'Omics from Source to Sink: Microbiome of a Stream Irrigation System and its Potential Impact

“从源头到汇的组学：溪流灌溉系统的微生物组及其潜在影响

• 批准号: 10712776
• 负责人: Mohammad Arif
• 金额: $ 18.26万
• 依托单位: UNIVERSITY OF HAWAII AT MANOA
• 依托单位国家: 美国
• 财政年份: 2018
• 资助国家: 美国
• 起止时间: 2018-08-15 至 2028-07-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10712776
• 关键词: Address; Agriculture; Agrochemicals; Amendment; Annual Reports; Antibiotic Resistance; Centers of Research Excellence; Consumption; Core Facility; Creativeness; Data; Ecology; Ecosystem; Enteral; Environment; Environmental Health; Escherichia coli; Farm; Genomic approach; Genomics; Goals; Hawaii; Hazard Identification; Health; Human; Impairment; Infection; Irrigation; Knowledge; Laboratories; Link; Location; Mentors; Metagenomics; Methods; Microbe; Mission; Modeling; Modernization; Outcome; Pattern; Plants; Play; Pollution; Proliferating; Reporting; Research; Risk; Risk Factors; Role; Salmonella enterica; Sampling; Sea; Seasons; Sequence Analysis; Shotguns; Source; Stream; Structure; Study models; System; Tissues; United States; United States National Institutes of Health; Universities; Vegetables; Water; Work; career development; contaminated water; enteric pathogen; foodborne; foodborne illness; foodborne pathogen; human pathogen; imaging facilities; improved; in vivo; innovation; microbial; microbial community; microbial composition; microbial genomics; microbiome; microbiome composition; microscopic imaging; new technology; pathogen; resistance gene; sound; success; transmission process

PROJECT SUMMARY- ‘Omics from Source to Sink: Microbiome of a Stream Irrigation System and Its Potential Impact Food-borne illnesses associated with consumption of contaminated fresh produce are widely reported in the United States. Despite the recognized importance of irrigation water, a substantial unexplored gap exists in the knowledge of microbial communities present in irrigation systems and their potential roles in pathogen transmission and infection. This proposal addresses the critical need to determine potential microbial risk factors for human and environmental health and aligns with the COBRE mission of “how environmental microbes impact human health” as it aims to use ‘omics approaches to define relationships between environmental microbiome and its potential impacts on human health. Soft rot pectinolytic bacterial plant pathogens (SRP) macerate plant tissues of vegetable crops, producing a niche for foodborne human pathogens (FBP) and enabling the latter to colonize fresh produce. Our specific aims are: (I) Determine the composition and structure of the microbiomes of stream irrigation systems by amplicon and shotgun sequence analyses, and (II) determine the role that microbes in irrigation water play in establishing niches for FBP by internalization and in vivo interspecies interactions. Application of new technologies will permit more precise identification of microbial communities and results of this study will elucidate the interactions between SRP and FBP when co-infecting a plant host. The proposed research is creative and original in its genomic approach and provides a sound model for studying associations of FBP with edible crops grown in many other locations. Knowledge generated by this research will contribute not only to understanding the general ecology of microbial communities, but more specifically to dynamics of FBP and their interactions with SRP. Our projected results are expected to have important positive impacts on improving our understanding of evaluating risk factors and help to resolve poorly understood mechanisms. This impact aligns with NIH’s mission to seek fundamental knowledge to enhance health and reduce illness.

项目摘要 - “从源头到汇的组学：溪流灌溉系统的微生物组及其 潜在影响 与食用受污染的新鲜农产品相关的食源性疾病在世界范围内被广泛报道。 尽管灌溉用水的重要性已得到公认，但在灌溉用水方面仍存在巨大的未探索的差距。 了解灌溉系统中存在的微生物群落及其在病原体中的潜在作用 该提案解决了确定潜在微生物风险的迫切需要。 人类和环境健康的因素，并与 COBRE 的使命“如何环境 微生物影响人类健康”，因为它的目标是使用“组学方法来定义微生物之间的关系” 环境微生物组及其对人类健康的潜在影响。 病原体（SRP）浸渍蔬菜作物的植物组织，为食源性人类创造了一个利基 病原体（FBP）并使后者能够在新鲜农产品中定植。我们的具体目标是：（I）确定病原体。 通过扩增子和鸟枪序列分析溪流灌溉系统微生物组的组成和结构 分析，以及 (II) 通过以下方式确定灌溉水中的微生物在建立 FBP 生态位中所发挥的作用： 新技术的应用将允许更精确的内化和体内物种间相互作用。 微生物群落的鉴定和本研究的结果将阐明 SRP 之间的相互作用 和FBP共同感染植物宿主时所提出的研究在其基因组方面具有创造性和原创性。 方法并为研究 FBP 与许多其他地区种植的食用作物的关联提供了一个合理的模型 这项研究产生的知识不仅有助于理解一般生态学。 微生物群落的研究，更具体地说是 FBP 的动态及其与 SRP 的相互作用。 预计结果将对增进我们对以下问题的理解产生重要的积极影响： 评估风险因素并帮助解决人们不太了解的机制。这种影响与 NIH 的观点一致。 使命是寻求基础知识以增强健康和减少疾病。