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鉴定生命暗物质的挑战。

Challenges in Identifying the Dark Molecules of Life.

机构信息

Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), C1425FQD, Ciudad de Buenos Aires, Argentina.

Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695, USA.

出版信息

Annu Rev Anal Chem (Palo Alto Calif). 2019 Jun 12;12(1):177-199. doi: 10.1146/annurev-anchem-061318-114959. Epub 2019 Mar 18.

DOI:10.1146/annurev-anchem-061318-114959
PMID:30883183
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6716371/
Abstract

Metabolomics is the study of the metabolome, the collection of small molecules in living organisms, cells, tissues, and biofluids. Technological advances in mass spectrometry, liquid- and gas-phase separations, nuclear magnetic resonance spectroscopy, and big data analytics have now made it possible to study metabolism at an omics or systems level. The significance of this burgeoning scientific field cannot be overstated: It impacts disciplines ranging from biomedicine to plant science. Despite these advances, the central bottleneck in metabolomics remains the identification of key metabolites that play a class-discriminant role. Because metabolites do not follow a molecular alphabet as proteins and nucleic acids do, their identification is much more time consuming, with a high failure rate. In this review, we critically discuss the state-of-the-art in metabolite identification with specific applications in metabolomics and how technologies such as mass spectrometry, ion mobility, chromatography, and nuclear magnetic resonance currently contribute to this challenging task.

摘要

代谢组学是研究代谢组的学科,即生物体、细胞、组织和生物体液中小分子的集合。质谱、液-气相分离、核磁共振波谱和大数据分析等技术的进步,使得现在可以在组学或系统水平上研究代谢。这个新兴科学领域的意义怎么强调都不为过:它影响了从生物医学到植物科学等多个学科。尽管有了这些进步,但代谢组学的核心瓶颈仍然是确定起分类判别作用的关键代谢物。由于代谢物不像蛋白质和核酸那样遵循分子字母表,因此它们的鉴定耗时更长,失败率更高。在这篇综述中,我们批判性地讨论了代谢物鉴定的最新技术进展,以及质谱、离子淌度、色谱和核磁共振等技术如何为这一具有挑战性的任务做出贡献。

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本文引用的文献

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A Transferable, Sample-Independent Calibration Procedure for Trapped Ion Mobility Spectrometry (TIMS).一种可转移、样本独立的离子淌度质谱(TIMs)校准程序。
Anal Chem. 2018 Aug 7;90(15):9040-9047. doi: 10.1021/acs.analchem.8b01326. Epub 2018 Jul 18.
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Comprehensive Tandem-Mass-Spectrometry Coverage of Complex Samples Enabled by Data-Set-Dependent Acquisition.通过基于数据集的采集实现复杂样本的全面串联质谱覆盖。
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Software Tools and Approaches for Compound Identification of LC-MS/MS Data in Metabolomics.
系统预注释解释了液相色谱-质谱联用代谢组学中的“暗物质”。
bioRxiv. 2025 Mar 25:2025.02.04.636472. doi: 10.1101/2025.02.04.636472.
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Lethal metabolism of Candida albicans respiratory mutants.白色念珠菌呼吸突变体的致死代谢。
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MSdeCIpher: A Tool to Link Data from Complementary Ionization Techniques in High-Resolution GC-MS to Identify Molecular Ions.MSdeCIpher:一种将高分辨率气相色谱-质谱联用中互补电离技术的数据相链接以识别分子离子的工具。
Metabolites. 2023 Dec 22;14(1):10. doi: 10.3390/metabo14010010.
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Computational Expansion of High-Resolution-MS Spectral Libraries.高分辨率-MS 谱库的计算扩展。
Anal Chem. 2023 Nov 28;95(47):17284-17291. doi: 10.1021/acs.analchem.3c03343. Epub 2023 Nov 14.
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Assessing How Chemical Exposures Affect Human Health.评估化学物质暴露如何影响人类健康。
LC GC Eur. 2023 Jun;36(Suppl):7-10.
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Spatial metabolomics in head and neck tumors: a review.头颈部肿瘤中的空间代谢组学:综述
Front Oncol. 2023 Jul 13;13:1213273. doi: 10.3389/fonc.2023.1213273. eCollection 2023.
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Model-driven data curation pipeline for LC-MS-based untargeted metabolomics.基于 LC-MS 的非靶向代谢组学的模型驱动的数据管理流程。
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代谢组学中用于液相色谱-串联质谱数据化合物鉴定的软件工具与方法
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The role of the Human Metabolome Database in inborn errors of metabolism.人代谢组数据库在先天性代谢缺陷中的作用。
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J Chem Inf Model. 2018 Mar 26;58(3):591-604. doi: 10.1021/acs.jcim.7b00496. Epub 2018 Mar 6.
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METLIN: A Technology Platform for Identifying Knowns and Unknowns.METLIN:一种用于鉴定已知物和未知物的技术平台。
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