NMR-based metabolomics strategies: plants, animals and humans

Pontes, João G. M.; Brasil, Antonio Jadson Marreiro; Cruz, Guilherme; Souza, Rafael Nogueira de; Tasić, Ljubica

doi:10.1039/c6ay03102a

Cited by 60 publications

(44 citation statements)

References 180 publications

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“…The method and consistency of collection and storage of samples are of paramount importance, as handling samples in systematically equal ways can overcome errors and avoid results with biased outcomes. It is also important to compare the cancer samples with at least one group that represents a different condition, in general the normal one, denominated healthy control group, and gender and age similarities among groups must be corrected, even in the case of pediatric patients [70]. Different pathological conditions can be also compared, such as primary and metastatic tumors, searching for dissimilarities or specific signatures.…”

Section: Discussionmentioning

confidence: 99%

Insights into the Chemical Biology of Childhood Embryonal Solid Tumors by NMR-Based Metabolomics

et al. 2019

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Most childhood cancers occur as isolated cases and show very different biological behavior when compared with cancers in adults. There are some solid tumors that occur almost exclusively in children among which stand out the embryonal solid tumors. These cancers main types are neuroblastoma, nephroblastoma (Wilms tumors), retinoblastoma and hepatoblastomas and tumors of the central nervous system (CNS). Embryonal solid tumors represent a heterogeneous group of cancers supposedly derived from undifferentiated cells, with histological features that resemble tissues of origin during embryogenesis. This key observation suggests that tumorigenesis might begin during early fetal or child life due to the errors in growth or pathways differentiation. There are not many literature data on genomic, transcriptomic, epigenetic, proteomic, or metabolomic differences in these types of cancers when compared to the omics- used in adult cancer research. Still, metabolomics by nuclear magnetic resonance (NMR) in childhood embryonal solid tumors research can contribute greatly to understand better metabolic pathways alterations and biology of the embryonal solid tumors and potential to be used in clinical applications. Different types of samples, such as tissues, cells, biofluids, mostly blood plasma and serum, can be analyzed by NMR to detect and identify cancer metabolic signatures and validated biomarkers using enlarged group of samples. The literature search for biomarkers points to around 20–30 compounds that could be associated with pediatric cancer as well as metastasis.

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Section: Discussionmentioning

confidence: 99%

Insights into the Chemical Biology of Childhood Embryonal Solid Tumors by NMR-Based Metabolomics

et al. 2019

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“…Die Mehrzahl der Metabolom‐Untersuchungen befasst sich zwar mit Menschen und menschlicher Gesundheit und Erkrankungen, doch gibt es auch Anwendungen bei Tieren, Pflanzen und Mikroorganismen und daher auch Einflüsse auf andere wichtige Bereiche wie Landwirtschaft, Nahrungsmittelproduktion und Umwelt . Entsprechend viele Übersichtsartikel beschreiben die Metabolomik aus unterschiedlichsten Blickwinkeln .…”

Section: Was Versteht Man Unter Metabolomik?unclassified

Hochdurchsatz‐Metabolomik mit 1D‐NMR

et al. 2018

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Metabolomik befasst sich mit der Gesamtheit aller Metabolite, dem Metabolom. Als eine der “Omics”‐Wissenschaften hat sie Querbeziehungen zur Biologie, Physiologie, Pathologie und Medizin; andererseits sind Metabolite chemische Verbindungen, kleine organische Moleküle oder anorganische Ionen. Ihre korrekte Identifizierung und Quantifizierung in komplexen biologischen Matrizen erfordert daher eine solide chemische Grundlage. Im Vergleich beispielsweise zu DNA unterliegen Metabolite sehr viel stärker der Oxidation oder dem enzymatischen Abbau: Wir können große Teile eines Mammut‐Genoms aus einer kleinen Probe rekonstruieren, sind aber nicht in der Lage, dasselbe mit seinem Metabolom zu tun, das innerhalb weniger Stunden nach dem Tod des Tieres wahrscheinlich weitgehend abgebaut war. Erforderlich sind daher Standardverfahren, gute chemische Fertigkeiten der Probenvorbereitung für die Lagerung und anschließende Analyse, genaue analytische Protokolle, eine umfangreiche Kenntnis der Chemometrie, erweiterte statistische Verfahren und fundiertes Wissen über mindestens eine der beiden Metabolomik‐typischen Verfahren, MS oder NMR. All diese Fertigkeiten besitzen traditionell die Chemiker. Entsprechend betrachten wir die Metabolomik aus chemischer Perspektive und beschränken uns auf NMR. Der Analytiker findet Argumente für und gegen NMR, jedoch bietet das Verfahren eine besondere ganzheitliche Perspektive, die für künftige Anwendungen als eine bevölkerungsweite Screeningtechnik für Reihenuntersuchungen sprechen.

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“…Sample preparation is an essential component in metabolomics [1,2]. It requires dedication in designing protocols for precise and reliable acquisition of data with the appropriate analytical platform (i.e., gas (GC) [3] or liquid (LC) chromatography [4], mass spectrometry (MS) [5,6] and nuclear magnetic resonance (NMR) [7,8]). In any case, incorporating a convenient and reliable strategy is of underlying importance for avoiding any metabolic loss, for ensuring reproducibility and for the valid biological interpretation of the data [9,10].…”

Section: Introductionmentioning

confidence: 99%

General Guidelines for Sample Preparation Strategies in HR-µMAS NMR-based Metabolomics of Microscopic Specimens

et al. 2020

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The study of the metabolome within tissues, organisms, cells or biofluids can be carried out by several bioanalytical techniques. Among them, nuclear magnetic resonance (NMR) is one of the principal spectroscopic methods. This is due to a sample rotation technique, high-resolution magic angle spinning (HR-MAS), which targets the analysis of heterogeneous specimens with a bulk sample mass from 5 to 10 mg. Recently, a new approach, high-resolution micro-magic angle spinning (HR-μMAS), has been introduced. It opens, for the first time, the possibility of investigating microscopic specimens (<500 μg) with NMR spectroscopy, strengthening the concept of homogeneous sampling in a heterogeneous specimen. As in all bioanalytical approaches, a clean and reliable sample preparation strategy is a significant component in designing metabolomics (or -omics, in general) studies. The sample preparation for HR-μMAS is consequentially complicated by the μg-scale specimen and has yet to be addressed. This report details the strategies for three specimen types: biofluids, fluid matrices and tissues. It also provides the basis for designing future μMAS NMR studies of microscopic specimens.

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NMR-based metabolomics strategies: plants, animals and humans

Abstract: This Tutorial Review addresses the principal steps from the sample preparation, acquisition and processing of spectra, data analysis and biomarker discovery and methodologies used in NMR-based metabolomics applied for pointing to key metabolites of diseases.

Cited by 60 publications

References 180 publications

Insights into the Chemical Biology of Childhood Embryonal Solid Tumors by NMR-Based Metabolomics

Insights into the Chemical Biology of Childhood Embryonal Solid Tumors by NMR-Based Metabolomics

Hochdurchsatz‐Metabolomik mit 1D‐NMR

General Guidelines for Sample Preparation Strategies in HR-µMAS NMR-based Metabolomics of Microscopic Specimens

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