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Abstract
Metabolomics aims to profile the extensive array of metabolites that exists in different types of matrices using modern analytical techniques. These techniques help to separate, identify, and quantify the plethora of chemical compounds at various analytical platforms. Hence, ion mobility spectrometry (IMS) has emerged as an advanced analytical approach, exclusively owing to the 3D separation of metabolites and their isomers. Furthermore, separated metabolites are identified based on their mass fragmentation pattern and CCS (collision cross-section) values. The IMS provides an advanced alternative dimension to separate the isomeric metabolites with enhanced throughput with lesser chemical noise. Thus, the present review highlights the types, factors affecting the resolution, and applications of IMMS (Ion mobility mass spectrometry) for isomeric separations, and ionic contaminants in the plant samples. Furthermore, an overview of IMS-based applications for the identification of plant metabolites (volatile and non-volatile) over the last few decades has been discussed, followed by future assumptions for creating IM-based databases. Such approaches could be significant to accelerate and improve our knowledge of the vast chemical diversity found in plants.
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Affiliation(s)
- Robin Joshi
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
- Academy of Scientific and Innovative Research, (AcSIR), Ghaziabad, India
| | - Shruti Sharma
- Academy of Scientific and Innovative Research, (AcSIR), Ghaziabad, India
- Chemical Technology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
| | - Dinesh Kumar
- Academy of Scientific and Innovative Research, (AcSIR), Ghaziabad, India
- Chemical Technology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
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2
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Liu L, Wang Z, Zhang Q, Mei Y, Li L, Liu H, Wang Z, Yang L. Ion Mobility Mass Spectrometry for the Separation and Characterization of Small Molecules. Anal Chem 2023; 95:134-151. [PMID: 36625109 DOI: 10.1021/acs.analchem.2c02866] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Longchan Liu
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Ziying Wang
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Qian Zhang
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Yuqi Mei
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Linnan Li
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Huwei Liu
- Beijing National Laboratory for Molecular Sciences, College of Chemistry and Molecular Engineering, Peking University, Beijing100871, China
| | - Zhengtao Wang
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
| | - Li Yang
- The MOE Key Laboratory of Standardization of Chinese Medicines, The SATCM Key Laboratory of New Resources and Quality Evaluation of Chinese Medicines, The Shanghai Key Laboratory for Compound Chinese Medicines, Institute of Chinese Materia Medica, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China.,Shanghai Frontiers Science Center of TCM Chemical Biology, Institute of Interdisciplinary Integrative Medicine Research, Shanghai University of Traditional Chinese Medicine, Shanghai201203, China
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Applications of ion mobility-mass spectrometry in the chemical analysis in traditional Chinese medicines. Se Pu 2022; 40:782-787. [PMID: 36156624 PMCID: PMC9516353 DOI: 10.3724/sp.j.1123.2022.01028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022] Open
Abstract
离子淌度质谱(IM-MS)是一种将离子淌度分离与质谱分析相结合的新型分析技术。IM-MS的主要优势不仅是在质谱检测前提供了基于气相离子形状、大小、电荷数等因素的多一维分离,而且能够提供碰撞截面积、漂移时间等质谱信息进而辅助化合物鉴定。近年来,随着IM-MS技术的不断发展,该技术在中药化学成分分析中受到越来越多的关注。首先,IM-MS已成功应用于改善中药复杂成分尤其是同分异构体或等量异位素等成分的分离;其次,IM-MS可通过多重碎裂模式辅助高质量中药小分子质谱信息的获取;此外,IM-MS提供的高维质谱数据信息还可促进中药复杂体系多成分的整合分析。该文在对IM-MS分类和基本原理进行概述的基础上,从分离能力及分离策略、多重碎裂模式、多维质谱数据处理策略3个方面,重点综述了IM-MS在中药化学成分分析中的应用,以期为IM-MS在中药化学成分研究提供参考。
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Paglia G, Smith AJ, Astarita G. Ion mobility mass spectrometry in the omics era: Challenges and opportunities for metabolomics and lipidomics. MASS SPECTROMETRY REVIEWS 2022; 41:722-765. [PMID: 33522625 DOI: 10.1002/mas.21686] [Citation(s) in RCA: 84] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2020] [Revised: 01/17/2021] [Accepted: 01/17/2021] [Indexed: 06/12/2023]
Abstract
Researchers worldwide are taking advantage of novel, commercially available, technologies, such as ion mobility mass spectrometry (IM-MS), for metabolomics and lipidomics applications in a variety of fields including life, biomedical, and food sciences. IM-MS provides three main technical advantages over traditional LC-MS workflows. Firstly, in addition to mass, IM-MS allows collision cross-section values to be measured for metabolites and lipids, a physicochemical identifier related to the chemical shape of an analyte that increases the confidence of identification. Second, IM-MS increases peak capacity and the signal-to-noise, improving fingerprinting as well as quantification, and better defining the spatial localization of metabolites and lipids in biological and food samples. Third, IM-MS can be coupled with various fragmentation modes, adding new tools to improve structural characterization and molecular annotation. Here, we review the state-of-the-art in IM-MS technologies and approaches utilized to support metabolomics and lipidomics applications and we assess the challenges and opportunities in this growing field.
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Affiliation(s)
- Giuseppe Paglia
- School of Medicine and Surgery, University of Milano-Bicocca, Vedano al Lambro (MB), Italy
| | - Andrew J Smith
- School of Medicine and Surgery, University of Milano-Bicocca, Vedano al Lambro (MB), Italy
| | - Giuseppe Astarita
- Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington, District of Columbia, USA
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Delvaux A, Rathahao-Paris E, Alves S. Different ion mobility-mass spectrometry coupling techniques to promote metabolomics. MASS SPECTROMETRY REVIEWS 2022; 41:695-721. [PMID: 33492707 DOI: 10.1002/mas.21685] [Citation(s) in RCA: 31] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
Metabolomics has become increasingly popular in recent years for many applications ranging from clinical diagnosis, human health to biotechnological questioning. Despite technological advances, metabolomic studies are still currently limited by the difficulty of identifying all metabolites, a class of compounds with great chemical diversity. Although lengthy chromatographic analyses are often used to obtain comprehensive data, many isobar and isomer metabolites still remain unresolved, which is a critical point for the compound identification. Currently, ion mobility spectrometry is being explored in metabolomics as a way to improve metabolome coverage, analysis throughput and isomer separation. In this review, all the steps of a typical workflow for untargeted metabolomics are discussed considering the use of an ion mobility instrument. An overview of metabolomics is first presented followed by a brief description of ion mobility instrumentation. The ion mobility potential for complex mixture analysis is discussed regarding its coupling with a mass spectrometer alone, providing gas-phase separation before mass analysis as well as its combination with different separation platforms (conventional hyphenation but also multidimensional ion mobility couplings), offering multidimensional separation. Various instrumental and analytical conditions for improving the ion mobility separation are also described. Finally, data mining, including software packages and visualization approaches, as well as the construction of ion mobility databases for the metabolite identification are examined.
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Affiliation(s)
- Aurélie Delvaux
- Faculté des Sciences et de l'Ingénierie, Institut Parisien de Chimie Moléculaire (IPCM), Sorbonne Université, Paris, 75005, France
| | - Estelle Rathahao-Paris
- Faculté des Sciences et de l'Ingénierie, Institut Parisien de Chimie Moléculaire (IPCM), Sorbonne Université, Paris, 75005, France
- Département Médicaments et Technologies pour la Santé (DMTS), SPI, Université Paris-Saclay, CEA, INRAE, Gif-sur-Yvette, 91191, France
| | - Sandra Alves
- Faculté des Sciences et de l'Ingénierie, Institut Parisien de Chimie Moléculaire (IPCM), Sorbonne Université, Paris, 75005, France
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Shi Z, Liu P, Liao X, Mao Z, Zhang J, Wang Q, Sun J, Ma H, Ma Y. Data-Driven Synthetic Cell Factories Development for Industrial Biomanufacturing. BIODESIGN RESEARCH 2022; 2022:9898461. [PMID: 37850146 PMCID: PMC10521697 DOI: 10.34133/2022/9898461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Accepted: 05/26/2022] [Indexed: 10/19/2023] Open
Abstract
Revolutionary breakthroughs in artificial intelligence (AI) and machine learning (ML) have had a profound impact on a wide range of scientific disciplines, including the development of artificial cell factories for biomanufacturing. In this paper, we review the latest studies on the application of data-driven methods for the design of new proteins, pathways, and strains. We first briefly introduce the various types of data and databases relevant to industrial biomanufacturing, which are the basis for data-driven research. Different types of algorithms, including traditional ML and more recent deep learning methods, are also presented. We then demonstrate how these data-based approaches can be applied to address various issues in cell factory development using examples from recent studies, including the prediction of protein function, improvement of metabolic models, and estimation of missing kinetic parameters, design of non-natural biosynthesis pathways, and pathway optimization. In the last section, we discuss the current limitations of these data-driven approaches and propose that data-driven methods should be integrated with mechanistic models to complement each other and facilitate the development of synthetic strains for industrial biomanufacturing.
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Affiliation(s)
- Zhenkun Shi
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Pi Liu
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Xiaoping Liao
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Zhitao Mao
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Jianqi Zhang
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Qinhong Wang
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Jibin Sun
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Hongwu Ma
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
| | - Yanhe Ma
- Key Laboratory of Systems Microbial Technology, Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin 300308, China
- National Technology Innovation Center of Synthetic Biology, Tianjin 300308China
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Masike K, de Villiers A, de Beer D, Joubert E, Stander MA. Application of direct injection-ion mobility spectrometry-mass spectrometry (DI-IMS-MS) for the analysis of phenolics in honeybush and rooibos tea samples. J Food Compost Anal 2022. [DOI: 10.1016/j.jfca.2021.104308] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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8
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Du Y, Xu X, Liu Q, Bai L, Hang K, Wang D. Identification of organic pollutants with potential ecological and health risks in aquatic environments: Progress and challenges. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 806:150691. [PMID: 34600995 DOI: 10.1016/j.scitotenv.2021.150691] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/01/2021] [Revised: 09/25/2021] [Accepted: 09/26/2021] [Indexed: 06/13/2023]
Abstract
Thousands of organic pollutants are intentionally and unintentionally discharged into water bodies, adversely affecting the ecological environment and human health. Screening for organic pollutants that pose a potential risk in aquatic environments is essential for risk management. This review evaluates the processes, methods, and technologies used to screen such pollutants in the aquatic environment and discuss their advantages and disadvantages, in addition to the challenges and knowledge gaps in this field. Combining non-target screening, target screening, and suspect screening is often effective for compiling a list of potential risk compounds and enables the quantitative analysis of these compounds. Sample preparation technologies and pollutant detection technologies considerably affect the results of pollutant screening. The limited amount of chemical and toxicological information contained in databases hinders the screening of organic pollutants with potential risk. Machine learning, high-throughput methods, and other technologies will increase the accuracy and convenience of screening for high-risk pollutants. This review provides an important reference for screening these compounds in aquatic environments and can be used in future pollutant screening and risk management.
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Affiliation(s)
- Yanjun Du
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085 Beijing, China; University of Chinese Academy of Sciences, 100049 Beijing, China; National Institute of Environmental Health, Chinese Center for Disease Control and Prevention, 100021 Beijing, China
| | - Xiong Xu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085 Beijing, China
| | - Quanzhen Liu
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085 Beijing, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Lu Bai
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085 Beijing, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Kexin Hang
- Experimental High School Attached to Beijing Normal University, 100052 Beijing, China
| | - Donghong Wang
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, 100085 Beijing, China; University of Chinese Academy of Sciences, 100049 Beijing, China.
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Roca M, Pérez-Gálvez A. Metabolomics of Chlorophylls and Carotenoids: Analytical Methods and Metabolome-Based Studies. Antioxidants (Basel) 2021; 10:1622. [PMID: 34679756 PMCID: PMC8533378 DOI: 10.3390/antiox10101622] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Revised: 10/03/2021] [Accepted: 10/12/2021] [Indexed: 01/27/2023] Open
Abstract
Chlorophylls and carotenoids are two families of antioxidants present in daily ingested foods, whose recognition as added-value ingredients runs in parallel with the increasing number of demonstrated functional properties. Both groups include a complex and vast number of compounds, and extraction and analysis methods evolved recently to a modern protocol. New methodologies are more potent, precise, and accurate, but their application requires a better understanding of the technical and biological context. Therefore, the present review compiles the basic knowledge and recent advances of the metabolomics of chlorophylls and carotenoids, including the interrelation with the primary metabolism. The study includes material preparation and extraction protocols, the instrumental techniques for the acquisition of spectroscopic and spectrometric properties, the workflows and software tools for data pre-processing and analysis, and the application of mass spectrometry to pigment metabolomics. In addition, the review encompasses a critical description of studies where metabolomics analyses of chlorophylls and carotenoids were developed as an approach to analyzing the effects of biotic and abiotic stressors on living organisms.
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Affiliation(s)
| | - Antonio Pérez-Gálvez
- Food Phytochemistry Department, Instituto de la Grasa (CSIC), Building 46, 41013 Sevilla, Spain;
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Masike K, Stander MA, de Villiers A. Recent applications of ion mobility spectrometry in natural product research. J Pharm Biomed Anal 2021; 195:113846. [PMID: 33422832 DOI: 10.1016/j.jpba.2020.113846] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2020] [Revised: 12/08/2020] [Accepted: 12/08/2020] [Indexed: 12/15/2022]
Abstract
Ion mobility spectrometry (IMS) is a rapid separation technique capable of extracting complementary structural information to chromatography and mass spectrometry (MS). IMS, especially in combination with MS, has experienced inordinate growth in recent years as an analytical technique, and elicited intense interest in many research fields. In natural product analysis, IMS shows promise as an additional tool to enhance the performance of analytical methods used to identify promising drug candidates. Potential benefits of the incorporation of IMS into analytical workflows currently used in natural product analysis include the discrimination of structurally similar secondary metabolites, improving the quality of mass spectral data, and the use of mobility-derived collision cross-section (CCS) values as an additional identification criterion in targeted and untargeted analyses. This review aims to provide an overview of the application of IMS to natural product analysis over the last six years. Instrumental aspects and the fundamental background of IMS will be briefly covered, and recent applications of the technique for natural product analysis will be discussed to demonstrate the utility of the technique in this field.
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Affiliation(s)
- Keabetswe Masike
- Department of Biochemistry, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa
| | - Maria A Stander
- Department of Biochemistry, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa; Central Analytical Facility, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa
| | - André de Villiers
- Department of Chemistry and Polymer Science, Stellenbosch University, Private Bag X1, Matieland, 7602, South Africa.
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Giuffrida D, Zoccali M, Mondello L. Recent developments in the carotenoid and carotenoid derivatives chromatography-mass spectrometry analysis in food matrices. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.116047] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Masike K, de Villiers A, Hoffman EW, Brand DJ, Causon T, Stander MA. Detailed Phenolic Characterization of Protea Pure and Hybrid Cultivars by Liquid Chromatography-Ion Mobility-High Resolution Mass Spectrometry (LC-IM-HR-MS). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:485-502. [PMID: 31805232 DOI: 10.1021/acs.jafc.9b06361] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
In this study we report a detailed investigation of the polyphenol composition of Protea pure (P. cynaroides and P. neriifolia) and hybrid cultivars (Black beauty and Limelight). Aqueous methanol extracts of leaf and bract tissues were analyzed by ultrahigh pressure liquid chromatography hyphenated to photodiode array and ion mobility-high resolution mass spectrometric (UHPLC-PDA-IM-HR-MS) detection. A total of 67 metabolites were characterized based on their relative reversed phase (RP) retention, UV-vis spectra, low and high collision energy HR-MS data, and collisional cross section (CCS) values. These metabolites included 41 phenolic acid esters and 25 flavonoid derivatives, including 5 anthocyanins. In addition, an undescribed hydroxycinnamic acid-polygalatol ester, caffeoyl-O-polygalatol (1,5-anhydro-[6-O-caffeoyl]-sorbitol(glucitol)) was isolated and characterized by 1D and 2D NMR for the first time. This compound and its isomer are shown to be potential chemo-taxonomic markers.
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Affiliation(s)
- Keabetswe Masike
- Department of Biochemistry , Stellenbosch University , Private Bag X1, Matieland , 7602 Stellenbosch , South Africa
| | - André de Villiers
- Department of Chemistry and Polymer Science , Stellenbosch University , Private Bag X1, Matieland , 7602 Stellenbosch , South Africa
| | - Eleanor W Hoffman
- Department of Horticultural Science , Stellenbosch University , Private Bag X1, Matieland , 7602 Stellenbosch , South Africa
| | - D Jacobus Brand
- Department of Chemistry, Central Analytical Facility (NMR Unit) , Stellenbosch University , Matieland, 7602 Stellenbosch , South Africa
| | - Tim Causon
- University of Natural Resources and Life Sciences (BOKU) , Department of Chemistry, Institute of Analytical Chemistry , 1180 Vienna , Austria
| | - Maria A Stander
- Department of Biochemistry , Stellenbosch University , Private Bag X1, Matieland , 7602 Stellenbosch , South Africa
- Central Analytical Facility , Stellenbosch University , Private Bag X1, Matieland , 7602 Stellenbosch , South Africa
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13
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Fundamentals and applications of incorporating chromatographic separations with ion mobility-mass spectrometry. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.115625] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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14
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Paglia G, Astarita G. Traveling Wave Ion Mobility Mass Spectrometry: Metabolomics Applications. Methods Mol Biol 2019; 1978:39-53. [PMID: 31119656 DOI: 10.1007/978-1-4939-9236-2_4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/15/2023]
Abstract
Ion mobility (IM) spectrometry can separate gas-phase ions according to their charge, molecular shape, and size. In recent years, several IM technologies have been integrated with mass spectrometry (MS) and launched as commercially available instrumentation for metabolomics analysis. The addition of IM to MS-based metabolomics workflows provides an additional degree of separation to chromatography and MS resolving power, improving peak capacity and signal-to-noise ratio. Moreover, it makes possible to experimentally derive collision cross section (CCS), which can be used as an additional coordinate for metabolite identification, together with accurate mass and fragmentation information. The addition of CCS to current metabolome database would allow to filter and score molecules based on their CCS values, adding more confidence in the identification process during metabolomics experiments.In this chapter, we present procedures for the integration of travelling-wave (TW)-IM into traditional MS-based metabolomics workflows.
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Affiliation(s)
| | - Giuseppe Astarita
- Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington, DC, USA
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15
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A multidimensional analytical approach based on time-decoupled online comprehensive two-dimensional liquid chromatography coupled with ion mobility quadrupole time-of-flight mass spectrometry for the analysis of ginsenosides from white and red ginsengs. J Pharm Biomed Anal 2019; 163:24-33. [DOI: 10.1016/j.jpba.2018.09.036] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2018] [Revised: 08/19/2018] [Accepted: 09/18/2018] [Indexed: 02/07/2023]
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Manz C, Grabarics M, Hoberg F, Pugini M, Stuckmann A, Struwe WB, Pagel K. Separation of isomeric glycans by ion mobility spectrometry – the impact of fluorescent labelling. Analyst 2019; 144:5292-5298. [DOI: 10.1039/c9an00937j] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Bloodgroup oligosaccharides have been derivatized with labels common in HPLC and evaluated regarding their ion mobility behaviour.
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Affiliation(s)
- Christian Manz
- Institute of Chemistry and Biochemistry
- Freie Universität Berlin
- 14195 Berlin
- Germany
- Fritz Haber Institute of the Max Planck Society
| | - Márkó Grabarics
- Institute of Chemistry and Biochemistry
- Freie Universität Berlin
- 14195 Berlin
- Germany
- Fritz Haber Institute of the Max Planck Society
| | - Friederike Hoberg
- Fritz Haber Institute of the Max Planck Society
- Department of Molecular Physics
- 14195 Berlin
- Germany
| | - Michele Pugini
- Institute of Chemistry and Biochemistry
- Freie Universität Berlin
- 14195 Berlin
- Germany
- Fritz Haber Institute of the Max Planck Society
| | - Alexandra Stuckmann
- Institute of Chemistry and Biochemistry
- Freie Universität Berlin
- 14195 Berlin
- Germany
| | - Weston B. Struwe
- Oxford Glycobiology Institute
- Department of Biochemistry
- University of Oxford
- Oxford OX1 3QU
- UK
| | - Kevin Pagel
- Institute of Chemistry and Biochemistry
- Freie Universität Berlin
- 14195 Berlin
- Germany
- Fritz Haber Institute of the Max Planck Society
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Comprehensive characterization of in vivo metabolic profile of Polygalae radix based on ultra-high-performance liquid chromatography-tandem mass spectrometry. J Pharm Biomed Anal 2018; 165:173-181. [PMID: 30551072 DOI: 10.1016/j.jpba.2018.12.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Revised: 11/15/2018] [Accepted: 12/04/2018] [Indexed: 01/21/2023]
Abstract
In this study, a novel analysis strategy for progressively targeted screening and characterization of drug ingredients from in vitro to in vivo was proposed based on ultra-high performance liquid chromatography-tandem mass spectrometry for comprehensive characterization of in vivo metabolic profile of Polygalae radix (PR). First, an in vitro chemical profile of PR was described with the assistance of UNIFI™ software. The characteristic neutral small molecule losses were summarized to distinguish different chemical structures in the PR extract. Second, the in vitro intestinal microflora metabolism model was applied to describe an in vitro metabolic profile of the main ingredients of PR. The metabolic rule and metabolites were integrated for subsequent targeted screening of metabolites in vivo. Finally, an integrated strategy was established and applied to screen and characterize the major absorbed components in vivo, including blood, urine, brain, feces, and liver, based on the prototypes and metabolic rules obtained in vitro. As a result, in vitro and in vivo metabolic profiles of PR were effectively depicted. A total of 136 compounds were isolated and identified from the crude extract in vitro, and 12 compounds were reported for the first time based on the proposed fragmentations. A total of 13, 32, and 3 compounds were identified and characterized in the dosed plasma, liver, and brain, respectively. A total of 40 and 73 compounds were identified in urine and feces, respectively. This strategy not only provided a comprehensive insight into the chemical and metabolic profiles of PR but also presented a new perspective for the discovery of new drugs for medicinal application.
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Feng G, Zheng Y, Sun Y, Liu S, Pi Z, Song F, Liu Z. A targeted strategy for analyzing untargeted mass spectral data to identify lanostane–type triterpene acids in Poria cocos by integrating a scientific information system and liquid chromatography–tandem mass spectrometry combined with ion mobility spectrometry. Anal Chim Acta 2018; 1033:87-99. [DOI: 10.1016/j.aca.2018.06.048] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Revised: 06/01/2018] [Accepted: 06/14/2018] [Indexed: 10/28/2022]
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Feng G, Sun Y, Liu S, Song F, Pi Z, Liu Z. Stepwise targeted matching strategy from in vitro to in vivo based on ultra-high performance liquid chromatography tandem mass spectrometry technology to quickly identify and screen pharmacodynamic constituents. Talanta 2018; 194:619-626. [PMID: 30609581 DOI: 10.1016/j.talanta.2018.10.074] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2018] [Revised: 09/13/2018] [Accepted: 10/22/2018] [Indexed: 12/23/2022]
Abstract
The study of in vivo pharmacodynamic constituents (PCs) of traditional Chinese medicine (TCM) is important for providing new clues for TCM applications in clinical therapies in modern medicine. However, detecting and identifying PCs from complex biological samples remain a challenge. In this study, a practical and novel stepwise targeted matching and longitudinal analysis strategy from in vitro to in vivo was developed. This strategy combined with ultra-high performance liquid chromatography tandem mass spectrometry was applied to quickly discover PCs in TCM. This approach was developed based on a core perception that all drugs taken orally might be transformed progressively and orderly from the intestinal tract, liver, and blood to the target organ. Based on this core perception, stepwise targeted matching was orderly and efficiently accomplished by multiple screening processes that were based on a stepwise enriched in-house library. Ginseng (Panax ginseng) was set as the example of herbal medicine for validating the reliability and availability of this approach. By applying this novel strategy to the stepwise screening of metabolites, we successfully identified 113 metabolites, among which 59 compounds were defined as prototypes. Based on the in vivo metabolites, network pharmacology analysis was applied to screen the PCs of ginseng and clarified the action mechanism of ginseng for the treatment of Alzheimer's disease (AD). A total of 27 herbal constituents and 64 related targets shared commonly by compounds and AD were integrated via target network pharmacology analysis. These results demonstrated that this original approach will greatly improve high-throughput screening of metabolites and PCs on AD. It also can explicate the mechanism of action of TCM. Furthermore, this strategy is practicable to identify metabolites and screen PCs in other herbal medicines.
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Affiliation(s)
- Guifang Feng
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China; University of Science and Technology of China, Hefei 230026, China
| | - Yufei Sun
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China; University of Science and Technology of China, Hefei 230026, China
| | - Shu Liu
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China.
| | - Fengrui Song
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| | - Zifeng Pi
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| | - Zhiqiang Liu
- State Key Laboratory of Electroanalytical Chemistry, National Center of Mass Spectrometry in Changchun, Jilin Province Key Laboratory of Chinese Medicine Chemistry and Mass Spectrometry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China.
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Gray NE, Alcazar Magana A, Lak P, Wright KM, Quinn J, Stevens JF, Maier CS, Soumyanath A. Centella asiatica - Phytochemistry and mechanisms of neuroprotection and cognitive enhancement. PHYTOCHEMISTRY REVIEWS : PROCEEDINGS OF THE PHYTOCHEMICAL SOCIETY OF EUROPE 2018; 17:161-194. [PMID: 31736679 PMCID: PMC6857646 DOI: 10.1007/s11101-017-9528-y] [Citation(s) in RCA: 95] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2017] [Accepted: 08/17/2017] [Indexed: 05/18/2023]
Abstract
This review describes in detail the phytochemistry and neurological effects of the medicinal herb Centella asiatica (L.) Urban. C. asiatica is a small perennial plant that grows in moist, tropical and sub-tropical regions throughout the world. Phytochemicals identified from C. asiatica to date include isoprenoids (sesquiterpenes, plant sterols, pentacyclic triterpenoids and saponins) and phenylpropanoid derivatives (eugenol derivatives, caffeoylquinic acids, and flavonoids). Contemporary methods for fingerprinting and characterization of compounds in C. asiatica extracts include liquid chromatography and/or ion mobility spectrometry in conjunction with high-resolution mass spectrometry. Multiple studies in rodent models, and a limited number of human studies support C. asiatica's traditional reputation as a cognitive enhancer, as well as its anxiolytic and anticonvulsant effects. Neuroprotective effects of C.asiatica are seen in several in vitro models, for example against beta amyloid toxicity, and appear to be associated with increased mitochondrial activity, improved antioxidant status, and/or inhibition of the pro-inflammatory enzyme, phospholipase A2. Neurotropic effects of C. asiatica include increased dendritic arborization and synaptogenesis, and may be due to modulations of signal transduction pathways such as ERK1/2 and Akt. Many of these neurotropic and neuroprotective properties of C.asiatica have been associated with the triterpene compounds asiatic acid, asiaticoside and madecassoside. More recently, caffeoylquinic acids are emerging as a second important group of active compounds in C. asiatica, with the potential of enhancing the Nrf2-antioxidant response pathway. The absorption, distribution, metabolism and excretion of the triterpenes, caffeoylquinic acids and flavonoids found in C. asiatica have been studied in humans and animal models, and the compounds or their metabolites found in the brain. This review highlights the remarkable potential for C. asiatica extracts and derivatives to be used in the treatment of neurological conditions, and considers the further research needed to actualize this possibility.
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Affiliation(s)
- Nora E. Gray
- Department of Neurology, Oregon Health and Science University, Portland, Oregon 97239
| | | | - Parnian Lak
- Department of Chemistry, Oregon State University, Corvallis, Oregon 97331
| | - Kirsten M. Wright
- Department of Neurology, Oregon Health and Science University, Portland, Oregon 97239
| | - Joseph Quinn
- Department of Neurology, Oregon Health and Science University, Portland, Oregon 97239
- Department of Neurology and Parkinson’s Disease Research Education and Clinical Care Center (PADRECC),
Portland Veterans Affairs Medical Center, Portland, OR, USA 97239
| | - Jan F. Stevens
- Department of Pharmaceutical Sciences, Oregon State University, Corvallis, Oregon 97331
- Linus Pauling Institute, Oregon State University, Corvallis, Oregon 97331
| | - Claudia S. Maier
- Department of Pharmaceutical Sciences, Oregon State University, Corvallis, Oregon 97331
- Linus Pauling Institute, Oregon State University, Corvallis, Oregon 97331
| | - Amala Soumyanath
- Department of Neurology, Oregon Health and Science University, Portland, Oregon 97239
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Recent advances on HPLC/MS in medicinal plant analysis—An update covering 2011–2016. J Pharm Biomed Anal 2018; 147:211-233. [DOI: 10.1016/j.jpba.2017.07.038] [Citation(s) in RCA: 85] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Revised: 07/28/2017] [Accepted: 07/28/2017] [Indexed: 12/13/2022]
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The potential of Ion Mobility Mass Spectrometry for high-throughput and high-resolution lipidomics. Curr Opin Chem Biol 2017; 42:42-50. [PMID: 29145156 DOI: 10.1016/j.cbpa.2017.10.018] [Citation(s) in RCA: 72] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2017] [Revised: 10/12/2017] [Accepted: 10/13/2017] [Indexed: 11/23/2022]
Abstract
Lipids are a large and highly diverse family of biomolecules, which play essential structural, storage and signalling roles in cells and tissues. Although traditional mass spectrometry (MS) approaches used in lipidomics are highly sensitive and selective, lipid analysis remains challenging due to the chemical diversity of lipid structures, multiple isobaric species and incomplete separation using many forms of chromatography. Ion mobility (IM) separates ions in the gas phase based on their physicochemical properties. Addition of IM to the traditional lipidomic workflow both enhances separation of complex lipid mixtures, beneficial for lipid identification, and improves isomer resolution. Herein, we discuss the recent developments in IM-MS for lipidomics.
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Gilbert-López B, Barranco A, Herrero M, Cifuentes A, Ibáñez E. Development of new green processes for the recovery of bioactives from Phaeodactylum tricornutum. Food Res Int 2017; 99:1056-1065. [DOI: 10.1016/j.foodres.2016.04.022] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2016] [Revised: 04/19/2016] [Accepted: 04/21/2016] [Indexed: 12/13/2022]
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Diprat AB, Menegol T, Boelter JF, Zmozinski A, Rodrigues Vale MG, Rodrigues E, Rech R. Chemical composition of microalgae Heterochlorella luteoviridis and Dunaliella tertiolecta with emphasis on carotenoids. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2017; 97:3463-3468. [PMID: 27885677 DOI: 10.1002/jsfa.8159] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2016] [Revised: 10/28/2016] [Accepted: 11/18/2016] [Indexed: 05/07/2023]
Abstract
BACKGROUND Microalgae have been used as food supplements owing to their high protein, polyunsaturated fatty acid and carotenoid contents. As different carotenoids have distinct properties and the carotenoid composition of microalgae has been poorly explored in the literature, this study determined the complete carotenoid composition of two microalgae species, Heterochlorella luteoviridis and Dunaliella tertiolecta, using high-performance liquid chromatography coupled with diode array detection and tandem mass spectrometry (HPLC-DAD/MS2 ). Additionally, the proximate composition and major minerals were evaluated. RESULTS The carotenoid composition of the two microalgae was similar, with 13 carotenoids being found in H. luteoviridis and 12 in D. tertiolecta. The major carotenoids were all-trans-lutein (1.18 mg g-1 in H. luteoviridis and 1.59 mg g-1 in D. tertiolecta), all-trans-violaxanthin (0.52 mg g-1 in H. luteoviridis and 0.45 mg g-1 in D. tertiolecta) and all-trans-β-carotene (0.50 mg g-1 in H. luteoviridis and 0.62 mg g-1 in D. tertiolecta). All-trans-lutein was the predominant carotenoid in both microalgae, representing around 40% (mass fraction) of the total carotenoids. The lutein content found in these microalgae was significantly higher (2-40 times) than that in other important food sources of lutein (e.g. parsley, carrot, red pepper and broccoli). CONCLUSION The microalgae H. luteoviridis and D. tertiolecta are excellent sources of lutein that could be commercially exploited by the food and pharmaceutical industries. Moreover, it was confirmed that both microalgae are good sources of protein, lipids and calcium. © 2016 Society of Chemical Industry.
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Affiliation(s)
- Andressa Bacalau Diprat
- Food Science and Technology Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
| | - Tania Menegol
- Food Science and Technology Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
| | - Juliana Ferreira Boelter
- Food Science and Technology Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
| | - Ariane Zmozinski
- Chemistry Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
| | | | - Eliseu Rodrigues
- Food Science and Technology Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
| | - Rosane Rech
- Food Science and Technology Institute, Federal University of Rio Grande do Sul, Porto Alegre, RGS, Brazil
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Regueiro J, Negreira N, Hannisdal R, Berntssen MH. Targeted approach for qualitative screening of pesticides in salmon feed by liquid chromatography coupled to traveling-wave ion mobility/quadrupole time-of-flight mass spectrometry. Food Control 2017. [DOI: 10.1016/j.foodcont.2017.02.053] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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26
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Paglia G, Astarita G. Metabolomics and lipidomics using traveling-wave ion mobility mass spectrometry. Nat Protoc 2017; 12:797-813. [PMID: 28301461 DOI: 10.1038/nprot.2017.013] [Citation(s) in RCA: 161] [Impact Index Per Article: 23.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Metabolomics and lipidomics aim to profile the wide range of metabolites and lipids that are present in biological samples. Recently, ion mobility spectrometry (IMS) has been used to support metabolomics and lipidomics applications to facilitate the separation and the identification of complex mixtures of analytes. IMS is a gas-phase electrophoretic technique that enables the separation of ions in the gas phase according to their charge, shape and size. Occurring within milliseconds, IMS separation is compatible with modern mass spectrometry (MS) operating with microsecond scan speeds. Thus, the time required for acquiring IMS data does not affect the overall run time of traditional liquid chromatography (LC)-MS-based metabolomics and lipidomics experiments. The addition of IMS to conventional LC-MS-based metabolomics and lipidomics workflows has been shown to enhance peak capacity, spectral clarity and fragmentation specificity. Moreover, by enabling determination of a collision cross-section (CCS) value-a parameter related to the shape of ions-IMS can improve the accuracy of metabolite identification. In this protocol, we describe how to integrate traveling-wave ion mobility spectrometry (TWIMS) into traditional LC-MS-based metabolomic and lipidomic workflows. In particular, we describe procedures for the following: tuning and calibrating a SYNAPT High-Definition MS (HDMS) System (Waters) specifically for metabolomics and lipidomics applications; extracting polar metabolites and lipids from brain samples; setting up appropriate chromatographic conditions; acquiring simultaneously m/z, retention time and CCS values for each analyte; processing and analyzing data using dedicated software solutions, such as Progenesis QI (Nonlinear Dynamics); and, finally, performing metabolite and lipid identification using CCS databases and TWIMS-derived fragmentation information.
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Affiliation(s)
- Giuseppe Paglia
- Center for Biomedicine, European Academy of Bolzano/Bozen, Bolzano, Italy
| | - Giuseppe Astarita
- Department of Biochemistry and Molecular &Cellular Biology, Georgetown University, Washington, DC, USA
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Feasibility of ultra-performance liquid chromatography–ion mobility–time-of-flight mass spectrometry in analyzing oxysterols. J Chromatogr A 2017; 1487:147-152. [DOI: 10.1016/j.chroma.2017.01.039] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2016] [Revised: 01/12/2017] [Accepted: 01/15/2017] [Indexed: 12/22/2022]
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Einarsdottir E, Magnusdottir M, Astarita G, Köck M, Ögmundsdottir HM, Thorsteinsdottir M, Rapp HT, Omarsdottir S, Paglia G. Metabolic Profiling as a Screening Tool for Cytotoxic Compounds: Identification of 3-Alkyl Pyridine Alkaloids from Sponges Collected at a Shallow Water Hydrothermal Vent Site North of Iceland. Mar Drugs 2017; 15:md15020052. [PMID: 28241423 PMCID: PMC5334632 DOI: 10.3390/md15020052] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 02/10/2017] [Accepted: 02/16/2017] [Indexed: 01/15/2023] Open
Abstract
Twenty-eight sponge specimens were collected at a shallow water hydrothermal vent site north of Iceland. Extracts were prepared and tested in vitro for cytotoxic activity, and eight of them were shown to be cytotoxic. A mass spectrometry (MS)-based metabolomics approach was used to determine the chemical composition of the extracts. This analysis highlighted clear differences in the metabolomes of three sponge specimens, and all of them were identified as Haliclona (Rhizoniera) rosea (Bowerbank, 1866). Therefore, these specimens were selected for further investigation. Haliclona rosea metabolomes contained a class of potential key compounds, the 3-alkyl pyridine alkaloids (3-APA) responsible for the cytotoxic activity of the fractions. Several 3-APA compounds were tentatively identified including haliclamines, cyclostellettamines, viscosalines and viscosamines. Among these compounds, cyclostellettamine P was tentatively identified for the first time by using ion mobility MS in time-aligned parallel (TAP) fragmentation mode. In this work, we show the potential of applying metabolomics strategies and in particular the utility of coupling ion mobility with MS for the molecular characterization of sponge specimens.
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Affiliation(s)
- Eydis Einarsdottir
- Faculty of Pharmaceutical Sciences, University of Iceland, Reykjavík 107, Iceland.
| | | | - Giuseppe Astarita
- Denali Therapeutics, South San Francisco, CA 94080, USA.
- Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington, DC 20057, USA.
| | - Matthias Köck
- Helmholtz Center for Polar and Marine Research, Alfred-Wegener-Institute, Bremerhaven D-27570, Germany.
| | | | | | - Hans Tore Rapp
- Department of Biology and KG Jebsen Centre for Deep Sea Research, University of Bergen, Bergen 5020, Norway.
| | - Sesselja Omarsdottir
- Faculty of Pharmaceutical Sciences, University of Iceland, Reykjavík 107, Iceland.
| | - Giuseppe Paglia
- Center for Biomedicine, European Academy of Bolzano/Bozen, Bolzano 39100, Italy.
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Negreira N, Regueiro J, Valdersnes S, Berntssen MHG, Ørnsrud R. Comprehensive characterization of ethoxyquin transformation products in fish feed by traveling-wave ion mobility spectrometry coupled to quadrupole time-of-flight mass spectrometry. Anal Chim Acta 2017; 965:72-82. [PMID: 28366214 DOI: 10.1016/j.aca.2017.02.021] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 01/27/2017] [Accepted: 02/03/2017] [Indexed: 11/30/2022]
Abstract
Feed additives are typically used in intensive farming production over long periods, and hence, they can accumulate in farmed animal tissues. Concerns regarding the use of ethoxyquin as an antioxidant feed additive, have recently arisen due to its potential conversion into a series of transformation products (TPs). The aim of this work was to characterize the TPs of ethoxyquin in fish feed by a novel approach based on the use of traveling-wave ion mobility spectrometry (TWIMS) coupled to high-resolution quadrupole time-of-flight mass spectrometry (QTOFMS). First, ethoxyquin was oxidized under controlled conditions and the generated TPs were added to a comprehensive database. Atlantic salmon feeds were then screened for ethoxyquin TPs using both targeted and untargeted approaches. Twenty-seven TPs were tentatively identified during the oxidation experiments, fifteen of them also being present in the feed samples. In addition, ten other potential TPs were detected in fish feed following the untargeted approach. Thirty-one of these TPs have been reported for the first time in this work through the oxidation experiments and the feed samples. Therefore, this study provides valuable information on the oxidative fate of ethoxyquin in feed, which can be used for future evaluations of potential risk related to this additive.
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Affiliation(s)
- Noelia Negreira
- National Institute of Nutrition and Seafood Research (NIFES), PO Box 2029 Nordnes, N-5817 Bergen, Norway; Institute for Food Analysis and Research (IIAA), Department of Analytical Chemistry, Nutrition and Food Sciences, University of Santiago de Compostela, Constantino Candeira S/N, 15782 Santiago de Compostela, Spain. http://www.nifes.no
| | - Jorge Regueiro
- National Institute of Nutrition and Seafood Research (NIFES), PO Box 2029 Nordnes, N-5817 Bergen, Norway
| | - Stig Valdersnes
- National Institute of Nutrition and Seafood Research (NIFES), PO Box 2029 Nordnes, N-5817 Bergen, Norway
| | - Marc H G Berntssen
- National Institute of Nutrition and Seafood Research (NIFES), PO Box 2029 Nordnes, N-5817 Bergen, Norway
| | - Robin Ørnsrud
- National Institute of Nutrition and Seafood Research (NIFES), PO Box 2029 Nordnes, N-5817 Bergen, Norway
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Abstract
In this review, we focus on an important aspect of ion mobility (IM) research, namely the reporting of quantitative ion mobility measurements in the form of the gas-phase collision cross section (CCS), which has provided a common basis for comparison across different instrument platforms and offers a unique form of structural information, namely size and shape preferences of analytes in the absence of bulk solvent. This review surveys the over 24,000 CCS values reported from IM methods spanning the era between 1975 to 2015, which provides both a historical and analytical context for the contributions made thus far, as well as insight into the future directions that quantitative ion mobility measurements will have in the analytical sciences. The analysis was conducted in 2016, so CCS values reported in that year are purposely omitted. In another few years, a review of this scope will be intractable, as the number of CCS values which will be reported in the next three to five years is expected to exceed the total amount currently published in the literature.
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Affiliation(s)
- Jody C May
- Department of Chemistry, Center for Innovative Technology, Vanderbilt Institute for Chemical Biology, Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University , Nashville, Tennessee 37235, United States
| | - Caleb B Morris
- Department of Chemistry, Center for Innovative Technology, Vanderbilt Institute for Chemical Biology, Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University , Nashville, Tennessee 37235, United States
| | - John A McLean
- Department of Chemistry, Center for Innovative Technology, Vanderbilt Institute for Chemical Biology, Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University , Nashville, Tennessee 37235, United States
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31
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Schrimpe-Rutledge AC, Codreanu SG, Sherrod SD, McLean JA. Untargeted Metabolomics Strategies-Challenges and Emerging Directions. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2016; 27:1897-1905. [PMID: 27624161 PMCID: PMC5110944 DOI: 10.1007/s13361-016-1469-y] [Citation(s) in RCA: 682] [Impact Index Per Article: 85.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2016] [Revised: 07/27/2016] [Accepted: 07/29/2016] [Indexed: 05/05/2023]
Abstract
Metabolites are building blocks of cellular function. These species are involved in enzyme-catalyzed chemical reactions and are essential for cellular function. Upstream biological disruptions result in a series of metabolomic changes and, as such, the metabolome holds a wealth of information that is thought to be most predictive of phenotype. Uncovering this knowledge is a work in progress. The field of metabolomics is still maturing; the community has leveraged proteomics experience when applicable and developed a range of sample preparation and instrument methodology along with myriad data processing and analysis approaches. Research focuses have now shifted toward a fundamental understanding of the biology responsible for metabolomic changes. There are several types of metabolomics experiments including both targeted and untargeted analyses. While untargeted, hypothesis generating workflows exhibit many valuable attributes, challenges inherent to the approach remain. This Critical Insight comments on these challenges, focusing on the identification process of LC-MS-based untargeted metabolomics studies-specifically in mammalian systems. Biological interpretation of metabolomics data hinges on the ability to accurately identify metabolites. The range of confidence associated with identifications that is often overlooked is reviewed, and opportunities for advancing the metabolomics field are described. Graphical Abstract ᅟ.
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Affiliation(s)
- Alexandra C Schrimpe-Rutledge
- Department of Chemistry, Vanderbilt University, Nashville, TN, 37235, USA
- Center for Innovative Technology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University, Nashville, TN, 37235, USA
| | - Simona G Codreanu
- Department of Chemistry, Vanderbilt University, Nashville, TN, 37235, USA
- Center for Innovative Technology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University, Nashville, TN, 37235, USA
| | - Stacy D Sherrod
- Department of Chemistry, Vanderbilt University, Nashville, TN, 37235, USA
- Center for Innovative Technology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN, 37235, USA
- Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University, Nashville, TN, 37235, USA
| | - John A McLean
- Department of Chemistry, Vanderbilt University, Nashville, TN, 37235, USA.
- Center for Innovative Technology, Vanderbilt University, Nashville, TN, 37235, USA.
- Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN, 37235, USA.
- Vanderbilt Institute for Integrative Biosystems Research and Education, Vanderbilt University, Nashville, TN, 37235, USA.
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32
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Regueiro J, Negreira N, Berntssen MHG. Ion-Mobility-Derived Collision Cross Section as an Additional Identification Point for Multiresidue Screening of Pesticides in Fish Feed. Anal Chem 2016; 88:11169-11177. [PMID: 27779869 DOI: 10.1021/acs.analchem.6b03381] [Citation(s) in RCA: 77] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Ion mobility spectrometry allows for the measurement of the collision cross section (CCS), which provides information about the shape of an ionic molecule in the gas phase. Although the hyphenation of traveling-wave ion mobility spectrometry (TWIMS) with high-resolution quadrupole time-of-flight mass spectrometry (QTOFMS) has been mainly used for structural elucidation purposes, its potential for fast screening of small molecules in complex samples has not yet been thoroughly evaluated. The current work explores the capabilities of ultrahigh-performance liquid chromatography (UHPLC) coupled to a new design TWIMS-QTOFMS for the screening and identification of a large set of pesticides in complex salmon feed matrices. A database containing TWIMS-derived CCS values for more than 200 pesticides is hereby presented. CCS measurements showed high intra- and interday repeatability (RSD < 1%), and they were not affected by the complexity of the investigated matrices (ΔCCS ≤ 1.8%). The use of TWIMS in combination with QTOFMS was demonstrated to provide an extra-dimension, which resulted in increased peak capacity and selectivity in real samples. Thus, many false-positive detections could be straightforwardly discarded just by applying a maximum ΔCCS tolerance of ±2%. CCS was proposed as a valuable additional identification point in the pesticides screening workflow. Several commercial fish feed samples were finally analyzed to demonstrate the applicability of the proposed approach. Ethoxyquin and pirimiphos-methyl were identified in most of the analyzed samples, whereas tebuconazole and piperonil butoxide were identified for the first time in fish feed samples.
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Affiliation(s)
- Jorge Regueiro
- National Institute of Nutrition and Seafood Research (NIFES), P.O. Box 2029 Nordnes, N-5817 Bergen, Norway
| | - Noelia Negreira
- National Institute of Nutrition and Seafood Research (NIFES), P.O. Box 2029 Nordnes, N-5817 Bergen, Norway
| | - Marc H G Berntssen
- National Institute of Nutrition and Seafood Research (NIFES), P.O. Box 2029 Nordnes, N-5817 Bergen, Norway
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Yan C, Schmidberger JW, Parmeggiani F, Hussain SA, Turner NJ, Flitsch SL, Barran P. Rapid and sensitive monitoring of biocatalytic reactions using ion mobility mass spectrometry. Analyst 2016; 141:2351-5. [PMID: 26999769 DOI: 10.1039/c6an00617e] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The combination of stable isotope labelling with direct infusion ion mobility mass spectrometry (IM-MS) enabled qualitative and quantitative monitoring of biocatalytic reactions with reduced analysis times, enhanced sensitivity and μL-level assay volumes. The new approach was demonstrated by applying to both lipase and monooxygenase enzymes, including multi-substrate screening.
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Affiliation(s)
- Cunyu Yan
- School of Chemistry, Manchester Institute of Biotechnology, The University of Manchester, 131 Princess Street, Manchester M1 7DN, UK.
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Zhang H, Zheng D, Li HH, Wang H, Tan HS, Xu HX. Diagnostic filtering to screen polycyclic polyprenylated acylphloroglucinols from Garcinia oblongifolia by ultrahigh performance liquid chromatography coupled with ion mobility quadrupole time-of-flight mass spectrometry. Anal Chim Acta 2016; 912:85-96. [PMID: 26920776 DOI: 10.1016/j.aca.2016.01.039] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2015] [Revised: 01/05/2016] [Accepted: 01/17/2016] [Indexed: 01/12/2023]
Abstract
A novel multistage MS approach, insource collision-induced dissociation (CID) combined with Time Aligned Parallel (TAP) fragmentation, was established to study the fragmentation behavior of polycyclic polyprenylated acylphloroglucinols (PPAPs), which could provide a more reliable fragmentation relationship between precursor and daughter ions. The diagnostic ions for different subtypes of PPAPs and their fragmentation behaviors have been summarized. Moreover, a new and reliable multidimensional analytical workflow that combines ultrahigh performance liquid chromatography (UHPLC), data-independent mass spectrometry (MS(E)), and tandem MS with ion mobility (IM) has been optimized and established for the analysis of PPAPs in the plant Garcinia oblongifolia by diagnostic filtering. Diagnostic fragment ions were used to selectively screen PPAPs from extracts, whereas IM coupled to MS was used to maximize the peak capacity. Under the optimized UHPLC-IM-MS(E) and UHPLC-IM-MS/MS method, 140 PPAPs were detected from the crude extract of G. oblongifolia, and 10 of them were unambiguously identified by comparing them to the reference compounds. Among those PPAPs, 7 pairs of coeluting isobaric PPAPs that were indistinguishable by conventional UHPLC-HRMS alone, were further resolved using UHPLC-IM-MS. It is anticipated that the proposed method will be extended to the rapid screening and characterization of the other targeted or untargeted compounds, especially these coeluting isomers in complex samples.
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Affiliation(s)
- Hong Zhang
- School of Pharmacy, Shanghai University of Traditional Chinese Medicine, Shanghai, 201203, PR China; Engineering Research Centre of Shanghai Colleges for TCM New Drug Discovery, Shanghai, 201203, PR China
| | - Dan Zheng
- School of Pharmacy, Shanghai University of Traditional Chinese Medicine, Shanghai, 201203, PR China
| | - Hao-Hao Li
- School of Pharmacy, Shanghai University of Traditional Chinese Medicine, Shanghai, 201203, PR China
| | - Hui Wang
- Solution Center, Waters Technologies Ltd. (Shanghai), Shanghai, 201203, PR China
| | - Hong-Sheng Tan
- School of Pharmacy, Shanghai University of Traditional Chinese Medicine, Shanghai, 201203, PR China; Engineering Research Centre of Shanghai Colleges for TCM New Drug Discovery, Shanghai, 201203, PR China
| | - Hong-Xi Xu
- School of Pharmacy, Shanghai University of Traditional Chinese Medicine, Shanghai, 201203, PR China; Engineering Research Centre of Shanghai Colleges for TCM New Drug Discovery, Shanghai, 201203, PR China.
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Phenotypic characterization of nanshi oral liquid alters metabolic signatures during disease prevention. Sci Rep 2016; 6:19333. [PMID: 26785698 PMCID: PMC4726315 DOI: 10.1038/srep19333] [Citation(s) in RCA: 71] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2015] [Accepted: 12/04/2015] [Indexed: 01/09/2023] Open
Abstract
This paper was designed to investigate the phenotypic characterization of Nanshi Oral Liquid (NOL) alters metabolic signatures of the ‘Kidney Yang Deficiency syndrome’ (KYDS). Urine metabolites were profiled by UPLC-ESI-Q-TOF-HDMS. The significantly changed metabolites such as xanthurenic acid, 4,8-dihydroxyquinoline, 3-methyldioxyindole, 4,6-dihydroxyquinoline, kynurenic acid, hippuric acid, taurine, tyramine, and 3-metanephrine, had been identified, and were related to the disturbance in tyrosine metabolism, steroid hormone biosynthesis, taurine and hypotaurine metabolism, tryptophan metabolism, phenylalanine metabolism and lysine degradation, which were helpful to further understanding the KYDS and intervention mechanism of NOL. The biochemical result showed that NOL can alleviate the kidney impairment induced by KYDS. Metabolomics results indicated the significantly changed metabolites were found to be reasonable in explaining the action mechanism of NOL. Interestingly, the effectiveness of NOL against KYDS was proved using the established metabolomics method and regulated the biomarkers as well as adjusted the metabolic disorder pathways. NOL had potentially pharmacological effect through regulating multiple perturbed pathways to normal state. This work showed that the metabolomics method was a powerful approach for studying the phenotypic characterization of disease’s syndrome during disease prevention and its intervention mechanism.
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Paglia G, Stocchero M, Cacciatore S, Lai S, Angel P, Alam MT, Keller M, Ralser M, Astarita G. Unbiased Metabolomic Investigation of Alzheimer's Disease Brain Points to Dysregulation of Mitochondrial Aspartate Metabolism. J Proteome Res 2016; 15:608-18. [PMID: 26717242 DOI: 10.1021/acs.jproteome.5b01020] [Citation(s) in RCA: 94] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Alzheimer's disease (AD) is the most common cause of adult dementia. Yet the complete set of molecular changes accompanying this inexorable, neurodegenerative disease remains elusive. Here we adopted an unbiased lipidomics and metabolomics approach to surveying frozen frontal cortex samples from clinically characterized AD patients (n = 21) and age-matched controls (n = 19), revealing marked molecular differences between them. Then, by means of metabolomic pathway analysis, we incorporated the novel molecular information into the known biochemical pathways and compared it with the results of a metabolomics meta-analysis of previously published AD research. We found six metabolic pathways of the central metabolism as well as glycerophospholipid metabolism predominantly altered in AD brains. Using targeted metabolomics approaches and MS imaging, we confirmed a marked dysregulation of mitochondrial aspartate metabolism. The altered metabolic pathways were further integrated with clinical data, showing various degrees of correlation with parameters of dementia and AD pathology. Our study highlights specific, altered biochemical pathways in the brains of individuals with AD compared with those of control subjects, emphasizing dysregulation of mitochondrial aspartate metabolism and supporting future venues of investigation.
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Affiliation(s)
- Giuseppe Paglia
- Center for Biomedicine, European Academy of Bolzano/Bozen , Via Galvani 31, 39100 Bolzano, Italy.,Center for Systems Biology, University of Iceland , Sturlugata 8, IS 101 Reykjavik, Iceland
| | - Matteo Stocchero
- S-IN Soluzioni Informatiche S.r.l. , via G. Ferrari 14, 36100 Vicenza, Italy
| | - Stefano Cacciatore
- Institute of Reproductive and Developmental Biology, Imperial College London , London SW7 2AZ, United Kingdom
| | - Steven Lai
- Waters Corporation , Milford, Massachusetts 01757, United States
| | - Peggi Angel
- Protea Biosciences Group, Incorporated Morgantown, West Virginia 26505, United States
| | - Mohammad Tauqeer Alam
- Department of Biochemistry and Cambridge Systems Biology Centre, University of Cambridge , 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom
| | - Markus Keller
- Department of Biochemistry and Cambridge Systems Biology Centre, University of Cambridge , 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom
| | - Markus Ralser
- Department of Biochemistry and Cambridge Systems Biology Centre, University of Cambridge , 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom.,Mill Hill Laboratory, The Francis Crick Institute , The Ridgeway, London NW1 7AA, United Kingdom
| | - Giuseppe Astarita
- Waters Corporation , Milford, Massachusetts 01757, United States.,Department of Biochemistry and Molecular & Cellular Biology, Georgetown University , Washington, District of Columbia 20007, United States
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Photo-Oxidative Stress-Driven Mutagenesis and Adaptive Evolution on the Marine Diatom Phaeodactylum tricornutum for Enhanced Carotenoid Accumulation. Mar Drugs 2015; 13:6138-51. [PMID: 26426027 PMCID: PMC4626683 DOI: 10.3390/md13106138] [Citation(s) in RCA: 42] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2015] [Revised: 09/12/2015] [Accepted: 09/15/2015] [Indexed: 12/14/2022] Open
Abstract
Marine diatoms have recently gained much attention as they are expected to be a promising resource for sustainable production of bioactive compounds such as carotenoids and biofuels as a future clean energy solution. To develop photosynthetic cell factories, it is important to improve diatoms for value-added products. In this study, we utilized UVC radiation to induce mutations in the marine diatom Phaeodactylum tricornutum and screened strains with enhanced accumulation of neutral lipids and carotenoids. Adaptive laboratory evolution (ALE) was also used in parallel to develop altered phenotypic and biological functions in P. tricornutum and it was reported for the first time that ALE was successfully applied on diatoms for the enhancement of growth performance and productivity of value-added carotenoids to date. Liquid chromatography-mass spectrometry (LC-MS) was utilized to study the composition of major pigments in the wild type P. tricornutum, UV mutants and ALE strains. UVC radiated strains exhibited higher accumulation of fucoxanthin as well as neutral lipids compared to their wild type counterpart. In addition to UV mutagenesis, P. tricornutum strains developed by ALE also yielded enhanced biomass production and fucoxanthin accumulation under combined red and blue light. In short, both UV mutagenesis and ALE appeared as an effective approach to developing desired phenotypes in the marine diatoms via electromagnetic radiation-induced oxidative stress.
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Maldini M, Natella F, Baima S, Morelli G, Scaccini C, Langridge J, Astarita G. Untargeted Metabolomics Reveals Predominant Alterations in Lipid Metabolism Following Light Exposure in Broccoli Sprouts. Int J Mol Sci 2015; 16:13678-91. [PMID: 26084047 PMCID: PMC4490517 DOI: 10.3390/ijms160613678] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2015] [Accepted: 06/09/2015] [Indexed: 01/27/2023] Open
Abstract
The consumption of vegetables belonging to the family Brassicaceae (e.g., broccoli and cauliflower) is linked to a reduced incidence of cancer and cardiovascular diseases. The molecular composition of such plants is strongly affected by growing conditions. Here we developed an unbiased metabolomics approach to investigate the effect of light and dark exposure on the metabolome of broccoli sprouts and we applied such an approach to provide a bird’s-eye view of the overall metabolic response after light exposure. Broccoli seeds were germinated and grown hydroponically for five days in total darkness or with a light/dark photoperiod (16 h light/8 h dark cycle). We used an ultra-performance liquid-chromatography system coupled to an ion-mobility, time-of-flight mass spectrometer to profile the large array of metabolites present in the sprouts. Differences at the metabolite level between groups were analyzed using multivariate statistical analyses, including principal component analysis and correlation analysis. Altered metabolites were identified by searching publicly available and in-house databases. Metabolite pathway analyses were used to support the identification of subtle but significant changes among groups of related metabolites that may have gone unnoticed with conventional approaches. Besides the chlorophyll pathway, light exposure activated the biosynthesis and metabolism of sterol lipids, prenol lipids, and polyunsaturated lipids, which are essential for the photosynthetic machinery. Our results also revealed that light exposure increased the levels of polyketides, including flavonoids, and oxylipins, which play essential roles in the plant’s developmental processes and defense mechanism against herbivores. This study highlights the significant contribution of light exposure to the ultimate metabolic phenotype, which might affect the cellular physiology and nutritional value of broccoli sprouts. Furthermore, this study highlights the potential of an unbiased omics approach for the comprehensive study of the metabolism.
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Affiliation(s)
- Mariateresa Maldini
- Food and Nutrition Research Centre, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA), 00184 Roma, Italy.
- Department of Chemistry and Pharmacy, University of Sassari, 07100 Sassari, Italy.
| | - Fausta Natella
- Food and Nutrition Research Centre, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA), 00184 Roma, Italy.
| | - Simona Baima
- Food and Nutrition Research Centre, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA), 00184 Roma, Italy.
| | - Giorgio Morelli
- Food and Nutrition Research Centre, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA), 00184 Roma, Italy.
| | - Cristina Scaccini
- Food and Nutrition Research Centre, Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CRA), 00184 Roma, Italy.
| | - James Langridge
- Waters Corporation, Health Sciences, Milford, MA 01757, USA.
| | - Giuseppe Astarita
- Waters Corporation, Health Sciences, Milford, MA 01757, USA.
- Department of Biochemistry and Molecular & Cellular Biology, Georgetown University, Washington, DC 20057, USA.
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Applications of ion-mobility mass spectrometry for lipid analysis. Anal Bioanal Chem 2015; 407:4995-5007. [PMID: 25893801 DOI: 10.1007/s00216-015-8664-8] [Citation(s) in RCA: 132] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2015] [Revised: 03/19/2015] [Accepted: 03/26/2015] [Indexed: 12/28/2022]
Abstract
The high chemical complexity of the lipidome is one of the major challenges in lipidomics research. Ion-mobility spectrometry (IMS), a gas-phase electrophoretic technique, makes possible the separation of ions in the gas phase according to their charge, shape, and size. IMS can be combined with mass spectrometry (MS), adding three major benefits to traditional lipidomic approaches. First, IMS-MS allows the determination of the collision cross section (CCS), a physicochemical measure related to the conformational structure of lipid ions. The CCS is used to improve the confidence of lipid identification. Second, IMS-MS provides a new set of hybrid fragmentation experiments. These experiments, which combine collision-induced dissociation with ion-mobility separation, improve the specificity of MS/MS-based approaches. Third, IMS-MS improves the peak capacity and signal-to-noise ratio of traditional analytical approaches. In doing so, it allows the separation of complex lipid extracts from interfering isobaric species. Developing in parallel with advances in instrumentation, informatics solutions enable analysts to process and exploit IMS-MS data for qualitative and quantitative applications. Here we review the current approaches for lipidomics research based on IMS-MS, including liquid chromatography-MS and direct-MS analyses of "shotgun" lipidomics and MS imaging.
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