Collaborative Research: Expanding the diversity of iron oxidation mechanisms via genetics, microscopy and 'omics in Leptothrix
合作研究:通过遗传学、显微镜学和组学扩大细丝菌铁氧化机制的多样性
基本信息
- 批准号:2243577
- 负责人:
- 金额:$ 61.7万
- 依托单位:
- 依托单位国家:美国
- 项目类别:Continuing Grant
- 财政年份:2023
- 资助国家:美国
- 起止时间:2023-06-01 至 2026-05-31
- 项目状态:未结题
- 来源:
- 关键词:
项目摘要
Iron is practically ubiquitous across Earth, making it an important component in the chemistry of life and in the chemistry of soils, sediments, and groundwater. Iron in contact with an oxidant such as oxygen can result in iron oxidation. When iron oxidation occurs in soils, it can lead to the sequestration of nutrients and metals; thus, understanding the mechanisms and controls on iron oxidation is critical. Microorganisms can catalyze iron oxidation, yet the extent of microorganism contribution to oxidation remains relatively unknown. This project evaluates microbial iron oxidation mechanisms (genes/proteins) to help identify when, and how much, microbial iron oxidation is occurring in the environment. This project specifically uses the iron-oxidizing bacterium Leptothrix cholodnii SP-6 to explore new iron-oxidizing mechanisms. The advanced knowledge can be applied to determine controls on iron-oxidizing bacterial activity and how to harness it for bioremediation, water treatment, resource recovery, and other applications. This project trains two graduate students and numerous undergraduates. In addition to public lectures, hands-on activities, and lab tours, a major outreach activity includes "Microbes in the Wild" workshops for middle school girls and first-generation college-bound students, who learn about the power of microbes to address environmental challenges. Culturing, genetics, and 'omics research tasks are being incorporated into college classes as multi-week experiential learning units.A new genetic system in the heterotrophic iron-oxidizing bacterium Leptothrix cholodnii SP-6 provides an unprecedented opportunity to reveal new iron oxidation mechanisms. L. cholodnii SP-6 is easily culturable and its genome has numerous predicted metal oxidation genes including genes for multiheme cytochromes and multicopper oxidases with homologs in other iron oxidizers. Yet, the genome is missing well-known iron oxidase genes, making L. cholodnii SP-6 a good model organism to investigate novel iron oxidation mechanisms. This project is using a combination of culturing, comparative genomics, transcriptomics, proteomics, genetics, and microscopy to determine the iron oxidation mechanisms in Leptothrix, notably SP-6. The research aims include (1) discover candidate iron oxidation genes in L. cholodnii SP-6 via transposon sequencing (TnSeq), transcriptomics, and proteomics. A high throughput pipeline for culturing and assaying iron oxidation is being developed so that as many genes as possible can be screened. (2) Explore the environmental diversity and frequency of Leptothrix iron oxidation genes via isolation and genomic characterization of new Leptothrix spp. followed by comparative genomics study. (3) Validate iron oxidation genes in L. cholodnii SP-6 via genetic methods of knockout and complementation. (4) Determine the role of iron oxidation proteins in biomineralization by labeling and localizing key iron oxidation proteins and imaging cells and biominerals by confocal and electron microscopy. Together, these approaches will establish a larger set of iron oxidation genes/proteins while understanding how these catalyze formation of environmentally important iron oxyhydroxide biominerals.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.
铁在地球上几乎无处不在,使其成为生命化学以及土壤、沉积物和地下水化学的重要组成部分。铁与氧化剂(例如氧气)接触会导致铁氧化。当土壤中发生铁氧化时,会导致养分和金属的固存;因此,了解铁氧化的机制和控制至关重要。微生物可以催化铁氧化,但微生物对氧化的贡献程度仍然相对未知。该项目评估微生物铁氧化机制(基因/蛋白质),以帮助确定环境中微生物铁氧化发生的时间和程度。该项目具体利用铁氧化细菌Leptothrix cholodnii SP-6来探索新的铁氧化机制。先进的知识可用于确定对铁氧化细菌活性的控制以及如何将其用于生物修复、水处理、资源回收和其他应用。该项目培养了两名研究生和众多本科生。除了公开讲座、实践活动和实验室参观之外,一项主要的外展活动还包括为中学生和第一代即将上大学的学生举办“野生微生物”讲习班,让他们了解微生物在解决环境问题方面的力量。挑战。培养、遗传学和组学研究任务正在被纳入大学课程,作为为期数周的体验式学习单元。异养铁氧化细菌 Leptothrix cholodnii SP-6 中的新遗传系统为揭示新的铁氧化机制提供了前所未有的机会。 L. cholodnii SP-6 易于培养,其基因组具有许多预测的金属氧化基因,包括多血红素细胞色素和多铜氧化酶(与其他铁氧化剂中的同源物)的基因。然而,该基因组缺少众所周知的铁氧化酶基因,这使得 L. cholodnii SP-6 成为研究新型铁氧化机制的良好模型生物。该项目结合培养、比较基因组学、转录组学、蛋白质组学、遗传学和显微镜技术来确定细丝菌(尤其是 SP-6)的铁氧化机制。研究目标包括(1)通过转座子测序(TnSeq)、转录组学和蛋白质组学发现 L. cholodnii SP-6 中的候选铁氧化基因。正在开发用于培养和测定铁氧化的高通量管道,以便可以筛选尽可能多的基因。 (2)通过新细丝菌属的分离和基因组表征,探索细丝菌铁氧化基因的环境多样性和频率。其次是比较基因组学研究。 (3)通过敲除和互补的遗传方法验证L. cholodnii SP-6中的铁氧化基因。 (4) 通过标记和定位关键的铁氧化蛋白以及通过共聚焦和电子显微镜对细胞和生物矿物质进行成像来确定铁氧化蛋白在生物矿化中的作用。这些方法将共同建立一组更大的铁氧化基因/蛋白质,同时了解这些基因/蛋白质如何催化对环境重要的羟基氧化铁生物矿物质的形成。该奖项反映了 NSF 的法定使命,并通过使用基金会的智力价值和更广泛的评估进行评估,被认为值得支持。影响审查标准。
项目成果
期刊论文数量(0)
专著数量(0)
科研奖励数量(0)
会议论文数量(0)
专利数量(0)
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Clara Chan其他文献
Relationship Between Fasting Plasma Glucagon Level and Renal Function—A Cross-Sectional Study in Individuals With Type 2 Diabetes
空腹血浆胰高血糖素水平与肾功能之间的关系——2 型糖尿病患者的横断面研究
- DOI:
- 发表时间:
2018 - 期刊:
- 影响因子:4.1
- 作者:
Jian;Sylvia Liu;R. L. Gurung;Clara Chan;K. Ang;W. Tang;S. Tavintharan;C. Sum;S. Lim - 通讯作者:
S. Lim
Association of haptoglobin phenotype with incident acute myocardial infarction in Chinese patients with type 2 diabetes
中国2型糖尿病患者触珠蛋白表型与急性心肌梗死的相关性
- DOI:
10.1186/s12933-019-0867-4 - 发表时间:
2019-05-30 - 期刊:
- 影响因子:9.3
- 作者:
R. L. Gurung;M. Yiamunaa;Sylvia Liu;Jianjun Liu;Clara Chan;R. Choo;K. Ang;C. Sum;S. Tavintharan;S. Lim;S. Lim - 通讯作者:
S. Lim
Incident heart failure and the subsequent risk of progression to end stage kidney disease in individuals with type 2 diabetes
2 型糖尿病患者发生心力衰竭以及随后进展为终末期肾病的风险
- DOI:
- 发表时间:
2024 - 期刊:
- 影响因子:9.3
- 作者:
Sylvia Liu;Jian;K. Ang;Janus Lee;Clara Chan;R. L. Gurung;Huili Zheng;Justin Tang;Su Chi Lim - 通讯作者:
Su Chi Lim
Association of plasma angiogenin with risk of major cardiovascular events in type 2 diabetes
血浆血管生成素与 2 型糖尿病主要心血管事件风险的关系
- DOI:
10.1186/s12933-024-02156-8 - 发表时间:
2024-02-15 - 期刊:
- 影响因子:9.3
- 作者:
R. L. Gurung;Sylvia Liu;Jian;Y. M.;Huili Zheng;Clara Chan;K. Ang;T. Subramaniam - 通讯作者:
T. Subramaniam
Trends and Clinical Outcomes of Fungal Keratitis in Canada: a 20-year Retrospective Multicentre Study.
加拿大真菌性角膜炎的趋势和临床结果:20 年回顾性多中心研究。
- DOI:
10.1016/j.ajo.2024.04.009 - 发表时间:
2024-04-01 - 期刊:
- 影响因子:4.2
- 作者:
Jennifer YM Ling;S. Yeung;Clara Chan;Tanya Trinh;F. Antaki;Mona Harissi;N. Sivach;ran;ran;Mark Fava;Marie;A. Iovieno - 通讯作者:
A. Iovieno
Clara Chan的其他文献
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{{ truncateString('Clara Chan', 18)}}的其他基金
Conference: 2024 Geobiology GRC/GRS
会议:2024 年地球生物学 GRC/GRS
- 批准号:
2347291 - 财政年份:2023
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Developing a functional marker gene for Fe oxidation
开发铁氧化功能标记基因
- 批准号:
1833525 - 财政年份:2018
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Collaborative Research: Unravelling mechanisms of Fe oxidation using syntheic biology and biochemistry
合作研究:利用合成生物学和生物化学揭示铁氧化机制
- 批准号:
1817651 - 财政年份:2018
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Developing a functional marker gene for Fe oxidation
开发铁氧化功能标记基因
- 批准号:
1833525 - 财政年份:2018
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Collaborative Research: Genome-enabled Investigation of S(0) Cycling in a Subterranean Microbial Ecosystem
合作研究:地下微生物生态系统中 S(0) 循环的基因组研究
- 批准号:
1251918 - 财政年份:2013
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
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 - 财政年份:2012
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
CAREER: Rusting the Earth: the mechanisms and mineralogy of microbial Fe oxidation
职业:让地球生锈:微生物铁氧化的机制和矿物学
- 批准号:
1151682 - 财政年份:2012
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Combinatorics of Convex Polytopes/Teaching with Technology
凸多面体组合学/技术教学
- 批准号:
9796030 - 财政年份:1996
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Combinatorics of Convex Polytopes/Teaching with Technology
凸多面体组合学/技术教学
- 批准号:
9502455 - 财政年份:1995
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
Mathematical Sciences: Combinatorics of Convex Polytopes
数学科学:凸多面体的组合
- 批准号:
9410679 - 财政年份:1994
- 资助金额:
$ 61.7万 - 项目类别:
Standard Grant
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