1
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Venter P. The effects of modifiers on electrospray ionization for small-to-medium-sized molecules in comparison with solution-phase ionization. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2024; 38:e9749. [PMID: 38634146 DOI: 10.1002/rcm.9749] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Revised: 03/20/2024] [Accepted: 03/21/2024] [Indexed: 04/19/2024]
Abstract
Modifiers are essential additives in electrospray ionization (ESI) mass spectrometric analysis to enhance the production of ionic species in the gas phase for the detection of small-to-medium-sized molecules in biological and aqueous samples. Therefore, an appropriate modifier, in conjunction with the right ionization polarity, is crucial for sensitive ESI mass spectrometric analysis. However, the charge carried by basic and acidic functional groups in solution is neither quantitatively nor qualitatively reflected in the MS spectrum. For example, adding an acidic modifier will cause sufficient protonation of a basic functional group in solution; however, this may result in inferior positive ESI compared to using a basic modifier. Another example is when the MS spectrum does not reflect the charge distribution of multiply charged molecules in solution. Therefore, this review will summarize and discuss the proposed mechanisms by which modifiers induce and influence ESI. It will also cover molecular characteristics that affect ESI, such as charge state and polarity, which result in a difference between solution-phase ionization and ESI.
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Affiliation(s)
- Pieter Venter
- Biomedical Research and Innovation Platform, South African Medical Research Council, Tygerberg, South Africa
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2
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Haider A, Iqbal SZ, Bhatti IA, Alim MB, Waseem M, Iqbal M, Mousavi Khaneghah A. Food authentication, current issues, analytical techniques, and future challenges: A comprehensive review. Compr Rev Food Sci Food Saf 2024; 23:e13360. [PMID: 38741454 DOI: 10.1111/1541-4337.13360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2024] [Revised: 03/29/2024] [Accepted: 04/16/2024] [Indexed: 05/16/2024]
Abstract
Food authentication and contamination are significant concerns, especially for consumers with unique nutritional, cultural, lifestyle, and religious needs. Food authenticity involves identifying food contamination for many purposes, such as adherence to religious beliefs, safeguarding health, and consuming sanitary and organic food products. This review article examines the issues related to food authentication and food fraud in recent periods. Furthermore, the development and innovations in analytical techniques employed to authenticate various food products are comprehensively focused. Food products derived from animals are susceptible to deceptive practices, which can undermine customer confidence and pose potential health hazards due to the transmission of diseases from animals to humans. Therefore, it is necessary to employ suitable and robust analytical techniques for complex and high-risk animal-derived goods, in which molecular biomarker-based (genomics, proteomics, and metabolomics) techniques are covered. Various analytical methods have been employed to ascertain the geographical provenance of food items that exhibit rapid response times, low cost, nondestructiveness, and condensability.
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Affiliation(s)
- Ali Haider
- Food Safety and Toxicology Lab, Department of Applied Chemistry, Government College University, Faisalabad, Punjab, Pakistan
| | - Shahzad Zafar Iqbal
- Food Safety and Toxicology Lab, Department of Applied Chemistry, Government College University, Faisalabad, Punjab, Pakistan
| | - Ijaz Ahmad Bhatti
- Department of Chemistry, University of Agriculture, Faisalabad, Pakistan
| | | | - Muhammad Waseem
- Food Safety and Toxicology Lab, Department of Applied Chemistry, Government College University, Faisalabad, Punjab, Pakistan
| | - Munawar Iqbal
- Department of Chemistry, Division of Science and Technology, University of Education, Lahore, Pakistan
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3
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Li X, Li C, Chen Z, Wang J, Sun J, Yao J, Chen K, Li Z, Ye H. High-resolution mass spectrometry-based non-targeted metabolomics reveals toxicity of naphthalene on tall fescue and intrinsic molecular mechanisms. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2024; 271:115975. [PMID: 38244514 DOI: 10.1016/j.ecoenv.2024.115975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 01/08/2024] [Accepted: 01/10/2024] [Indexed: 01/22/2024]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are ubiquitous at relatively high concentrations by atmospheric deposition, and they are threatening to the environment. In this study, the toxicity of naphthalene on tall fescue and its potential responding mechanism was first studied by integrating approaches. Tall fescue seedlings were exposed to 0, 20, and 100 mg L-1 naphthalene in a hydroponic environment for 9 days, and toxic effects were observed by the studies of general physiological studies, chlorophyll fluorescence, and root morphology. Additionally, Ultra Performance Liquid Chromatography - Electrospray Ionization - High-Resolution Mass Spectrometry (UPLC-ESI-HRMS) was used to depict metabolic profiles of tall fescue under different exposure durations of naphthalene, and the intrinsic molecular mechanism of tall fescue resistance to abiotic stresses. Tall fescue shoots were more sensitive to the toxicity of naphthalene than roots. Low-level exposure to naphthalene inhibited the electron transport from the oxygen-evolving complex (OEC) to D1 protein in tall fescue shoots but induced the growth of roots. Naphthalene induced metabolic change of tall fescue roots in 12 h, and tall fescue roots maintained the level of sphingolipids after long-term exposure to naphthalene, which may play important roles in plant resistance to abiotic stresses.
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Affiliation(s)
- Xuecheng Li
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China; College of Pharmacy, South-Central Minzu University, Wuhan 430074, PR China
| | - Changyi Li
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China
| | - Ziyu Chen
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China; College of Pharmacy, South-Central Minzu University, Wuhan 430074, PR China
| | - Jiahui Wang
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China
| | - Jie Sun
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China
| | - Jun Yao
- School of Water Resources & Environment, China University of Geosciences Beijing, Beijing, PR China
| | - Ke Chen
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China.
| | - Zhenghui Li
- College of Pharmacy, South-Central Minzu University, Wuhan 430074, PR China.
| | - Hengpeng Ye
- Key Laboratory of Resources Conversion and Pollution Control of the State Ethnic Affairs Commission, College of Resources and Environmental Science, South-Central Minzu University, Wuhan 430074, PR China.
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Cajka T, Hricko J, Rudl Kulhava L, Paucova M, Novakova M, Fiehn O, Kuda O. Exploring the Impact of Organic Solvent Quality and Unusual Adduct Formation during LC-MS-Based Lipidomic Profiling. Metabolites 2023; 13:966. [PMID: 37755246 PMCID: PMC10536874 DOI: 10.3390/metabo13090966] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 08/19/2023] [Accepted: 08/21/2023] [Indexed: 09/28/2023] Open
Abstract
Liquid chromatography-mass spectrometry (LC-MS) is the key technique for analyzing complex lipids in biological samples. Various LC-MS modes are used for lipid separation, including different stationary phases, mobile-phase solvents, and modifiers. Quality control in lipidomics analysis is crucial to ensuring the generated data's reliability, reproducibility, and accuracy. While several quality control measures are commonly discussed, the impact of organic solvent quality during LC-MS analysis is often overlooked. Additionally, the annotation of complex lipids remains prone to biases, leading to potential misidentifications and incomplete characterization of lipid species. In this study, we investigate how LC-MS-grade isopropanol from different vendors may influence the quality of the mobile phase used in LC-MS-based untargeted lipidomic profiling of biological samples. Furthermore, we report the occurrence of an unusual, yet highly abundant, ethylamine adduct [M+46.0651]+ that may form for specific lipid subclasses during LC-MS analysis in positive electrospray ionization mode when acetonitrile is part of the mobile phase, potentially leading to lipid misidentification. These findings emphasize the importance of considering solvent quality in LC-MS analysis and highlight challenges in lipid annotation.
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Affiliation(s)
- Tomas Cajka
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
| | - Jiri Hricko
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
| | - Lucie Rudl Kulhava
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
| | - Michaela Paucova
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
| | - Michaela Novakova
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
| | - Oliver Fiehn
- West Coast Metabolomics Center, University of California Davis, 451 Health Sciences Drive, Davis, CA 95616, USA;
| | - Ondrej Kuda
- Institute of Physiology of the Czech Academy of Sciences, Videnska 1083, 14200 Prague, Czech Republic; (J.H.); (L.R.K.); (M.P.); (M.N.); (O.K.)
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5
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Cajka T, Hricko J, Rudl Kulhava L, Paucova M, Novakova M, Kuda O. Optimization of Mobile Phase Modifiers for Fast LC-MS-Based Untargeted Metabolomics and Lipidomics. Int J Mol Sci 2023; 24:ijms24031987. [PMID: 36768308 PMCID: PMC9916776 DOI: 10.3390/ijms24031987] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2022] [Revised: 01/13/2023] [Accepted: 01/18/2023] [Indexed: 01/21/2023] Open
Abstract
Liquid chromatography-mass spectrometry (LC-MS) is the method of choice for the untargeted profiling of biological samples. A multiplatform LC-MS-based approach is needed to screen polar metabolites and lipids comprehensively. Different mobile phase modifiers were tested to improve the electrospray ionization process during metabolomic and lipidomic profiling. For polar metabolites, hydrophilic interaction LC using a mobile phase with 10 mM ammonium formate/0.125% formic acid provided the best performance for amino acids, biogenic amines, sugars, nucleotides, acylcarnitines, and sugar phosphate, while reversed-phase LC (RPLC) with 0.1% formic acid outperformed for organic acids. For lipids, RPLC using a mobile phase with 10 mM ammonium formate or 10 mM ammonium formate with 0.1% formic acid permitted the high signal intensity of various lipid classes ionized in ESI(+) and robust retention times. For ESI(-), the mobile phase with 10 mM ammonium acetate with 0.1% acetic acid represented a reasonable compromise regarding the signal intensity of the detected lipids and the stability of retention times compared to 10 mM ammonium acetate alone or 0.02% acetic acid. Collectively, we show that untargeted methods should be evaluated not only on the total number of features but also based on common metabolites detected by a specific platform along with the long-term stability of retention times.
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6
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Improving liquid chromatography-mass spectrometry sensitivity for characterization of lignin oligomers and phenolic compounds using acetic acid as a mobile phase additive. J Chromatogr A 2022; 1685:463598. [DOI: 10.1016/j.chroma.2022.463598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Revised: 10/13/2022] [Accepted: 10/21/2022] [Indexed: 11/27/2022]
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7
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The use of ecological analytical tools as an unconventional approach for untargeted metabolomics data analysis: the case of Cecropia obtusifolia and its adaptive responses to nitrate starvation. Funct Integr Genomics 2022; 22:1467-1493. [PMID: 36199002 DOI: 10.1007/s10142-022-00904-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Revised: 09/16/2022] [Accepted: 09/19/2022] [Indexed: 11/04/2022]
Abstract
Plant metabolomics studies haves revealed new bioactive compounds. However, like other omics disciplines, the generated data are not fully exploited, mainly because the commonly performed analyses focus on elucidating the presence/absence of distinctive metabolites (and/or their precursors) and not on providing a holistic view of metabolomic changes and their participation in organismal adaptation to biotic and abiotic stress conditions. Therefore, spectral libraries generated from Cecropia obtusifolia cell suspension cultures in a previous study were considered as a case study and were reanalyzed herein. These libraries were obtained from a time-course experiment under nitrate starvation conditions using both electrospray ionization modes. The applied methodology included the use of ecological analytical tools in a systematic four-step process, including a population analysis of metabolite α diversity, richness, and evenness (i); a chemometrics analysis to identify discriminant groups (ii); differential metabolic marker identification (iii); and enrichment analyses and annotation of active metabolic pathways enriched by differential metabolites (iv). Our species α diversity results referring to the diversity of metabolites represented by mass-to-charge ratio (m/z) values detected at a specific retention time (rt) (an uncommon way to analyze untargeted metabolomic data) suggest that the metabolome is dynamic and is modulated by abiotic stress. A total of 147 and 371 m/z_rt pairs was identified as differential markers responsive to nitrate starvation in ESI- and ESI+ modes, respectively. Subsequent enrichment analysis showed a high degree of completeness of biosynthetic pathways such as those of brassinosteroids, flavonoids, and phenylpropanoids.
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8
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Fakouri Baygi S, Kumar Y, Barupal DK. IDSL.IPA Characterizes the Organic Chemical Space in Untargeted LC/HRMS Data Sets. J Proteome Res 2022; 21:1485-1494. [PMID: 35579321 DOI: 10.1021/acs.jproteome.2c00120] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Generating comprehensive and high-fidelity metabolomics data matrices from LC/HRMS data remains to be extremely challenging for population-scale large studies (n > 200). Here, we present a new data processing pipeline, the Intrinsic Peak Analysis (IDSL.IPA) R package (https://ipa.idsl.me), to generate such data matrices specifically for organic compounds. The IDSL.IPA pipeline incorporates (1) identifying potential 12C and 13C ion pairs in individual mass spectra; (2) detecting and characterizing chromatographic peaks using a new sensitive and versatile approach to perform mass correction, peak smoothing, baseline development for local noise measurement, and peak quality determination; (3) correcting retention time and cross-referencing peaks from multiple samples by a dynamic retention index marker approach; (4) annotating peaks using a reference database of m/z and retention time; and (5) accelerating data processing using a parallel computation of the peak detection and alignment steps for larger studies. This pipeline has been successfully evaluated for studies ranging from 200 to 1600 samples. By specifically isolating high quality and reliable signals pertaining to carbon-containing compounds in untargeted LC/HRMS data sets from larger studies, IDSL.IPA opens new opportunities for discovering new biological insights in the population-scale metabolomics and exposomics projects. The package is available in the R CRAN repository at https://cran.r-project.org/package=IDSL.IPA.
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Affiliation(s)
- Sadjad Fakouri Baygi
- Department of Environmental Medicine and Public Health, Icahn School of Medicine at Mount Sinai, New York, New York 10029, United States
| | - Yashwant Kumar
- Non-communicable Diseases Division, Translational Health Science and Technology Institute, Faridabad, Haryana 121001, India
| | - Dinesh Kumar Barupal
- Department of Environmental Medicine and Public Health, Icahn School of Medicine at Mount Sinai, New York, New York 10029, United States
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9
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Mannochio-Russo H, de Almeida RF, Nunes WDG, Bueno PCP, Caraballo-Rodríguez AM, Bauermeister A, Dorrestein PC, Bolzani VS. Untargeted Metabolomics Sheds Light on the Diversity of Major Classes of Secondary Metabolites in the Malpighiaceae Botanical Family. FRONTIERS IN PLANT SCIENCE 2022; 13:854842. [PMID: 35498703 PMCID: PMC9047359 DOI: 10.3389/fpls.2022.854842] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Accepted: 03/23/2022] [Indexed: 06/14/2023]
Abstract
Natural products produced by plants are one of the most investigated natural sources, which substantially contributed to the development of the natural products field. Even though these compounds are widely explored, the literature still lacks comprehensive investigations aiming to explore the evolution of secondary metabolites produced by plants, especially if classical methodologies are employed. The development of sensitive hyphenated techniques and computational tools for data processing has enabled the study of large datasets, being valuable assets for chemosystematic studies. Here, we describe a strategy for chemotaxonomic investigations using the Malpighiaceae botanical family as a model. Our workflow was based on MS/MS untargeted metabolomics, spectral searches, and recently described in silico classification tools, which were mapped into the latest molecular phylogeny accepted for this family. The metabolomic analysis revealed that different ionization modes and extraction protocols significantly impacted the chemical profiles, influencing the chemotaxonomic results. Spectral searches within public databases revealed several clades or genera-specific molecular families, being potential chemical markers for these taxa, while the in silico classification tools were able to expand the Malpighiaceae chemical space. The classes putatively annotated were used for ancestral character reconstructions, which recovered several classes of metabolites as homoplasies (i.e., non-exclusive) or synapomorphies (i.e., exclusive) for all sampled clades and genera. Our workflow combines several approaches to perform a comprehensive evolutionary chemical study. We expect it to be used on further chemotaxonomic investigations to expand chemical knowledge and reveal biological insights for compounds classes in different biological groups.
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Affiliation(s)
- Helena Mannochio-Russo
- NuBBE, Department of Biochemistry and Organic Chemistry, Institute of Chemistry, São Paulo State University (UNESP), Araraquara, Brazil
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, San Diego, CA, United States
| | - Rafael F. de Almeida
- Royal Botanical Gardens Kew, Science, Ecosystem Stewardship, Diversity and Livelihoods, Richmond, United Kingdom
- Department of Biological Sciences, Lamol Lab, Feira de Santana State University (UEFS), Feira de Santana, Brazil
| | - Wilhan D. G. Nunes
- Federal Institute of Education, Science and Technology of Rondônia (IFRO), Ji-Paraná, Brazil
| | - Paula C. P. Bueno
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
- Institute of Chemistry, Federal University of Alfenas (UNIFAL), Alfenas, Brazil
| | - Andrés M. Caraballo-Rodríguez
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, San Diego, CA, United States
| | - Anelize Bauermeister
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, San Diego, CA, United States
| | - Pieter C. Dorrestein
- Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, San Diego, CA, United States
| | - Vanderlan S. Bolzani
- NuBBE, Department of Biochemistry and Organic Chemistry, Institute of Chemistry, São Paulo State University (UNESP), Araraquara, Brazil
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10
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Creydt M, Lautner S, Fromm J, Fischer M. Wood profiling by non-targeted liquid chromatography high-resolution mass spectrometry: Part 2, Detection of the geographical origin of spruce wood (Picea abies) by determination of metabolite pattern. J Chromatogr A 2021; 1663:462737. [PMID: 34968956 DOI: 10.1016/j.chroma.2021.462737] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Revised: 12/02/2021] [Accepted: 12/04/2021] [Indexed: 10/19/2022]
Abstract
A non-targeted metabolomics-based approach using liquid chromatography high-resolution mass spectrometry was used to authenticate spruce wood (Picea abies) from two geographic source areas. The two sample sites were located in Germany and only 250 km apart. In order to achieve the highest possible metabolite coverage, the spruces samples were measured with four different methods using liquid chromatography high-resolution mass spectrometry. In this way, a total of approximately 4,100 features were detected, which included non-polar, polar, and intermediate-polar metabolites. Using supervised multivariate methods, a distinction between the two sample groups could be achieved on the basis of non-polar data sets. The major metabolites contributing to differentiation were identified by MS/MS experiments and were from the following classes of compounds: ceramides, fatty acids, glycerolipids, and phytosterols. Based on the soil descriptions of the two sites, it was concluded that there is probably a close relationship between nutrient availability and the differences in concentration of the marker compounds. The results show that a metabolomics-based approach is also suitable for differentiation of origin, even if the sample sites are close to each other.
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Affiliation(s)
- Marina Creydt
- Hamburg School of Food Science - Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146 Hamburg, Germany; Cluster of Excellence, Understanding Written Artefacts, University of Hamburg, Warburgstraße 26, 20354 Hamburg, Germany.
| | - Silke Lautner
- Applied Wood Biology, Faculty of Wood Science and Technology, Eberswalde University for Sustainable Development, Schicklerstrasse 5, 16225 Eberswalde, Germany
| | - Jörg Fromm
- Cluster of Excellence, Understanding Written Artefacts, University of Hamburg, Warburgstraße 26, 20354 Hamburg, Germany; Institute of Wood Science, Research Unit Wood Biology, University of Hamburg, Leuschnerstrasse 91d, 21031, Hamburg, Germany
| | - Markus Fischer
- Hamburg School of Food Science - Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146 Hamburg, Germany; Cluster of Excellence, Understanding Written Artefacts, University of Hamburg, Warburgstraße 26, 20354 Hamburg, Germany
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11
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Furlani IL, da Cruz Nunes E, Canuto GAB, Macedo AN, Oliveira RV. Liquid Chromatography-Mass Spectrometry for Clinical Metabolomics: An Overview. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2021; 1336:179-213. [PMID: 34628633 DOI: 10.1007/978-3-030-77252-9_10] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/28/2023]
Abstract
Metabolomics is a discipline that offers a comprehensive analysis of metabolites in biological samples. In the last decades, the notable evolution in liquid chromatography and mass spectrometry technologies has driven an exponential progress in LC-MS-based metabolomics. Targeted and untargeted metabolomics strategies are important tools in health and medical science, especially in the study of disease-related biomarkers, drug discovery and development, toxicology, diet, physical exercise, and precision medicine. Clinical and biological problems can now be understood in terms of metabolic phenotyping. This overview highlights the current approaches to LC-MS-based metabolomics analysis and its applications in the clinical research.
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Affiliation(s)
- Izadora L Furlani
- Núcleo de Pesquisa em Cromatografia (Separare), Department of Chemistry, Federal University of São Carlos, São Carlos, SP, Brazil
| | - Estéfane da Cruz Nunes
- Department of Analytical Chemistry, Institute of Chemistry, Federal University of Bahia, Salvador, BA, Brazil
| | - Gisele A B Canuto
- Department of Analytical Chemistry, Institute of Chemistry, Federal University of Bahia, Salvador, BA, Brazil
| | - Adriana N Macedo
- Department of Chemistry, Federal University of Minas Gerais, Belo Horizonte, MG, Brazil
| | - Regina V Oliveira
- Núcleo de Pesquisa em Cromatografia (Separare), Department of Chemistry, Federal University of São Carlos, São Carlos, SP, Brazil.
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12
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Liu S, Huang Y, Liu J, Chen C, Ouyang G. In Vivo Contaminant Monitoring and Metabolomic Profiling in Plants Exposed to Carbamates via a Novel Microextraction Fiber. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:12449-12458. [PMID: 34494434 DOI: 10.1021/acs.est.1c04368] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
In this study, a biocompatible solid-phase microextraction (SPME) fiber with high-coverage capture capacity based on a nitrogen-rich porous polyaminal was developed. The fiber was used to track the bioaccumulation and elimination of carbamates (isoprocarb, carbofuran, and carbaryl) and their metabolites (o-cumenol, carbofuran phenol, and 1-naphthalenol) in living Chinese cabbage plants (Brassica campestris L. ssp. chinensis Makino (var. communis Tsen et Lee)). A case-and-control model was applied in the hydroponically cultured plants, with the exposed plant groups contaminated under three carbamates at 5 μg mL-1. Both bio-enrichment and elimination of carbamates and their metabolites in living plants appeared to be very fast with half-lives at ∼0.39-0.79 and ∼0.56-0.69 days, respectively. Statistical differences in the endogenous plant metabolome occurred on day 3 of carbamate exposure. In the exposed group, the plant metabolic alterations were not reversed after 5 days of contaminant-free growth, although most contaminates had been eliminated. Compared with prior nutriological and toxicological studies, >50 compounds were first identified as endogenous metabolites in cabbage plants. The contents of the glucosinolate-related metabolites demonstrated significant time-dependent dysregulations that the fold changes of these key metabolites decreased from 0.78-1.07 to 0.28-0.82 during carbamate exposure. To summarize, in vivo SPME provided new and important information regarding exogenous carbamate contamination and related metabolic dysregulation in plants.
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Affiliation(s)
- Shuqin Liu
- Guangdong Provincial Engineering Research Center for Ambient Mass Spectrometry, Guangdong Provincial Key Laboratory of Emergency Test for Dangerous Chemicals, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), 100 Xianlie Middle Road, Guangzhou 510070, China
| | - Yiquan Huang
- Guangdong Provincial Engineering Research Center for Ambient Mass Spectrometry, Guangdong Provincial Key Laboratory of Emergency Test for Dangerous Chemicals, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), 100 Xianlie Middle Road, Guangzhou 510070, China
| | - Jian Liu
- Institute of Advanced Materials, College of Chemistry and Chemical Engineering, Jiangxi Normal University, Nanchang 330022, China
| | - Chao Chen
- Guangdong Provincial Engineering Research Center for Ambient Mass Spectrometry, Guangdong Provincial Key Laboratory of Emergency Test for Dangerous Chemicals, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), 100 Xianlie Middle Road, Guangzhou 510070, China
| | - Gangfeng Ouyang
- Guangdong Provincial Engineering Research Center for Ambient Mass Spectrometry, Guangdong Provincial Key Laboratory of Emergency Test for Dangerous Chemicals, Institute of Analysis, Guangdong Academy of Sciences (China National Analytical Center Guangzhou), 100 Xianlie Middle Road, Guangzhou 510070, China
- KLGHEI of Environment and Energy Chemistry, School of Chemistry, Sun Yat-sen University, Guangzhou 510275, China
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13
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Xu M, Legradi J, Leonards P. Cross platform solutions to improve the zebrafish polar metabolome coverage using LC-QTOF MS: Optimization of separation mechanisms, solvent additives, and resuspension solvents. Talanta 2021; 234:122688. [PMID: 34364485 DOI: 10.1016/j.talanta.2021.122688] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Revised: 06/24/2021] [Accepted: 07/03/2021] [Indexed: 11/29/2022]
Abstract
Untargeted metabolomics has been widely used for studies with zebrafish embryos. Until now, the number of analytical approaches to determine metabolites in zebrafish is limited, and there is a lack of consensus on the best platforms for comprehensive metabolomics analysis of zebrafish embryos. In addition, the capacity of these methods to detect metabolites is unsatisfactory and the confidence level for identifying compounds is relatively low. To improve the metabolome coverage, we mainly focused on the optimization of separation mechanisms, mobile phase additives, and resuspension solvents based on liquid chromatography (LC) coupling to high-resolution mass spectrometry (HRMS) techniques. Moreover, the procedures for optimizing methods were assessed when taking metabolite profiles in both positive and negative ionization modes into account. Four LC columns were studied: C18, T3, PFP, and HILIC. In positive ionization mode, it was strongly recommended to employ the HILIC approach operated at the neutral condition, which led to the presence of more than 4700 features and the annotation of 151 metabolites, mainly zwitterionic and basic compounds, in comparison to reverse phase (RP)-based methods with less than 1000 features. In negative ionization mode, the PFP column operated at 0.02% acetic acid showed the best performance in terms of metabolite coverage: 3100 metabolic features were detected and 218 metabolites were annotated in zebrafish embryos. Metabolite profiles mainly contained acidic and zwitterionic compounds. HILIC-based platforms were complementary to RP columns when analyzing highly polar metabolites. Additionally, it was preferable to reconstitute zebrafish extracts in 100% water for analysis of metabolites on RP columns, with a 20-30% increase in the number of identified metabolites compared to a 50% water in methanol solution. However, water/methanol (1:9, v/v), as resuspension solution, was advantageous over water/methanol (1:1, v/v) for HILIC analysis showing an 8-15% increase in detected metabolites. In total 336 polar metabolites were annotated by the combination of the optimized HILIC (positive) and PFP (negative) approaches. The largest metabolome coverage of polar metabolites in zebrafish embryos was obtained when three approaches were combined (negative PFP and HILIC, and HILIC positive) resulting in more than 420 annotated compounds.
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Affiliation(s)
- Mengmeng Xu
- Department of Environment and Health, Vrije Universiteit, De Boelelaan 1085, 1081 HV, Amsterdam, the Netherlands.
| | - Jessica Legradi
- Department of Environment and Health, Vrije Universiteit, De Boelelaan 1085, 1081 HV, Amsterdam, the Netherlands
| | - Pim Leonards
- Department of Environment and Health, Vrije Universiteit, De Boelelaan 1085, 1081 HV, Amsterdam, the Netherlands
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Ceolin BC, Kemmerich M, Noguera MM, Camargo ER, Avila LAD. Evaluation of an alternative sorbent for passive sampling of the herbicides 2,4-D and Dicamba in the air. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART. B, PESTICIDES, FOOD CONTAMINANTS, AND AGRICULTURAL WASTES 2021; 56:634-643. [PMID: 34082656 DOI: 10.1080/03601234.2021.1929019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The present study aimed to evaluate the Strata-X® sorbent, commonly used in cartridges, through analysis by high-performance liquid chromatography coupled with mass spectrometry. Due to the different physical-chemical characteristics of the compounds, different conditions of chromatography and mass analysis were necessary. The developed methods were validated in terms of selectivity, linear range, linearity (coefficient of determination, r2), the limit of detection (LOD), the limit of quantification (LOQ), accuracy (recovery, %), and precision (RSD, %). The results allowed us to select efficient extraction methods, using methanol acidified to pH 2 with formic acid, to elute the herbicides 2,4-D and dicamba in both sorbent materials. Besides, the Strata-X® sorbent was efficient in the sorption of analytes; thus, we indicate it for potential use in air sampling as an alternative to XAD-2.
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Affiliation(s)
| | - Magali Kemmerich
- Weed Science Research Group (CEHERB), Federal University of Pelotas, Capão do Leão, RS, Brazil
| | - Matheus Machado Noguera
- Crop, Soil and Environmental Sciences Department, University of Arkansas, Fayetteville, AR, Brazil
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15
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Straube H, Witte CP, Herde M. Analysis of Nucleosides and Nucleotides in Plants: An Update on Sample Preparation and LC-MS Techniques. Cells 2021; 10:689. [PMID: 33804650 PMCID: PMC8003640 DOI: 10.3390/cells10030689] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Revised: 03/15/2021] [Accepted: 03/16/2021] [Indexed: 02/06/2023] Open
Abstract
Nucleotides fulfill many essential functions in plants. Compared to non-plant systems, these hydrophilic metabolites have not been adequately investigated in plants, especially the less abundant nucleotide species such as deoxyribonucleotides and modified or damaged nucleotides. Until recently, this was mainly due to a lack of adequate methods for in-depth analysis of nucleotides and nucleosides in plants. In this review, we focus on the current state-of-the-art of nucleotide analysis in plants with liquid chromatography coupled to mass spectrometry and describe recent major advances. Tissue disruption, quenching, liquid-liquid and solid-phase extraction, chromatographic strategies, and peculiarities of nucleotides and nucleosides in mass spectrometry are covered. We describe how the different steps of the analytical workflow influence each other, highlight the specific challenges of nucleotide analysis, and outline promising future developments. The metabolite matrix of plants is particularly complex. Therefore, it is likely that nucleotide analysis methods that work for plants can be applied to other organisms as well. Although this review focuses on plants, we also discuss advances in nucleotide analysis from non-plant systems to provide an overview of the analytical techniques available for this challenging class of metabolites.
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Affiliation(s)
| | - Claus-Peter Witte
- Department of Molecular Nutrition and Biochemistry of Plants, Leibniz Universität Hannover, 30419 Hannover, Germany;
| | - Marco Herde
- Department of Molecular Nutrition and Biochemistry of Plants, Leibniz Universität Hannover, 30419 Hannover, Germany;
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16
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Enhancing the power of liquid chromatography-Mass spectrometry for chemical fingerprinting of phytotoxins in the environment. J Chromatogr A 2021; 1642:462027. [PMID: 33714772 DOI: 10.1016/j.chroma.2021.462027] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Revised: 02/20/2021] [Accepted: 02/25/2021] [Indexed: 11/23/2022]
Abstract
Phytotoxins are plant secondary metabolites. They have recently been considered as chemicals of emerging concern (CECs) and there is a growing interest in their environmental fate and potential threat to public health. Dedicated target and non-target screening (NTS) analysis of phytotoxins in environmental samples are sparse, meanwhile phytotoxins are rarely detected in NTS-based analysis due to lack of an efficient methodology. Development of new analytical measurement methods is therefore highly needed. In this study, we for the first time investigated key parameters of reversed phase liquid chromatography-high resolution mass spectrometry (RPLC-HRMS) for five major classes of phytotoxins (alkaloids, steroids, terpenoids, flavonoids and aromatic polyketides) in environmental matrices; the investigation included analytical conditions which have not yet been explored by others, e.g. ionization at alkaline pH above 9. As the outcome we established a new analytical method for target/suspect screening and NTS of phytotoxins in the environment, which significantly improved the detection sensitivity with up to 40 times compared to previous methods, and enabled the discovery of over 30 phytotoxins in a NTS-based environmental study. We also observed that the negative ionization of phenols could be facilitated by the number of hydroxyl groups on the ring rather than their position of substitution. This study is of interest for a better fundamental understanding of the behavior of phytotoxins in LC-MS. Dedicated target/suspect screening and NTS methods will facilitate a better risk characterization of phytotoxins in the environment and stimulate implementation of new public regulation on phytotoxins.
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Bakr RO, Tawfike A, El-Gizawy HA, Tawfik N, Abdelmohsen UR, Abdelwahab MF, Alshareef WA, Fayez SM, El-Mancy SMS, El-Fishawy AM, Abdelkawy MA, Fayed MAA. The metabolomic analysis of five Mentha species: cytotoxicity, anti- Helicobacter assessment, and the development of polymeric micelles for enhancing the anti- Helicobacter activity. RSC Adv 2021; 11:7318-7330. [PMID: 35423273 PMCID: PMC8694964 DOI: 10.1039/d0ra09334c] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 02/26/2021] [Accepted: 01/13/2021] [Indexed: 12/17/2022] Open
Abstract
Mentha species are medicinally used worldwide and remain attractive for research due to the diversity of their phytoconstituents and large therapeutic indices for various ailments. This study used the metabolomics examination of five Mentha species (M. suaveolens, M. sylvestris, M. piperita, M. longifolia, and M. viridis) to justify their cytotoxicity and their anti-Helicobacter effects. The activities of species were correlated with their phytochemical profiles by orthogonal partial least square discriminant analysis (OPLS-DA). Tentatively characterized phytoconstituents using liquid chromatography high-resolution electrospray ionization mass spectrometry (LC-HR-ESI-MS) included 49 compounds: 14 flavonoids, 10 caffeic acid esters, 7 phenolic acids, and other constituents. M. piperita showed the highest cytotoxicity to HepG2 (human hepatoma), MCF-7 (human breast adenocarcinoma), and CACO2 (human colon adenocarcinoma) cells using 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assays. OPLS-DA and dereplication studies predicted that the cytotoxic activity was related to benzyl glucopyranoside-sulfate, a lignin glycoside. Furthermore, M. viridis was effective in suppressing the growth of Helicobacter pylori at a concentration of 50 mg mL-1. OPLS-DA predicted that this activity was related to a dihydroxytrimethoxyflavone. M. viridis extract was formulated with Pluronic® F127 to develop polymeric micelles as a nanocarrier that enhanced the anti-Helicobacter activity of the extract and provided minimum inhibitory concentrations and minimum bactericidal concentrations of 6.5 and 50 mg mL-1, respectively. This activity was also correlated to tentatively identified constituents, including rosmarinic acid, catechins, carvone, and piperitone oxide.
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Affiliation(s)
- Riham O Bakr
- Department of Pharmacognosy, Faculty of Pharmacy, October University for Modern Sciences and Arts (MSA) Giza Egypt
| | - Ahmed Tawfike
- Molecular Discovery Group, Computational and Analytical Science Department Rothamsted Research AL5 2JQ Harpenden UK
| | - Heba A El-Gizawy
- Department of Pharmacognosy, Faculty of Pharmacy, October 6 University Giza Egypt
| | - Nashwa Tawfik
- Department of Pharmacognosy, Faculty of Pharmacy, Helwan University Cairo 11795 Egypt
| | - Usama Ramadan Abdelmohsen
- Department of Pharmacognosy, Faculty of Pharmacy, Deraya University 61111 New Minia Egypt
- Department of Pharmacognosy, Faculty of Pharmacy, Minia University 61519 Minia Egypt +2-86-2347759
| | - Miada F Abdelwahab
- Department of Pharmacognosy, Faculty of Pharmacy, Minia University 61519 Minia Egypt +2-86-2347759
| | - Walaa A Alshareef
- Department of Microbiology and Immunology, Faculty of Pharmacy, October 6 University Giza Egypt
| | - Sahar M Fayez
- Department of Pharmaceutics and Industrial Pharmacy, Faculty of Pharmacy, October 6 University Giza Egypt
| | - Shereen M S El-Mancy
- Department of Pharmaceutics and Industrial Pharmacy, Faculty of Pharmacy, October 6 University Giza Egypt
| | - Ahlam M El-Fishawy
- Department of Pharmacognosy, Faculty of Pharmacy, Cairo University 11562 Cairo Egypt
| | - Mostafa A Abdelkawy
- Department of Pharmacognosy, Faculty of Pharmacy, Cairo University 11562 Cairo Egypt
| | - Marwa A A Fayed
- Department of Pharmacognosy, Faculty of Pharmacy, University of Sadat City Sadat 32897 Egypt
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18
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Uçaktürk E, Başaran AA, Demirel AH. Effect of the Mobile Phase Compositions on the Confirmation Analysis of Some Prohibited Substances in Sport by LC–ESI–MS/MS. Chromatographia 2020. [DOI: 10.1007/s10337-020-03957-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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19
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Wang T, Duedahl-Olesen L, Lauritz Frandsen H. Targeted and non-targeted unexpected food contaminants analysis by LC/HRMS: Feasibility study on rice. Food Chem 2020; 338:127957. [PMID: 32919373 DOI: 10.1016/j.foodchem.2020.127957] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2020] [Revised: 07/30/2020] [Accepted: 08/28/2020] [Indexed: 10/23/2022]
Abstract
A widely applicable analytical LC/HRMS method based on ion source optimization, data treatment optimization on rice matrix was developed. The effects of key parameters of ion source, and their interactions on ESI response were studied on HPLC-QTOF. Compared with center points, 40% and 20% increase of response factors in the positive and negative mode can be achieved by ion source optimization, respectively. Data processing strategies inspired from metabolomics and multi-targeted analysis were compared and developed using case and control rice samples. Highly automated workflow using XCMS achieved highest mass accuracy, highest detection rate of 96% for 5 μg/kg in a non-targeted way. A clear distinction between the control and contaminated samples by PCA and PLS-DA was also achieved by this workflow using XCMS, even for the concentration of 5 μg/kg.
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Affiliation(s)
- Tingting Wang
- National Food Institute, Research Group for Analytical Food Chemistry, Technical University of Denmark, Kemitorvet Building 202, Kgs. Lyngby, DK-2800, Denmark.
| | - Lene Duedahl-Olesen
- National Food Institute, Research Group for Analytical Food Chemistry, Technical University of Denmark, Kemitorvet Building 202, Kgs. Lyngby, DK-2800, Denmark
| | - Henrik Lauritz Frandsen
- National Food Institute, Research Group for Analytical Food Chemistry, Technical University of Denmark, Kemitorvet Building 202, Kgs. Lyngby, DK-2800, Denmark
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20
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Creydt M, Fischer M. Metabolic imaging: Analysis of different sections of white Asparagus officinalis shoots using high-resolution mass spectrometry. JOURNAL OF PLANT PHYSIOLOGY 2020; 250:153179. [PMID: 32438196 DOI: 10.1016/j.jplph.2020.153179] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Revised: 04/13/2020] [Accepted: 04/16/2020] [Indexed: 06/11/2023]
Abstract
Many plant metabolism processes are currently not completely understood despite the numerous studies. These include the events in plant shoots and especially in the apical meristem. To understand the various mechanisms on a molecular level, a combined approach of target and non-targeted fingerprinting analysis was worked out on different white asparagus spear segments using high resolution mass spectrometry. By means of various multivariate analysis strategies, numerous distinctions within diverse substance classes were observed. While most of the investigated metabolites were present in relatively higher concentrations in the tip of the asparagus spears, others were more accumulated at the bottom, some, in turn, did not show any concentration differences along the shoot. Using pathway analysis, the most significant metabolites were classified in the biological context. To our knowledge for the first time, a non-targeted metabolomics approach is used with the aim of metabolic profiling of plant sprouts.
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Affiliation(s)
- M Creydt
- HAMBURG SCHOOL OF FOOD SCIENCE - Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany
| | - M Fischer
- HAMBURG SCHOOL OF FOOD SCIENCE - Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany.
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21
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Vavricka CJ, Hasunuma T, Kondo A. Dynamic Metabolomics for Engineering Biology: Accelerating Learning Cycles for Bioproduction. Trends Biotechnol 2020; 38:68-82. [DOI: 10.1016/j.tibtech.2019.07.009] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2019] [Revised: 07/18/2019] [Accepted: 07/19/2019] [Indexed: 12/15/2022]
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22
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Zhang J, Zhang F, Li D, Liu Y, Liu B, Meng X. Characterization of metabolite profiles of white and green spears of asparagus officinalis L. from Caoxian, East China. Food Res Int 2019; 128:108869. [PMID: 31955777 DOI: 10.1016/j.foodres.2019.108869] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2019] [Revised: 11/06/2019] [Accepted: 11/26/2019] [Indexed: 12/30/2022]
Abstract
China is the largest planting country of asparagus (Asparagus officinalis L.) in the world. Caoxian, as the famous asparagus township in China, enjoys a reputation for producing asparagus with high yield and good quality, due to its unique geological characteristic. In this study, a method of reverse-phase ultraperformance liquid chromatography coupled with electrospray tandem mass spectrometry (RP-UPLC-ESI-MS/MS) was established for profiling metabolites from three segments (tip, mid, and base) of 'Caoxian white and green Asparagus'. A total of 114 metabolites were identified, among them, 43 were found for the first time in this vegetable. Principal component analysis (PCA) and hierarchical cluster analysis (HCA) was applied to provide an overview of the metabolite profiles of Caoxian asparagus and to separate different segments of spears. The variables most decisive to discriminate among segments included 9 of the metabolites tentatively identified. This study will help to improve the protection of Caoxian asparagus geographical indication.
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Affiliation(s)
- Jing Zhang
- College of Food Science and Engineering, Ocean University of China, Qingdao 266003, China
| | - Fang Zhang
- College of Food Science and Engineering, Ocean University of China, Qingdao 266003, China.
| | - Danrui Li
- College of Food Science and Engineering, Ocean University of China, Qingdao 266003, China
| | - Yuchen Liu
- Qingdao Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao 266101, China
| | - Bingjie Liu
- College of Food Science and Engineering, Ocean University of China, Qingdao 266003, China.
| | - Xianghong Meng
- College of Food Science and Engineering, Ocean University of China, Qingdao 266003, China; Pilot National Laboratory for Marine Science and Technology, Qingdao 266003, China.
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Narduzzi L, Royer AL, Bichon E, Guitton Y, Buisson C, Le Bizec B, Dervilly-Pinel G. Ammonium Fluoride as Suitable Additive for HILIC-Based LC-HRMS Metabolomics. Metabolites 2019; 9:E292. [PMID: 31783638 PMCID: PMC6950006 DOI: 10.3390/metabo9120292] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2019] [Revised: 11/19/2019] [Accepted: 11/23/2019] [Indexed: 11/21/2022] Open
Abstract
Hydrophilic Interaction Liquid Chromatography (HILIC) chromatography is widely applied in metabolomics as a complementary strategy to reverse phase chromatography. Nevertheless, it still faces several issues in terms of peak shape and compounds ionization, limiting the automatic de-convolution and data semi-quantification performed through dedicated software. A way to improve the chromatographic and ionization performance of a HILIC method is to modify the electrostatic interactions of the analytes with both mobile and stationary phases. In this study, using a ZIC-HILIC chromatographic phase, we evaluated the performance of ammonium fluoride (AF) as additive salt, comparing its performance to ammonium acetate (AA). Three comparative criteria were selected: (1) identification and peak quality of 34 standards following a metabolomics-specific evaluation approach, (2) an intraday repeatability test with real samples and (3) performing two real metabolomics fingerprints with the AF method to evaluate its inter-day repeatability. The AF method showed not only higher ionization efficiency and signal-to-noise ratio but also better repeatability and robustness than the AA approach. A tips and tricks section is then added, aiming at improving method replicability for further users. In conclusion, ammonium fluoride as additive salt presents several advantages and might be considered as a step forward in the application of robust HILIC methods in metabolomics.
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Affiliation(s)
- Luca Narduzzi
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
| | - Anne-Lise Royer
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
| | - Emmanuelle Bichon
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
| | - Yann Guitton
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
| | - Corinne Buisson
- Département des analyses, Agence Française de Lutte contre le Dopage (AFLD), 92290 Châtenay-Malabry, France;
| | - Bruno Le Bizec
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
| | - Gaud Dervilly-Pinel
- Laboratoire d’Etude des Résidus et Contaminants dans les Aliments (LABERCA), Oniris, INRA, F-44307 Nantes, France; (A.-L.R.); (E.B.); (Y.G.); (B.L.B.); (G.D.-P.)
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24
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Zhang Q, Nong Y, Liu Z, Gong L. Proteinase K Combining Two-Step Liquid–Liquid Extraction for Plasma Untargeted Liquid Chromatography–Mass Spectrometry-Based Metabolomics To Discover the Potential Mechanism of Colorectal Adenoma. Anal Chem 2019; 91:14458-14466. [DOI: 10.1021/acs.analchem.9b03121] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Qisong Zhang
- International Institute for Translational Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
- Guangdong Key Laboratory for Translational Cancer Research of Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
| | - Yanying Nong
- Guangdong Key Laboratory of Gastroenterology, Department of Gastroenterology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong 510515, People’s Republic of China
| | - Zhongqiu Liu
- International Institute for Translational Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
- Guangdong Key Laboratory for Translational Cancer Research of Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
| | - Lingzhi Gong
- International Institute for Translational Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
- Guangdong Key Laboratory for Translational Cancer Research of Chinese Medicine, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006, People’s Republic of China
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25
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Wang D, Li R, Wei S, Gao S, Xu Z, Liu H, Wang R, Li H, Cai H, Wang J, Zhao Y. Metabolomics combined with network pharmacology exploration reveals the modulatory properties of Astragali Radix extract in the treatment of liver fibrosis. Chin Med 2019; 14:30. [PMID: 31467589 PMCID: PMC6712842 DOI: 10.1186/s13020-019-0251-z] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2019] [Accepted: 08/14/2019] [Indexed: 12/12/2022] Open
Abstract
Background Astragali Radix (AR) is widely-used for improving liver fibrosis, but, the mechanism of action has not been systematically explained. This study aims to investigate the mechanism of AR intervention in liver fibrosis based on comprehensive metabolomics combined with network pharmacology approach. Materials and methods UPLC–Q-TOF/MS based metabolomics technique was used to explore the specific metabolites and possible pathways of AR affecting the pathological process of liver fibrosis. Network pharmacology analysis was introduced to explore the key targets of AR regarding the mechanisms on liver fibrosis. Results AR significantly reduced the levels of ALT, AST and AKP in serum, and improved pathological characteristics. Metabolomics analysis showed that the therapeutic effect of AR was mainly related to the regulation of nine metabolites, including sphingosine, 6-keto-prostaglandin F1a, LysoPC (O-18:0), 3-dehydrosphinganine, 5,6-epoxy-8,11,14-eicosatrienoic acid, leukotriene C4, taurochenodesoxycholic acid, LysoPC (18:1 (9Z)) and 2-acetyl-1-alkyl-sn-glycero-3-phosphocholine. Pathway analysis indicated that the treatment of AR on liver fibrosis was related to arachidonic acid metabolism, ether lipid metabolism, sphingolipid metabolism, glycerophospholipid metabolism and primary bile acid biosynthesis. Validation of the key targets by network pharmacology analysis of potential metabolic markers showed that AR significantly down-regulated the expression of CYP1B1 and up-regulated the expression of CYP1A2 and PCYT1A. Conclusion Metabolomics combined with network pharmacology was used for the first time to clarify that the treatment of AR on liver fibrosis, which is related to the regulation of arachidonic acid metabolism and ether lipid metabolism by modulating the expression of CYP1A2, CYP1B1 and PCYT1A. And the integrated approach can provide new strategies and ideas for the study of molecular mechanisms of traditional Chinese medicines in the treatment of liver fibrosis.
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Affiliation(s)
- Dan Wang
- 1Provincial and State Key Laboratory Breeding Base of System Research, Development and Utilization of Chinese Herbal Medicine Resources, College of Pharmacy, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137 China.,2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Ruisheng Li
- 3Research Center for Clinical and Translational Medicine, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Shizhang Wei
- 1Provincial and State Key Laboratory Breeding Base of System Research, Development and Utilization of Chinese Herbal Medicine Resources, College of Pharmacy, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137 China.,2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Sijia Gao
- 1Provincial and State Key Laboratory Breeding Base of System Research, Development and Utilization of Chinese Herbal Medicine Resources, College of Pharmacy, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137 China.,2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Zhuo Xu
- 1Provincial and State Key Laboratory Breeding Base of System Research, Development and Utilization of Chinese Herbal Medicine Resources, College of Pharmacy, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137 China.,2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Honghong Liu
- 4Integrative Medical Center, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Ruilin Wang
- 5Department of Traditional Chinese Medicine, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Haotian Li
- 2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Huadan Cai
- 2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
| | - Jian Wang
- 1Provincial and State Key Laboratory Breeding Base of System Research, Development and Utilization of Chinese Herbal Medicine Resources, College of Pharmacy, Chengdu University of Traditional Chinese Medicine, Chengdu, 611137 China
| | - Yanling Zhao
- 2Department of Pharmacy, The Fifth Medical Center of PLA General Hospital, Beijing, 100039 China
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Zhang YY, Liu YX, Zhou Z, Zhou DY, Du M, Zhu BW, Qin L. Improving Lipidomic Coverage Using UPLC-ESI-Q-TOF-MS for Marine Shellfish by Optimizing the Mobile Phase and Resuspension Solvents. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:8677-8688. [PMID: 31293164 DOI: 10.1021/acs.jafc.9b01343] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Reversed-phase ultrahigh-performance-liquid chromatography-mass spectrometry (UPLC-MS) is the typical method for the lipidomic analysis of most of biological samples, which was rarely used for the comprehensive lipidomic analysis of marine shellfish. Thus, a range of columns, modifiers, and resuspension solvents were evaluated using UPLC-electrospray ionization-quadrupole time-of-flight-MS to facilitate the ionization efficiency in both the positive and negative electrospray ionization (ESI(+)/(-)) modes for abalone lipids. Optimal lipidomic coverage was acquired with 10 mM ammonium formate in both ESI(+)/(-) modes. The selected resuspension solvents also influenced ionization efficiency through the matrix effect, and resuspension in methanol enhanced the signal intensities by reducing ion suppression. Because of the higher glycerophospholipid content in shellfish, bridged ethylene hybrid C8 columns showed clear advantages over charged surface hybrid C18 columns. A series of glycerophospholipids, lyso-glycerophospholipids, glycerolipids, and fatty acids in different shellfish can be annotated and semiquantified in one injection by the optimized method.
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Affiliation(s)
- Yu-Ying Zhang
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Yu-Xi Liu
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Zheng Zhou
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Da-Yong Zhou
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Ming Du
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Bei-Wei Zhu
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
| | - Lei Qin
- National Engineering Research Center of Seafood, School of Food Science and Technology , Dalian Polytechnic University , Dalian 116034 , China
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Ladd MP, Giannone RJ, Abraham PE, Wullschleger SD, Hettich RL. Evaluation of an untargeted nano-liquid chromatography-mass spectrometry approach to expand coverage of low molecular weight dissolved organic matter in Arctic soil. Sci Rep 2019; 9:5810. [PMID: 30967565 PMCID: PMC6456581 DOI: 10.1038/s41598-019-42118-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Accepted: 03/14/2019] [Indexed: 11/17/2022] Open
Abstract
Characterizing low molecular weight (LMW) dissolved organic matter (DOM) in soils and evaluating the availability of this labile pool is critical to understanding the underlying mechanisms that control carbon storage or release across terrestrial systems. However, due to wide-ranging physicochemical diversity, characterizing this complex mixture of small molecules and how it varies across space remains an analytical challenge. Here, we evaluate an untargeted approach to detect qualitative and relative-quantitative variations in LMW DOM with depth using water extracts from a soil core from the Alaskan Arctic, a unique system that contains nearly half the Earth's terrestrial carbon and is rapidly warming due to climate change. We combined reversed-phase and hydrophilic interaction liquid chromatography, and nano-electrospray ionization coupled with high-resolution tandem mass spectrometry in positive- and negative-ionization mode. The optimized conditions were sensitive, robust, highly complementary, and enabled detection and putative annotations of a wide range of compounds (e.g. amino acids, plant/microbial metabolites, sugars, lipids, peptides). Furthermore, multivariate statistical analyses revealed subtle but consistent and significant variations with depth. Thus, this platform is useful not only for characterizing LMW DOM, but also for quantifying relative variations in LMW DOM availability across space, revealing hotspots of biogeochemical activity for further evaluation.
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Affiliation(s)
- Mallory P Ladd
- Bredesen Center for Interdisciplinary Research & Graduate Education, University of Tennessee, Knoxville, TN, 37996, USA
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37830, USA
| | - Richard J Giannone
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37830, USA
| | - Paul E Abraham
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37830, USA
| | - Stan D Wullschleger
- Bredesen Center for Interdisciplinary Research & Graduate Education, University of Tennessee, Knoxville, TN, 37996, USA
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37830, USA
| | - Robert L Hettich
- Bredesen Center for Interdisciplinary Research & Graduate Education, University of Tennessee, Knoxville, TN, 37996, USA.
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37830, USA.
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Creydt M, Vuralhan-Eckert J, Fromm J, Fischer M. Effects of elevated CO 2 concentration on leaves and berries of black elder (Sambucus nigra) using UHPLC-ESI-QTOF-MS/MS and gas exchange measurements. JOURNAL OF PLANT PHYSIOLOGY 2019; 234-235:71-79. [PMID: 30669102 DOI: 10.1016/j.jplph.2019.01.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2018] [Revised: 12/02/2018] [Accepted: 01/07/2019] [Indexed: 06/09/2023]
Abstract
The effect of elevated CO2 concentration on leaves of black elder (Sambucus nigra) was investigated based on leaf gas exchange, chlorophyll content as well as on the analysis of the underlying metabolite profile of the fruits. The measurements were carried out once a month over a period of time of 4 months. The CO2 uptake rate, the transpiration rate and stomatal conductance were significantly higher in plants under ambient CO2, in comparison to plants grown under elevated CO2 concentrations. On the other hand, at the initial phase of the experiments, the photosynthesis rate was higher in CO2 loaded plants compared to plants grown under normal conditions. Remarkably, after about one month a habituation effect could be observed leading to a decrease of the photosynthetic efficiency approaching again the normal level. To understand the observed effects on a molecular level, non-targeted fingerprinting analysis was performed on the ripe elder berries using LC-qToF-ESI-MS(/MS). Differences in the composition of various phenols, triglycerides and PC (36:5) as well as a stigmasterole-derivate could be detected. In contrast, central metabolic pathways such as photosynthesis, the tricarboxylic acid cycle as well as the biosynthesis of essential amino acids obviously are not considerably affected.
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Affiliation(s)
- M Creydt
- Hamburg School of Food Science, Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany
| | - J Vuralhan-Eckert
- Centre for Wood Science, University of Hamburg, Leuschnerstrasse 91d, 21031, Hamburg, Germany
| | - J Fromm
- Centre for Wood Science, University of Hamburg, Leuschnerstrasse 91d, 21031, Hamburg, Germany
| | - M Fischer
- Hamburg School of Food Science, Institute of Food Chemistry, University of Hamburg, Grindelallee 117, 20146, Hamburg, Germany.
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29
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Thermoalkaliphilic laccase treatment for enhanced production of high-value benzaldehyde chemicals from lignin. Int J Biol Macromol 2019; 124:200-208. [DOI: 10.1016/j.ijbiomac.2018.11.144] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2018] [Revised: 11/12/2018] [Accepted: 11/14/2018] [Indexed: 01/29/2023]
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Pinu FR, Tumanov S, Grose C, Raw V, Albright A, Stuart L, Villas-Boas SG, Martin D, Harker R, Greven M. Juice Index: an integrated Sauvignon blanc grape and wine metabolomics database shows mainly seasonal differences. Metabolomics 2019; 15:3. [PMID: 30830411 DOI: 10.1007/s11306-018-1469-y] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/14/2018] [Accepted: 12/22/2018] [Indexed: 12/11/2022]
Abstract
INTRODUCTION Although Sauvignon Blanc (SB) grapes are cultivated widely throughout New Zealand, wines from the Marlborough region are most famous for their typical varietal combination of tropical and vegetal aromas. These wines differ in composition from season to season as well as among locations within the region, which makes the continual production of good quality wines challenging. Here, we developed a unique database of New Zealand SB grape juices and wines to develop tools to help winemakers to make blending decisions and assist in the development of new wine styles. METHODS About 400 juices were collected from different regions in New Zealand over three harvest seasons (2011-2013), which were then fermented under controlled conditions using a commercial yeast strain Saccharomyces cerevisiae EC1118. Comprehensive metabolite profiling of these juices and wines by gas chromatography-mass spectrometry (GC-MS) was combined with their detailed oenological parameters and associated meteorological data. RESULTS These combined metabolomics data clearly demonstrate that seasonal variation is more prominent than regional difference in both SB grape juices and wines, despite almost universal use of vineyard irrigation to mitigate seasonal rainfall and evapotranspiration differences, Additionally, we identified a group of juice metabolites that play central roles behind these variations, which may represent chemical signatures for juice and wine quality assessment. CONCLUSION This database is the first of its kind in the world to be available for the wider scientific community and offers potential as a predictive tool for wine quality and innovation when combined with mathematical modelling.
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Affiliation(s)
- Farhana R Pinu
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand.
| | - Sergey Tumanov
- School of Biological Sciences, The University of Auckland, Auckland, New Zealand
- Victor Chang Cardiac Research Institute, Lowy Packer Building, 405 Liverpool Street, Darlinghurst, NSW, 2010, Australia
| | - Claire Grose
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
| | - Victoria Raw
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
| | - Abby Albright
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
| | - Lily Stuart
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
| | - Silas G Villas-Boas
- School of Biological Sciences, The University of Auckland, Auckland, New Zealand
| | - Damian Martin
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
| | - Roger Harker
- Food Innovation, The New Zealand Institute for Plant and Food Research Ltd, Auckland, New Zealand
| | - Marc Greven
- Viticulture and Oenology Group, The New Zealand Institute for Plant and Food Research Ltd, Blenheim, New Zealand
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Creydt M, Hudzik D, Rurik M, Kohlbacher O, Fischer M. Food Authentication: Small-Molecule Profiling as a Tool for the Geographic Discrimination of German White Asparagus. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2018; 66:13328-13339. [PMID: 30472843 DOI: 10.1021/acs.jafc.8b05791] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
For the first time, a non-targeted metabolomics approach by means of ultraperformance liquid chromatography coupled to electrospray quadruple time-of-flight mass spectrometry was chosen for the discrimination of geographical origins of white asparagus samples ( Asparagus officinalis). Over a period of four harvesting periods (4 years), approximately 400 asparagus samples were measured. Initially, four different liquid chromatography-mass spectrometry methods were used to detect as many metabolites as possible and to assess which method is most suitable. The most relevant marker compounds were linked to the influence of different plant stress parameters and climate effects. Some of the samples were also analyzed by isotope-ratio mass spectrometry (IRMS), which is the current gold standard for the discrimination of the geographical origin of asparagus. In summary, the analysis of the metabolome was proven to be quite suitable to determine the geographical origin of asparagus and seems to provide better interpretable results than IRMS studies.
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Affiliation(s)
- Marina Creydt
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
| | - Daria Hudzik
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
| | - Marc Rurik
- Applied Bioinformatics , Center for Bioinformatics , Sand 14 , 72076 Tübingen , Germany
| | - Oliver Kohlbacher
- Applied Bioinformatics , Center for Bioinformatics , Sand 14 , 72076 Tübingen , Germany
- Quantitative Biology Center and Department of Computer Science , University of Tübingen , Sand 14 , 72076 Tübingen , Germany
- Biomolecular Interactions , Max Planck Institute for Developmental Biology , Max-Planck-Ring 5 , 72076 Tübingen , Germany
- Translational Bioinformatics , University Medical Center Tübingen , Sand 14 , 72076 Tübingen , Germany
| | - Markus Fischer
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
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Creydt M, Arndt M, Hudzik D, Fischer M. Plant Metabolomics: Evaluation of Different Extraction Parameters for Nontargeted UPLC-ESI-QTOF-Mass Spectrometry at the Example of White Asparagus officinalis. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2018; 66:12876-12887. [PMID: 30411896 DOI: 10.1021/acs.jafc.8b06037] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
The extraction of metabolites turns out to be one of the most important key factors for nontargeted metabolomics approaches as this step can significantly affects the informative value of the successive measurements. Compared to metabolomics experiments of various matrices of bacterial or mammalian origins, there are only few studies, which focus on different extraction methods for plant metabolomics analyses. In this study, various solvent extraction compositions were compared and assessed using an UPLC-ESI-QTOF-MS strategy. Exemplary, white asparagus ( Asparagus officinalis) were employed as a low-fat-, low-protein-, high-water-content model commodity with the objective of designing an optimal nontargeted extraction protocol for polar and nonpolar metabolites. Furthermore, the influence of acid addition, mechanical cell disruption methods (ball mill, ultrasonic bath, vortex mixer), and extract stability have been systematically scrutinized too. The different extraction protocols were compared based on sum of features, sum of peak intensities, sum of peak areas, as well as by analyzing individual signals of as many different substance groups as possible to obtain a maximum overview.
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Affiliation(s)
- Marina Creydt
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
| | - Maike Arndt
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
| | - Daria Hudzik
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
| | - Markus Fischer
- Hamburg School of Food Science, Institute of Food Chemistry , University of Hamburg , Grindelallee 117 , 20146 Hamburg , Germany
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33
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Grape and Wine Metabolomics to Develop New Insights Using Untargeted and Targeted Approaches. FERMENTATION-BASEL 2018. [DOI: 10.3390/fermentation4040092] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Chemical analysis of grape juice and wine has been performed for over 50 years in a targeted manner to determine a limited number of compounds using Gas Chromatography, Mass-Spectrometry (GC-MS) and High Pressure Liquid Chromatography (HPLC). Therefore, it only allowed the determination of metabolites that are present in high concentration, including major sugars, amino acids and some important carboxylic acids. Thus, the roles of many significant but less concentrated metabolites during wine making process are still not known. This is where metabolomics shows its enormous potential, mainly because of its capability in analyzing over 1000 metabolites in a single run due to the recent advancements of high resolution and sensitive analytical instruments. Metabolomics has predominantly been adopted by many wine scientists as a hypothesis-generating tool in an unbiased and non-targeted way to address various issues, including characterization of geographical origin (terroir) and wine yeast metabolic traits, determination of biomarkers for aroma compounds, and the monitoring of growth developments of grape vines and grapes. The aim of this review is to explore the published literature that made use of both targeted and untargeted metabolomics to study grapes and wines and also the fermentation process. In addition, insights are also provided into many other possible avenues where metabolomics shows tremendous potential as a question-driven approach in grape and wine research.
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Li X, Tian T. Phytochemical Characterization of Mentha spicata L. Under Differential Dried-Conditions and Associated Nephrotoxicity Screening of Main Compound With Organ-on-a-Chip. Front Pharmacol 2018; 9:1067. [PMID: 30356895 PMCID: PMC6190883 DOI: 10.3389/fphar.2018.01067] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Accepted: 09/03/2018] [Indexed: 12/18/2022] Open
Abstract
Spearmint (Mentha spicata L.) is normally used as a vegetable flavoring herb. It also has several pharmacological activities against fever, cough, infection, and inflammation. The current study presents an untargeted comparative metabolomics approach utilizing HPLC-QTOF-MS high-throughput analytical technology to provide insights into the effect of the drying process on the examined spearmint species. To the best of our knowledge, this is the first report of compositional differences among fresh and dried spearmint leaves determined via a metabolomic approach to reveal that dried leaves are a better source of bioactive metabolites. The nephrotoxicity of kaempferol, a bioactive metabolite from spearmint, was further assessed with a kidney-on-a-chip. On the designed chip, a GelMA-based 3D culture platform mimics the microenvironment and basic functions of the kidney. In addition, the chip's transparency allows for direct observation under an optical microscope. Treatment of human embryonic kidney cells with 30 μM of kaempferol for 12 h induced no obvious cell injury or apoptosis in the cells, on the basis of morphology, thus providing a proof-of-concept demonstration of kaempferol's non-toxicity.
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Affiliation(s)
| | - Tian Tian
- Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, China
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Guo C, Xie C, Chen Q, Cao X, Guo M, Zheng S, Wang Y. A novel malic acid-enhanced method for the analysis of 5-methyl-2'-deoxycytidine, 5-hydroxymethyl-2'-deoxycytidine, 5-methylcytidine and 5-hydroxymethylcytidine in human urine using hydrophilic interaction liquid chromatography-tandem mass spectrometry. Anal Chim Acta 2018; 1034:110-118. [PMID: 30193624 DOI: 10.1016/j.aca.2018.06.081] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2018] [Revised: 06/29/2018] [Accepted: 06/30/2018] [Indexed: 12/30/2022]
Abstract
5-Methyl-2'-deoxycytidine (5-mdC), 5-hydroxymethyl-2'-deoxycytidine (5-hmdC), 5-methylcytidine (5-mrC) and 5-hydroxymethylcytidine (5-hmrC) are epigenetic marks of DNA and RNA, and aberrant levels of these modified nucleosides were found to be associated with various cancers. Urine is a preferred source of biological fluid for biomarker discovery because the sample collection process is not invasive to patients. Herein, we developed a novel malic acid-enhanced hydrophilic interaction liquid chromatography-tandem mass spectrometry (HILIC-MS/MS) method for sensitive and simultaneous quantification of the modified cytosine nucleosides in human urine. Malic acid markedly increased the detection sensitivities of all four cytosine nucleosides, with the limits of detection (LODs) for 5-mdC, 5-hmdC, 5-mrC and 5-hmrC being 0.025, 0.025, 0.025 and 0.050 fmol, respectively. By using this method, we demonstrated, for the first time, the presence of 5-hmrC in human urine, and we successfully quantified 5-mdC, 5-hmdC, 5-mrC and 5-hmrC in urine samples collected from 90 patients with colorectal cancer (CRC) and 90 healthy controls. We found that the levels of 5-mdC, 5-hmdC, 5-mrC and 5-hmrC in urine were all substantially decreased in CRC patients, suggesting that these modified nucleosides might have great potential to be noninvasive biomarkers for early detection and prognosis of CRC. Together, we established a novel and sensitive method for detecting 5-methylated and 5-hydroxymethylated cytosine nucleosides in human urine and the results from this study may stimulate future investigations about the regulatory roles of these cytosine derivatives in the initiation and development of CRC.
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Affiliation(s)
- Cheng Guo
- Cancer Institute (Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education), The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310009, China.
| | - Cong Xie
- Cancer Institute (Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education), The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310009, China; College of Chemical Engineering, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, China
| | - Qin Chen
- Cancer Institute (Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education), The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310009, China
| | - Xiaoji Cao
- College of Chemical Engineering, Zhejiang University of Technology, Hangzhou, Zhejiang, 310014, China
| | - Mengzhe Guo
- Jiangsu Key Laboratory of New Drug Research and Clinical Pharmacy, Xuzhou Medical College, Xuzhou, Jiangsu, 221004, China
| | - Shu Zheng
- Cancer Institute (Key Laboratory of Cancer Prevention and Intervention, China National Ministry of Education), The Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310009, China
| | - Yinsheng Wang
- Department of Chemistry, University of California, Riverside, CA, 92521, United States.
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Vuckovic D. Improving metabolome coverage and data quality: advancing metabolomics and lipidomics for biomarker discovery. Chem Commun (Camb) 2018; 54:6728-6749. [PMID: 29888773 DOI: 10.1039/c8cc02592d] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
This Feature Article highlights some of the key challenges within the field of metabolomics and examines what role separation and analytical sciences can play to improve the use of metabolomics in biomarker discovery and personalized medicine. Recent progress in four key areas is highlighted: (i) improving metabolite coverage, (ii) developing accurate methods for unstable metabolites including in vivo global metabolomics methods, (iii) advancing inter-laboratory studies and reference materials and (iv) improving data quality, standardization and quality control of metabolomics studies.
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Affiliation(s)
- Dajana Vuckovic
- Department of Chemistry and Biochemistry, Concordia University, 7141 Sherbrooke Street West, Montréal, Québec H4B 1R6, Canada.
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37
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Creydt M, Fischer M. Omics approaches for food authentication. Electrophoresis 2018; 39:1569-1581. [DOI: 10.1002/elps.201800004] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/01/2018] [Revised: 03/07/2018] [Accepted: 03/07/2018] [Indexed: 12/14/2022]
Affiliation(s)
- Marina Creydt
- Hamburg School of Food Science; Institute of Food Chemistry; University of Hamburg; Hamburg Germany
| | - Markus Fischer
- Hamburg School of Food Science; Institute of Food Chemistry; University of Hamburg; Hamburg Germany
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