以确定适应和驯化环境压力的关键机制。有待调查的具体领域包括共生体和表观遗传学（珊瑚脱氧核糖核酸上调节基因表达的分子“标记”）的作用。这些方面将在夏威夷珊瑚中进行研究，以确定它们是否解释了为什么有些个体对环境扰动敏感或具有抵抗力。拟议项目的结果还将提供重要的基因组资源，这将有助于从根本上理解复杂的生物系统如何产生紧急（即，当面对波动的环境时，更广泛的影响将超越科学进步，包括科学，技术，工程和数学（STEM）的博士后和学生培训。该项目产生的数据将用于培训大学生，并通过实验工作的现场视频以及共生、基因组学、表观遗传学、遗传和适应等主题的简短定格动画进行公众宣传。研究方法和结果将通过夏威夷海洋生物学研究所教育部门和夏威夷酒店的演讲与夏威夷的公众分享，以及通过罗格斯大学的4-H Rutgerscience Saturdays和4-H Rutgers Summer Science Programs与罗格斯大学分享。共生是生物体之间复杂的生态整合相互作用，提供了对其生存至关重要的新兴特性。造礁珊瑚与其微生物组（一种元生物）之间的关系就是如此，其中营养和生物地球化学循环提供了必要的好处，促进了珊瑚礁的高生产力和钙化。我们海洋的迅速变暖和酸化威胁着这种共生关系。该项目研究相对抗应激和应激敏感的珊瑚如何对温度升高和pH值降低的环境扰动做出反应。它利用转录组学、表观遗传学和微生物分析方法来阐明珊瑚如何应对环境挑战。除了这种分析，BSF以色列合作伙伴的工作将实施强大的分析技术，如网络理论，以检测元生物中的关键转录中心并量化生物整合。这项工作将为两种具有生态重要性的珊瑚物种生成应激基因清单，并在（epi）基因组和微生物组水平上了解它们如何对物理环境做出反应。认识到珊瑚表观遗传机制的作用，推翻了硬连线遗传控制的范式，并强调了遗传和表观遗传变异的相互作用，可能会导致新出现的进化和生态相关特性，对珊瑚礁的未来产生影响。此外，阐明微生物组和宿主对非生物变化的共同贡献将为后生动物宿主微生物组生物相互作用提供重要模型。该奖项反映了NSF的法定使命，并被认为值得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来支持。

项目成果

Transcriptome analysis provides a blueprint of coral egg and sperm functions

转录组分析提供了珊瑚卵和精子功能的蓝图

• DOI: 10.7717/peerj.9739
• 发表时间: 2020
• 期刊: PeerJ
• 影响因子: 2.7
• 作者: Julia Van Etten, Alexander Shumaker

Editorial: Marine Environmental Epigenetics

社论：海洋环境表观遗传学

• DOI: 10.3389/fmars.2021.685075
• 发表时间: 2021
• 期刊: Frontiers in Marine Science
• 影响因子: 3.7
• 作者: Eirin-Lopez, Jose M.;Putnam, Hollie
• 通讯作者: Putnam, Hollie

Invertebrate methylomes provide insight into mechanisms of environmental tolerance and reveal methodological biases

无脊椎动物甲基化组提供了对环境耐受机制的深入了解并揭示了方法学偏差

• DOI: 10.1111/1755-0998.13542
• 发表时间: 2021
• 期刊: Molecular Ecology Resources
• 影响因子: 7.7
• 作者: Trigg, Shelly A.;Venkataraman, Yaamini R.;Gavery, Mackenzie R.;Roberts, Steven B.;Bhattacharya, Debashish;Downey‐Wall, Alan;Eirin‐Lopez, Jose M.;Johnson, Kevin M.;Lotterhos, Katie E.;Puritz, Jonathan B.
• 通讯作者: Puritz, Jonathan B.

Avenues of reef-building coral acclimatization in response to rapid environmental change

• DOI: 10.1242/jeb.239319
• 发表时间: 2021-02
• 期刊: Journal of Experimental Biology
• 影响因子: 2.8
• 作者: H. Putnam

Genome analysis of the rice coral Montipora capitata

稻珊瑚 Montipora Capitalata 的基因组分析

• DOI: 10.1038/s41598-019-39274-3
• 发表时间: 2019
• 期刊: Scientific Reports
• 影响因子: 4.6
• 作者: Shumaker, Alexander;Putnam, Hollie M.;Qiu, Huan;Price, Dana C.;Zelzion, Ehud;Harel, Arye;Wagner, Nicole E.;Gates, Ruth D.;Yoon, Hwan Su;Bhattacharya, Debashish
• 通讯作者: Bhattacharya, Debashish