Regulation of nutrient assimilation in streamlined oligotrophic microorganisms

流线型寡营养微生物营养同化的调节

基本信息

  • 批准号:
    1838445
  • 负责人:
  • 金额:
    $ 42.39万
  • 依托单位:
  • 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:
    2018-08-15 至 2022-07-31
  • 项目状态:
    已结题

项目摘要

This project concerns cells that compose the "dark matter" of microbial diversity. Many of these organisms are adapted to life in Earth's oceans, where much of carbon flux takes place at very low nutrient concentrations. Some microbes that grow at these low nutrient concentrations' oligotrophs - do not regulate biochemical pathways for nutrient assimilation involving carbon oxidation. In contrast, among the more commonly studied copiotrophs - cells that grow rapidly at high nutrient concentrations - regulation of nutrient assimilation is ubiquitous. An example of a cell that has reduced regulation is Pelagibacter, the most abundant organism in the oceans. At present there exists no explanation for the lack of regulatory systems for nutrient uptake in cells that live in low nutrient ecosystems. In this study, a combination of laboratory experiments, mathematical modeling and genome analysis will be used to examine hypotheses about the costs and benefits of regulating nutrient assimilation. Studying the costs and benefits of different strategies for nutrient assimilation in microbes will aid in the prediction of behavior of nutrient cycles and will lead to a better understanding of aquatic ecosystems. This research may also help scientists understand why so many common microbial cell types have been challenging to grow and study in scientific laboratories. The educational component of this project will involve training a graduate student and a postdoctoral scholar. A workshop on carbon cycling by microorganisms will be presented to teachers and high school students. In this project, the investigators will test the hypotheses that nutrient uptake systems may evolve to be unregulated due to (A) cost/benefit of regulation at different frequencies and magnitudes of nutrient pulses, (B) molecular biological constraints that prevent effective operation of a regulatory system at very low nutrient levels (excessive stochastic noise in the regulatory system), or (C) synergy with chemotaxis, which is typically not done by oligotrophs, so they experience nutrient patches at lower concentrations and for shorter times, or some combination of these mechanisms. A model will be developed to explicitly resolve the assimilation systems and their regulation at the gene level, accounting for the dynamics and metabolic costs of protein synthesis and function (Hypothesis A). An agent-based (aka individual-based) modeling approach will be used to explicitly resolve population heterogeneity (Hypothesis B) and individual transport by chemotaxis and diffusion (Hypothesis C). The investigators will also perform nutrient upshift experiments with a number of oligotrophs, copiotrophs and nutrients, to characterize the response times and induction concentration thresholds by measuring transcript abundance and uptake of radiolabeled nutrients. A subset of experiments will additionally include measurements of nutrient and cell concentrations, proteins and metabolites, nutrient uptake and oxidation rates, and growth rates. The data obtained from these experiments model will be used to calibrate and fine tune the model. The synergy between regulation and uptake (Hypothesis C) will also be tested by comparing genomes of oligotrophs and copiotrophs. A postdoctoral scholar and graduate student will be involved in the research and outreach will be performed to high school teachers and students.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.
该项目涉及构成微生物多样性的"暗物质"的细胞。这些生物中有许多适应了地球海洋中的生活,那里的大部分碳通量发生在非常低的营养浓度下。一些生长在这些低营养浓度下的微生物-寡养生物-不调节涉及碳氧化的营养同化的生化途径。相比之下,在更常研究的互补营养体中-在高营养浓度下快速生长的细胞-营养同化的调节是普遍存在的。调节减少的细胞的一个例子是海洋中最丰富的生物体Pelagibacter。目前还没有解释为什么生活在低营养生态系统中的细胞缺乏营养吸收的调节系统。在这项研究中,实验室实验,数学建模和基因组分析相结合,将被用来检查有关的成本和利益的调节营养同化的假设。研究微生物营养同化不同策略的成本和收益将有助于预测营养循环的行为,并将有助于更好地了解水生生态系统。这项研究还可以帮助科学家理解为什么这么多常见的微生物细胞类型在科学实验室中的生长和研究具有挑战性。该项目的教育部分将包括培训一名研究生和一名博士后学者。将为教师和高中学生举办一个关于微生物碳循环的讲习班。 在这个项目中,研究人员将测试营养吸收系统可能演变为不受调控的假设,这是由于(A)在不同频率和营养脉冲幅度下调控的成本/效益,(B)在非常低的营养水平下阻止调控系统有效运行的分子生物学限制(C)与趋化性的协同作用,这通常不是由寡养生物完成的,因此它们在较低浓度和较短时间内经历营养斑块,或者这些机制的某种组合。将开发一个模型来明确解决同化系统及其在基因水平上的调节,解释蛋白质合成和功能的动态和代谢成本(假设A)。将使用基于代理(也称为基于个体)的建模方法明确解决群体异质性(假设B)和通过趋化性和扩散的个体转运(假设C)。研究人员还将使用一些寡养体,共养体和营养物进行营养物上移实验,通过测量转录丰度和放射性标记营养物的摄取来表征响应时间和诱导浓度阈值。实验的子集还将包括营养和细胞浓度、蛋白质和代谢物、营养吸收和氧化速率以及生长速率的测量。从这些实验模型中获得的数据将用于校准和微调模型。还将通过比较寡养生物和共养生物的基因组来测试调节和摄取之间的协同作用(假设C)。一名博士后学者和一名研究生将参与这项研究,并将对高中教师和学生进行宣传。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(2)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
SAR11 bacteria have a high affinity and multifunctional glycine betaine transporter
  • DOI:
    10.1111/1462-2920.14649
  • 发表时间:
    2019-07-01
  • 期刊:
  • 影响因子:
    5.1
  • 作者:
    Noell, Stephen E.;Giovannoni, Stephen J.
  • 通讯作者:
    Giovannoni, Stephen J.
{{ item.title }}
{{ item.translation_title }}
  • DOI:
    {{ item.doi }}
  • 发表时间:
    {{ item.publish_year }}
  • 期刊:
  • 影响因子:
    {{ item.factor }}
  • 作者:
    {{ item.authors }}
  • 通讯作者:
    {{ item.author }}

数据更新时间:{{ journalArticles.updateTime }}

{{ item.title }}
  • 作者:
    {{ item.author }}

数据更新时间:{{ monograph.updateTime }}

{{ item.title }}
  • 作者:
    {{ item.author }}

数据更新时间:{{ sciAawards.updateTime }}

{{ item.title }}
  • 作者:
    {{ item.author }}

数据更新时间:{{ conferencePapers.updateTime }}

{{ item.title }}
  • 作者:
    {{ item.author }}

数据更新时间:{{ patent.updateTime }}

Stephen Giovannoni其他文献

Giovannoni et al. reply
乔瓦诺尼等人的答复
  • DOI:
    10.1038/nature12388
  • 发表时间:
    2013-07-24
  • 期刊:
  • 影响因子:
    48.500
  • 作者:
    Stephen Giovannoni;Ben Temperton;Yanlin Zhao
  • 通讯作者:
    Yanlin Zhao
Oxidation state of bioavailable dissolved organic matter influences bacterioplankton respiration and growth efficiency
生物可利用溶解性有机物的氧化态影响浮游细菌的呼吸作用和生长效率
  • DOI:
    10.1038/s42003-025-07574-2
  • 发表时间:
    2025-01-29
  • 期刊:
  • 影响因子:
    5.100
  • 作者:
    Brandon M. Stephens;Paolo Stincone;Daniel Petras;Chance J. English;Keri Opalk;Stephen Giovannoni;Craig A. Carlson
  • 通讯作者:
    Craig A. Carlson
The importance of culturing bacterioplankton in the 'omics' age
“组学”时代培养浮游细菌的重要性
  • DOI:
    10.1038/nrmicro1752
  • 发表时间:
    2007-10-01
  • 期刊:
  • 影响因子:
    103.300
  • 作者:
    Stephen Giovannoni;Ulrich Stingl
  • 通讯作者:
    Ulrich Stingl
Oceans of bacteria
大量的细菌
  • DOI:
    10.1038/430515a
  • 发表时间:
    2004-07-28
  • 期刊:
  • 影响因子:
    48.500
  • 作者:
    Stephen Giovannoni
  • 通讯作者:
    Stephen Giovannoni

Stephen Giovannoni的其他文献

{{ item.title }}
{{ item.translation_title }}
  • DOI:
    {{ item.doi }}
  • 发表时间:
    {{ item.publish_year }}
  • 期刊:
  • 影响因子:
    {{ item.factor }}
  • 作者:
    {{ item.authors }}
  • 通讯作者:
    {{ item.author }}

{{ truncateString('Stephen Giovannoni', 18)}}的其他基金

Dimensions: Collaborative Research: Functional and genomic diversity in vitamin B1 metabolism and impacts on plankton networks and productivity
维度:合作研究:维生素 B1 代谢的功能和基因组多样性以及对浮游生物网络和生产力的影响
  • 批准号:
    1638928
  • 财政年份:
    2016
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
Dissolved Organic Carbon Cycling by SAR11 Marine Bacteria
SAR11 海洋细菌的溶解有机碳循环
  • 批准号:
    1436865
  • 财政年份:
    2014
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
Microbial cycling of volatile organic carbon in the marine surface layer
海洋表层挥发性有机碳的微生物循环
  • 批准号:
    1243760
  • 财政年份:
    2012
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
Collaborative Research: The Impact of Pelagibacter on DOM Composition Under Light and Dark Conditions
合作研究:Pelagibacter 在光照和黑暗条件下对 DOM 组成的影响
  • 批准号:
    0751763
  • 财政年份:
    2008
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
MO: Collaborative Research: Transitions in the Surface Layer and the Role of Vertically Stratified Microbial Communities in the Carbon Cycle- An Oceanic Microbial Observatory
MO:合作研究:表层转变和垂直分层微生物群落在碳循环中的作用 - 海洋微生物观测站
  • 批准号:
    0802004
  • 财政年份:
    2008
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
Microbial Observatories: Collaborative Research: Microbial Diversity and Function in the Permanently Ice-Covered Lakes of the McMurdo Dry Valleys, Antarctica
微生物观测站:合作研究:南极洲麦克默多干谷永久冰雪覆盖的湖泊中的微生物多样性和功能
  • 批准号:
    0237689
  • 财政年份:
    2003
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Continuing Grant
SGER (small grant for exploratory research): Sequencing a Pelagibacter (SAR11) genome
SGER(探索性研究小额资助):对 Pelagibacter (SAR11) 基因组进行测序
  • 批准号:
    0307223
  • 财政年份:
    2003
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
Microbial Observatories: Collaborative Research Linking Microbial Discovery to Biogeochemical Processes: An Oligotrophic Oceanic Microbial Observatory
微生物观测站:将微生物发现与生物地球化学过程联系起来的合作研究:寡营养海洋微生物观测站
  • 批准号:
    0237713
  • 财政年份:
    2003
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Continuing Grant
Coastal Bacterioplankton Systematics: A High Throughput Culturing Approach
沿海浮游细菌系统学:一种高通量培养方法
  • 批准号:
    0207085
  • 财政年份:
    2002
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant
LEXEN: Effects of Microbial Activity on Rates of Basalt Alteration
LEXEN:微生物活动对玄武岩蚀变率的影响
  • 批准号:
    0085436
  • 财政年份:
    2001
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Standard Grant

相似国自然基金

LncRNA-G8在葡萄糖饥饿应激时调控肿瘤细胞DNA损伤修复的功能和机制研究
  • 批准号:
    32000526
  • 批准年份:
    2020
  • 资助金额:
    24.0 万元
  • 项目类别:
    青年科学基金项目
CIDE家族蛋白泛素化降解的机制和功能研究
  • 批准号:
    31970707
  • 批准年份:
    2019
  • 资助金额:
    52.0 万元
  • 项目类别:
    面上项目
自噬信号调控自噬前体招募WIPI2蛋白的机制和功能
  • 批准号:
    31970694
  • 批准年份:
    2019
  • 资助金额:
    58.0 万元
  • 项目类别:
    面上项目
葡萄糖缺乏诱导的长链非编码RNA-GDLR促进肝癌细胞存活和增殖的作用及机制研究
  • 批准号:
    91957108
  • 批准年份:
    2019
  • 资助金额:
    86.0 万元
  • 项目类别:
    重大研究计划

相似海外基金

Characterization of the nutrient assimilation pathways in M. tuberculosis
结核分枝杆菌营养同化途径的特征
  • 批准号:
    10304930
  • 财政年份:
    2020
  • 资助金额:
    $ 42.39万
  • 项目类别:
Characterization of the nutrient assimilation pathways in M. tuberculosis
结核分枝杆菌营养同化途径的特征
  • 批准号:
    10507765
  • 财政年份:
    2020
  • 资助金额:
    $ 42.39万
  • 项目类别:
Integrating in-situ detection technologies and developing data assimilation strategies to improve forecast accuracy and assess climate change impacts for Microcystis blooms in Lake Erie
整合原位检测技术并制定数据同化策略,以提高预测准确性并评估气候变化对伊利湖微囊藻水华的影响
  • 批准号:
    10427317
  • 财政年份:
    2018
  • 资助金额:
    $ 42.39万
  • 项目类别:
Integrating in-situ detection technologies and developing data assimilation strategies to improve forecast accuracy and assess climate change impacts for Microcystis blooms in Lake Erie
整合原位检测技术并制定数据同化策略,以提高预测准确性并评估气候变化对伊利湖微囊藻水华的影响
  • 批准号:
    9976544
  • 财政年份:
    2018
  • 资助金额:
    $ 42.39万
  • 项目类别:
Enteroendocrine control of nutrient assimilation
营养同化的肠内分泌控制
  • 批准号:
    251944
  • 财政年份:
    2012
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Operating Grants
Urease Activity and Nitrogen Assimilation in Helicobacter pylori
幽门螺杆菌的脲酶活性和氮同化
  • 批准号:
    8062828
  • 财政年份:
    2011
  • 资助金额:
    $ 42.39万
  • 项目类别:
Urease Activity and Nitrogen Assimilation in Helicobacter pylori
幽门螺杆菌的脲酶活性和氮同化
  • 批准号:
    8367291
  • 财政年份:
    2011
  • 资助金额:
    $ 42.39万
  • 项目类别:
Regulation mechanism of nutrient assimilation and exocrine system which is achieved by the carbohydrate-recognition of pancreatic enzymes
胰酶识别碳水化合物实现营养同化和外分泌系统的调节机制
  • 批准号:
    22570111
  • 财政年份:
    2010
  • 资助金额:
    $ 42.39万
  • 项目类别:
    Grant-in-Aid for Scientific Research (C)
Sulfur Assimilation Pathway: New Antifungal Targets
硫同化途径:新的抗真菌靶点
  • 批准号:
    7849977
  • 财政年份:
    2009
  • 资助金额:
    $ 42.39万
  • 项目类别:
Sulfur Assimilation Pathway: New Antifungal Targets
硫同化途径:新的抗真菌靶点
  • 批准号:
    7596153
  • 财政年份:
    2009
  • 资助金额:
    $ 42.39万
  • 项目类别:
{{ showInfoDetail.title }}

作者:{{ showInfoDetail.author }}

知道了