Illuminating the physiology, cellular characteristics, and ecogenomics of the first cultivated strain of the SAR86 lineage

阐明 SAR86 谱系第一个栽培菌株的生理学、细胞特征和生态基因组学

基本信息

  • 批准号:
    2149128
  • 负责人:
  • 金额:
    $ 74.88万
  • 依托单位:
  • 依托单位国家:
    美国
  • 项目类别:
    Standard Grant
  • 财政年份:
    2022
  • 资助国家:
    美国
  • 起止时间:
    2022-03-01 至 2025-02-28
  • 项目状态:
    未结题

项目摘要

Since their initial discovery nearly 30 years ago, a group of marine bacteria known as SAR86 has come to be recognized as one of the main groups of microorganisms inhabiting the global surface ocean, where they can make up 20% or more of the planktonic cells that live in seawater. SAR86 cells appear to employ a heterotrophic lifestyle wherein the energy for cellular growth and metabolism is derived from organic compounds, and oxygen is converted to carbon dioxide via aerobic respiration. This basal metabolism appears to be supplemented by harvesting energy from sunlight using a unique light-harvesting system based on a protein known as proteorhodopsin. Despite its global prevalence and thus importance to understanding Earth’s major elemental cycles, a major factor that limits understanding of SAR86 marine bacteria is the lack of cultured isolates, such that even the most basic cellular features and metabolic traits are unknown. This study leverages the first isolated strain from the SAR86 lineage in a set of experiments designed to characterize basic aspects of SAR86 cells and to link metabolic traits with specific genetic features of SAR86. Collectively, these experiments are increasing understanding of one of the global-ocean’s most abundant microbial inhabitants. This project also supports the maintenance and public dissemination of a culture collection of marine microorganisms at the University of Hawaiʻi, the development of an educational module that focuses on the ecology of marine microbes inhabiting coastal Hawaiʻi, and the collaboration of the research team with community education partners on a new 3-D virtual reality rendering of the research laboratory and institute. One postdoctoral researcher, one graduate student, and multiple undergraduates are being trained in engaging, cutting-edge research, including the exposure of undergraduate students of native Hawaiian and Pacific Island ancestry to hands-on research and training.The project uses living cultures and the closed, annotated genome of the first isolated strain of the enigmatic SAR86 clade, HIMB1674, in a set of experiments to provide fundamental information on the cellular and physiological characteristics of SAR86 cells and connect specific metabolic features to genes and pathways encoded by the genome. The project links the genome of HIMB1674 to publicly available genomes and metagenomes from around the globe and integrates SAR86 eco-genomics into a time-series study that spans a steep coastal to open-ocean environmental gradient in the tropical Pacific Ocean. The experiments offer a combination of dry-lab informatic analyses, wet-lab experimentation with cultures, and a field program that uniquely illuminates the systems biology of SAR86 marine bacteria. The three main goals of this project are to 1) use SAR86 strain HIMB1674 to quantify basic cellular characteristics and investigate specific metabolic features predicted from its genome, 3) use the complete genome sequence of strain HIMB1674 as an anchor to investigate the eco-evolutionary characteristics of the SAR86 lineage, and 3) perform experiments designed to isolate additional SAR86 strains.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.
自近30年前首次发现以来,一组被称为SAR 86的海洋细菌已被公认为栖息在全球海洋表面的主要微生物群体之一,它们可以构成生活在海水中的浮游细胞的20%或更多。SAR 86细胞似乎采用异养生活方式,其中细胞生长和代谢的能量来自有机化合物,氧气通过有氧呼吸转化为二氧化碳。这种基础代谢似乎是通过使用一种独特的基于蛋白质的捕光系统从阳光中获取能量来补充的。尽管它在全球范围内流行,因此对于了解地球的主要元素循环非常重要,但限制对SAR 86海洋细菌了解的一个主要因素是缺乏培养的分离株,因此即使是最基本的细胞特征和代谢特征也是未知的。这项研究利用了来自SAR 86谱系的第一个分离菌株,设计了一组实验来表征SAR 86细胞的基本方面,并将代谢特征与SAR 86的特定遗传特征联系起来。总的来说,这些实验正在增加对全球海洋中最丰富的微生物居民之一的了解。该项目还支持在夏威夷大学维护和公开传播海洋微生物的培养物,开发一个教育模块,重点关注夏威夷沿海海洋微生物的生态,以及研究团队与社区教育合作伙伴的合作研究实验室和研究所的新3D虚拟现实渲染。一名博士后研究员、一名研究生和多名本科生正在接受引人入胜的前沿研究培训,包括夏威夷和太平洋岛屿本土血统的本科生接触实践研究和培训。该项目使用了神秘的SAR 86进化枝HIMB 1674的第一个分离菌株的活培养物和封闭的注释基因组,在一组实验中,提供关于SAR 86细胞的细胞和生理特征的基本信息,并将特定的代谢特征与基因组编码的基因和途径联系起来。该项目将HIMB 1674的基因组与来自地球仪的公开基因组和宏基因组联系起来,并将SAR 86生态基因组学整合到一项时间序列研究中,该研究跨越了热带太平洋从沿海到公海的陡峭环境梯度。这些实验提供了干实验室信息分析,湿实验室实验与文化的组合,以及独特的阐明SAR 86海洋细菌系统生物学的现场计划。本项目的三个主要目标是:1)利用SAR 86菌株HIMB 1674量化基本细胞特征,并研究从其基因组预测的特定代谢特征; 3)利用菌株HIMB 1674的全基因组序列作为锚,研究SAR 86谱系的生态进化特征,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。

项目成果

期刊论文数量(1)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
Structure-informed microbial population genetics elucidate selective pressures that shape protein evolution
  • DOI:
    10.1126/sciadv.abq4632
  • 发表时间:
    2023-02-24
  • 期刊:
  • 影响因子:
    13.6
  • 作者:
    Kiefl, Evan;Esen, Ozcan C.;Eren, A. Murat
  • 通讯作者:
    Eren, A. Murat
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Michael Rappe其他文献

Michael Rappe的其他文献

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{{ truncateString('Michael Rappe', 18)}}的其他基金

Collaborative Research: Illuminating microbes and their viruses within the dark ocean crust through strain-level approaches
合作研究:通过菌株水平的方法阐明黑暗海洋地壳内的微生物及其病毒
  • 批准号:
    1851582
  • 财政年份:
    2019
  • 资助金额:
    $ 74.88万
  • 项目类别:
    Standard Grant
Population genomics and ecotypic divergence in the most dominant lineage of marine bacteria
海洋细菌最主要谱系的群体基因组学和生态型分化
  • 批准号:
    1538628
  • 财政年份:
    2015
  • 资助金额:
    $ 74.88万
  • 项目类别:
    Standard Grant
Collaborative Research: Completing single- and cross-hole hydrgeologic and microbial experiments: Juan de Fuca Flank
合作研究:完成单孔和跨孔水文地质和微生物实验:Juan de Fuca Flank
  • 批准号:
    1260723
  • 财政年份:
    2013
  • 资助金额:
    $ 74.88万
  • 项目类别:
    Continuing Grant
The Development of Microbial Associations in Major Reef Building Corals of the Pacific Ocean
太平洋主要造礁珊瑚微生物群落的发展
  • 批准号:
    0928806
  • 财政年份:
    2009
  • 资助金额:
    $ 74.88万
  • 项目类别:
    Standard Grant
Collaborative Proposal: Characterizing Microbial Activity and Diversity in Hawaiian Basalt Aquifers
合作提案:表征夏威夷玄武岩含水层的微生物活动和多样性
  • 批准号:
    0527135
  • 财政年份:
    2005
  • 资助金额:
    $ 74.88万
  • 项目类别:
    Standard Grant

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