Collaborative Research: Ecology of microbial mats at seamount associated Fe-rich hydrothermal vent systems

合作研究：海山相关富铁热液喷口系统微生物垫的生态学

• 批准号: 1155290
• 负责人: Clara Chan
• 金额: $ 23.01万
• 依托单位: University of Delaware
• 依托单位国家: 美国
• 项目类别: Standard Grant
• 财政年份: 2012
• 资助国家: 美国
• 起止时间: 2012-07-01 至 2017-06-30
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=1155290&HistoricalAwards=false
• 关键词: Collaborative; Research; Ecology; microbial; mats

A grand challenge in microbial ecology is to understand what drives the structure of microbial communities. A recently discovered novel class of Proteobacteria, the Zetaproteobacteria, are associated with microbial mats at iron rich hydrothermal vents at submarine volcanoes deep in the ocean. These bacteria only grow using iron as an energy source and fix carbon dioxide. Within iron rich microbial mats, Zetaproteobacteria are the dominant bacterial population; however they are rare in most other deep-sea or marine habitats, suggesting they may be restricted to specific niches characterized by gradients of oxygen and iron. Recent discoveries have expanded their range to fluids collected from deep ocean crust boreholes, iron deposits in coastal saltmarshes, and with steel associated bio-corrosion, demonstrating that marine Zetaproteobacteria are cosmopolitan. A unique property of these marine iron oxidizing bacteria is that they produce morphologically distinct iron oxide structures in the form of filamentous sheaths or stalk-like structures. These structures are easily recognized by light microscopy, and electron microscopy is beginning to reveal subtle differences among them that may be diagnostic of different populations of iron oxidizing bacteria. Another unusual aspect of iron oxidizing bacteria is that they produce large quantities of oxides with relatively little bacterial biomass. As a result, the oxides form a matrix that influences water and nutrient flow in the microbial mats where they grow, and in turn, may influence the growth of other groups of bacteria and archaea that live in the mats. In an ecological context, the PIs believe this makes them a keystone species that form the predominant structural matrix of the mat, and engineer an environment conducive for growth of specific bacterial populations within the mat ecosystem. The PIs propose to use high resolution mat sampling techniques to investigate the architecture of mat ecosystems and couple these with modern molecular methods (i.e., single-cell metagenomics) and geochemical measurements of the vent fluid to couple morphological and functional diversity to phylogenetic and physiological diversity. Because the Zetaproteobacteria are ancient, have unique metabolic and morphological attributes, and appear to be restricted to a well-defined habitat, they offer an interesting model for understanding fundamental ecological concepts that drive microbial diversity and evolution. Broader Impacts: A better understanding of iron oxidizing bacteria that include Zetaproteobacteria is of fundamental interest to scientists interested in areas of earth science and oceanography because they illustrate how microbes can fundamentally influence geochemical cycling and mineral deposition. Furthermore, morphological structures similar to those produced by Zetaproteobacteria can still be identified hundreds of millions (and possibly billions) of years back in the geological record, making them of paleontological, and potentially of exobiological, interest. As knowledge of extant populations grow, it is possible they will also help to inform us of environmental change in past Earth history. A wealth of educational and outreach opportunities will be made possible by this work, including graduate and postdoctoral education, research experiences for undergraduates, and teacher training. In addition the participating scientists are involved in a number of programs to make the general public aware of the process of how scientific research is conducted, and how discoveries of a fundamental nature can ultimately benefit humankind.

微生物生态学的一个巨大挑战是了解微生物群落结构的驱动因素。最近发现的一类新型变形菌，Zetaproteobacteria，与海洋深处海底火山富含铁的热液喷口的微生物垫有关。这些细菌只能利用铁作为能源来生长并固定二氧化碳。在富含铁的微生物垫中，Zetaproteobacteria 是主要的细菌种群。然而，它们在大多数其他深海或海洋栖息地中都很罕见，这表明它们可能仅限于以氧和铁梯度为特征的特定生态位。最近的发现已将其范围扩大到从深海地壳钻孔、沿海盐沼中的铁沉积物以及与钢铁相关的生物腐蚀收集的流体，这表明海洋 Zetaproteobacteria 是世界性的。这些海洋铁氧化细菌的一个独特特性是，它们以丝状鞘或茎状结构的形式产生形态独特的氧化铁结构。这些结构很容易通过光学显微镜识别，而电子显微镜开始揭示它们之间的细微差异，这可能有助于诊断不同的铁氧化细菌群体。铁氧化细菌的另一个不寻常的方面是它们用相对较少的细菌生物量产生大量的氧化物。结果，氧化物形成基质，影响它们生长的微生物垫中的水和养分流动，进而可能影响微生物垫中生活的其他细菌和古细菌群的生长。在生态背景下，PI 认为这使它们成为形成垫子主要结构基质的关键物种，并设计有利于垫子生态系统内特定细菌种群生长的环境。 PI建议使用高分辨率垫采样技术来研究垫生态系统的结构，并将其与现代分子方法（即单细胞宏基因组学）和喷口流体的地球化学测量结合起来，将形态和功能多样性与系统发育和生理多样性结合起来。由于 Zetaproteobacteria 很古老，具有独特的代谢和形态属性，并且似乎仅限于明确的栖息地，因此它们为理解驱动微生物多样性和进化的基本生态概念提供了一个有趣的模型。更广泛的影响：更好地了解包括 Zetaproteobacteria 在内的铁氧化细菌对于对地球科学和海洋学领域感兴趣的科学家来说具有根本意义，因为它们说明了微生物如何从根本上影响地球化学循环和矿物沉积。 此外，与 Zetaproteobacteria 产生的形态结构相似的形态结构仍然可以在数亿（甚至可能是数十亿）年前的地质记录中识别出来，这使得它们具有古生物学和潜在的外生物学意义。随着对现存种群的了解不断增长，它们也有可能帮助我们了解过去地球历史中的环境变化。 这项工作将带来大量的教育和推广机会，包括研究生和博士后教育、本科生的研究经验以及教师培训。此外，参与的科学家还参与了许多项目，让公众了解科学研究的过程，以及基本性质的发现如何最终造福人类。

项目成果

Validating the Cyc2 Neutrophilic Iron Oxidation Pathway Using Meta-omics of Zetaproteobacteria Iron Mats at Marine Hydrothermal Vents

• DOI: 10.1128/msystems.00553-19
• 发表时间: 2020-02
• 期刊: mSystems
• 影响因子: 6.4
• 作者: S. McAllister;Shawn W. Polson;D. Butterfield;B. Glazer;J. Sylvan;C. Chan

FeGenie: A Comprehensive Tool for the Identification of Iron Genes and Iron Gene Neighborhoods in Genome and Metagenome Assemblies

• DOI: 10.3389/fmicb.2020.00037
• 发表时间: 2020-01-31
• 期刊: FRONTIERS IN MICROBIOLOGY
• 影响因子: 5.2
• 作者: Garber, Arkadiy I.;Nealson, Kenneth H.;Merino, Nancy
• 通讯作者: Merino, Nancy