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Mahboubifar M, Zidorn C, Farag MA, Zayed A, Jassbi AR. Chemometric-based drug discovery approaches from natural origins using hyphenated chromatographic techniques. PHYTOCHEMICAL ANALYSIS : PCA 2024; 35:990-1016. [PMID: 38806406 DOI: 10.1002/pca.3382] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2024] [Revised: 05/02/2024] [Accepted: 05/02/2024] [Indexed: 05/30/2024]
Abstract
INTRODUCTION Isolation and characterization of bioactive components from complex matrices of marine or terrestrial biological origins are the most challenging issues for natural product chemists. Biochemometric is a new potential scope in natural product analytical science, and it is a methodology to find the compound's correlation to their bioactivity with the help of hyphenated chromatographic techniques and chemometric tools. OBJECTIVES The present review aims to evaluate the application of chemometric tools coupled to chromatographic techniques for drug discovery from natural resources. METHODS The searching keywords "biochemometric," "chemometric," "chromatography," "natural products bioassay," and "bioassay" were selected to search the published articles between 2010-2023 using different search engines including "Pubmed", "Web of Science," "ScienceDirect," and "Google scholar." RESULTS An initial stage in natural product analysis is applying the chromatographic hyphenated techniques in conjunction with biochemometric approaches. Among the applied chromatographic techniques, liquid chromatography (LC) techniques, have taken up more than half (53%) and also, mass spectroscopy (MS)-based chromatographic techniques such as LC-MS are the most widely used techniques applied in combination with chemometric methods for natural products bioassay. Considering the complexity of dataset achieved from chromatographic hyphenated techniques, chemometric tools have been increasingly employed for phytochemical studies in the context of determining botanicals geographical origin, quality control, and detection of bioactive compounds. CONCLUSION Biochemometric application is expected to be further improved with advancing in data acquisition methods, new efficient preprocessing, model validation and variable selection methods which would guarantee that the applied model to have good prediction ability in compound relation to its bioactivity.
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Affiliation(s)
- Marjan Mahboubifar
- Medicinal and Natural Products Chemistry Research Center, Shiraz University of Medical Sciences, Shiraz, Iran
| | - Christian Zidorn
- Pharmazeutisches Institut, Abteilung Pharmazeutische Biologie, Christian-Albrechts-Universität zu Kiel, Kiel, Germany
| | - Mohamed A Farag
- Pharmacognosy Department, College of Pharmacy, Cairo University, Cairo, Egypt
| | - Ahmed Zayed
- Pharmacognosy Department, College of Pharmacy, Tanta University, Tanta, Egypt
| | - Amir Reza Jassbi
- Medicinal and Natural Products Chemistry Research Center, Shiraz University of Medical Sciences, Shiraz, Iran
- Pharmazeutisches Institut, Abteilung Pharmazeutische Biologie, Christian-Albrechts-Universität zu Kiel, Kiel, Germany
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2
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Ahmed ZB, Hefied F, Mahammed TH, Seidel V, Yousfi M. Identification of potential
anti‐Alzheimer
agents from
Pistacia atlantica
Desf. galls using
UPLC
fingerprinting, chemometrics, and molecular docking analyses. J FOOD PROCESS PRES 2022. [DOI: 10.1111/jfpp.16916] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Ziyad Ben Ahmed
- Laboratoire des Sciences Fondamentale Université Amar Telidji Laghouat Algérie
- Department of Analytical Chemistry, Applied Chemometrics and Molecular Modelling, Vrije Universiteit Brussel (VUB), Brussels Belgium
| | - Fatiha Hefied
- Laboratoire des Sciences Fondamentale Université Amar Telidji Laghouat Algérie
| | | | - Veronique Seidel
- Natural Products Research Laboratory, Strathclyde Institute of Pharmacy and Biomedical Sciences University of Strathclyde Glasgow UK
| | - Mohamed Yousfi
- Laboratoire des Sciences Fondamentale Université Amar Telidji Laghouat Algérie
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3
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Liu C, Zuo Z, Xu F, Wang Y. Authentication of Herbal Medicines Based on Modern Analytical Technology Combined with Chemometrics Approach: A Review. Crit Rev Anal Chem 2022; 53:1393-1418. [PMID: 34991387 DOI: 10.1080/10408347.2021.2023460] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/23/2023]
Abstract
Since ancient times, herbal medicines (HMs) have been widely popular with consumers as a "natural" drug for health care and disease treatment. With the emergence of problems, such as increasing demand for HMs and shortage of resources, it often occurs the phenomenon of shoddy exceed and mixing the false with the genuine in the market. There is an urgent need to evaluate the quality of HMs to ensure their important role in health care and disease treatment, and to reduce the possibility of threat to human health. Modern analytical technology is can be analyzed for analyzing chemical components of HMs or their preparations. Reflecting complex chemical components' characteristic curves in the analysis sample, and the comprehensive effect of active ingredients of HMs. In this review, modern analytical technology (chromatography, spectroscopy, mass spectrometry), chemometrics methods (unsupervised, supervised) and their advantages, disadvantages, and applicability were introduced and summarized. In addition, the authentication application of modern analytical technology combined with chemometrics methods in four aspects, including origin, processing methods, cultivation methods, and adulteration of HMs have also been discussed and illustrated by a few typical studies. This article offers a general workflow of analytical methods that have been applied for HMs authentication and explains that the accuracy of authentication in favor of the quality assurance of HMs. It was provided reference value for the development and application of modern HMs.
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Affiliation(s)
- Chunlu Liu
- Medicinal Plants Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
- College of Traditional Chinese Medicine, Yunnan University of Chinese Medicine, Kunming, China
| | - Zhitian Zuo
- Medicinal Plants Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
| | - Furong Xu
- College of Traditional Chinese Medicine, Yunnan University of Chinese Medicine, Kunming, China
| | - Yuanzhong Wang
- Medicinal Plants Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
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Santacruz L, Hurtado DX, Doohan R, Thomas OP, Puyana M, Tello E. Metabolomic study of soft corals from the Colombian Caribbean: PSYCHE and 1H-NMR comparative analysis. Sci Rep 2020; 10:5417. [PMID: 32214197 PMCID: PMC7096504 DOI: 10.1038/s41598-020-62413-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2019] [Accepted: 02/24/2020] [Indexed: 12/12/2022] Open
Abstract
Marine organisms have evolved to survive against predators in complex marine ecosystems via the production of chemical compounds. Soft corals (Cnidaria, Anthozoa, Octocorallia) are an important source of chemically diverse metabolites with a broad spectrum of biological activities. Herein, we perform a comparative study between high-resolution proton nuclear magnetic resonance (1H-NMR) and pure shift yielded by chirp excitation (PSYCHE) experiments to analyze the metabolic profile of 24 soft corals from the Colombian Caribbean to correlate chemical fingerprints with their cytotoxic activity against three cancer cell lines (human cervical carcinoma (SiHa), human prostatic carcinoma (PC3) and human lung adenocarcinoma (A549)). All data obtained were explored using multivariate analysis using principal components analysis (PCA) and orthogonal partial least squares (OPLS) analysis. The results did not show a significant correlation between clusters using 1H-NMR data in the PCA and OPLS-DA models and therefore did not provide conclusive evidence; on the other hand, a metabolomic analysis of PSYCHE data obtained under the same parameters revealed that when a decoupled experiment is performed, it was possible to establish a statistically valid correlation between the chemical composition of soft corals and their cytotoxic activity against the PC3 cancer cell line, where the asperdiol and plexaurolone markers were putatively identified and related to the cytotoxic activity presented by extracts of Plexaurella sp. and Plexaura kukenthali, respectively. These results increase the speed, effectiveness and reliability of analyses for the study of this type of complex matrices.
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Affiliation(s)
- Liliana Santacruz
- Bioprospecting Research Group and Biosciences Doctoral Program, Faculty of Engineering, Campus Puente del Común, Universidad de la Sabana, 250001, Chía, Colombia
| | - Diana X Hurtado
- Bioprospecting Research Group and Biosciences Doctoral Program, Faculty of Engineering, Campus Puente del Común, Universidad de la Sabana, 250001, Chía, Colombia
| | - Roisin Doohan
- Marine Biodiscovery, School of Chemistry and Ryan Institute, National University of Ireland Galway (NUI Galway), University Road, H91 TK33, Galway, Ireland
| | - Olivier P Thomas
- Marine Biodiscovery, School of Chemistry and Ryan Institute, National University of Ireland Galway (NUI Galway), University Road, H91 TK33, Galway, Ireland
| | - Mónica Puyana
- Departamento de Ciencias Biológicas y Ambientales, Universidad Jorge Tadeo Lozano, Carrera 4 # 22-61, 110311, Bogotá, Colombia
| | - Edisson Tello
- Bioprospecting Research Group and Biosciences Doctoral Program, Faculty of Engineering, Campus Puente del Común, Universidad de la Sabana, 250001, Chía, Colombia.
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5
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Ben Ahmed Z, Mohamed Y, Johan V, Dejaegher B, Demeyer K, Vander Heyden Y. Defining a standardized methodology for the determination of the antioxidant capacity: case study of Pistacia atlantica leaves. Analyst 2020; 145:557-571. [DOI: 10.1039/c9an01643k] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Antioxidant activity can be measured by a variety of methods, that include hydrogen atom transfer (HAT) and single electron transfer (ET) methods.
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Affiliation(s)
- Ziyad Ben Ahmed
- Laboratory of Science Fundamental University Amar Telidji
- BP37G Laghouat
- Algeria
- Department of Analytical Chemistry
- Applied Chemometricsand Molecular Modelling
| | - Yousfi Mohamed
- Laboratory of Science Fundamental University Amar Telidji
- BP37G Laghouat
- Algeria
| | - Viaene Johan
- Department of Analytical Chemistry
- Applied Chemometricsand Molecular Modelling
- Vrije Universiteit Brussel (VUB)
- B-1090 Brussels
- Belgium
| | - Bieke Dejaegher
- Department of Analytical Chemistry
- Applied Chemometricsand Molecular Modelling
- Vrije Universiteit Brussel (VUB)
- B-1090 Brussels
- Belgium
| | - Kristiaan Demeyer
- Department of Toxicology
- Dermato-Cosmetology and Pharmacognosy
- VrijeUniversiteit Brussel (VUB)
- B-1030 Brussels
- Belgium
| | - Yvan Vander Heyden
- Department of Analytical Chemistry
- Applied Chemometricsand Molecular Modelling
- Vrije Universiteit Brussel (VUB)
- B-1090 Brussels
- Belgium
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Santacruz L, Thomas OP, Duque C, Puyana M, Tello E. Comparative Analyses of Metabolomic Fingerprints and Cytotoxic Activities of Soft Corals from the Colombian Caribbean. Mar Drugs 2019; 17:E37. [PMID: 30634471 PMCID: PMC6356725 DOI: 10.3390/md17010037] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2018] [Revised: 12/20/2018] [Accepted: 12/28/2018] [Indexed: 01/25/2023] Open
Abstract
Soft corals (Cnidaria, Anthozoa, Octocorallia) are a diverse group of marine invertebrates that inhabit various marine environments in tropical and subtropical areas. Several species are recognized as prolific sources of compounds with a wide array of biological activities. Recent advances in analytical techniques, supported by robust statistical analyses, have allowed the analysis and characterization of the metabolome present in a single living organism. In this study, a liquid chromatography-high resolution mass spectrometry metabolomic approach was applied to analyze the metabolite composition of 28 soft corals present in the Caribbean coast of Colombia. Multivariate data analysis was used to correlate the chemical fingerprints of soft corals with their cytotoxic activity against tumor cell lines for anticancer purpose. Some diterpenoids were identified as specific markers to discriminate between cytotoxic and non-cytotoxic crude extracts of soft corals against tumor cell lines. In the models generated from the comparative analysis of PLS-DA for tumor lines, A549 and SiHa, the diterpene 13-keto-1,11-dolabell-3(E),7(E),12(18)-triene yielded a high score in the variable importance in projection. These results highlight the potential of metabolomic approaches towards the identification of cytotoxic agents against cancer of marine origin. This workflow can be useful in several studies, mainly those that are time consuming, such as traditional bioprospecting of marine natural products.
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Affiliation(s)
- Liliana Santacruz
- Bioprospecting Research Group and Bioscience Doctoral Program, Faculty of Engineering, Campus Puente del Común, Universidad de La Sabana, 250001 Chía, Colombia.
| | - Olivier P Thomas
- Marine Biodiscovery, School of Chemistry and Ryan Institute, National University of Ireland Galway (NUI Galway), University Road, H91 TK33 Galway, Ireland.
| | - Carmenza Duque
- Departamento de Química, Universidad Nacional de Colombia, Carrera 30 # 45-03, 111321 Bogotá, Colombia.
| | - Mónica Puyana
- Departamento de Ciencias Biológicas y Ambientales, Universidad Jorge Tadeo Lozano, Carrera 4 # 22-61, 110311 Bogotá, Colombia.
| | - Edisson Tello
- Bioprospecting Research Group and Bioscience Doctoral Program, Faculty of Engineering, Campus Puente del Común, Universidad de La Sabana, 250001 Chía, Colombia.
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7
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Choo CY, Mohd Nor NA, Sahidan N, A. L, Hitotsuyanagi Y. Biomarkers identification of Lycopodiaceae and Huperziaceae species from peninsular Malaysia with HPLC chromatographic profiling and partial least square analysis. SEPARATION SCIENCE PLUS 2018. [DOI: 10.1002/sscp.201800085] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Chee-Yan Choo
- MedChem Herbal Research Group, Faculty of Pharmacy, Universiti Teknologi MARA Selangor Branch; Puncak Alam Campus; Selangor Malaysia
| | - Nurul Ain Mohd Nor
- MedChem Herbal Research Group, Faculty of Pharmacy, Universiti Teknologi MARA Selangor Branch; Puncak Alam Campus; Selangor Malaysia
| | - NorShahidah Sahidan
- MedChem Herbal Research Group, Faculty of Pharmacy, Universiti Teknologi MARA Selangor Branch; Puncak Alam Campus; Selangor Malaysia
| | - Latiff A.
- Faculty of Sciences and Technology; Universiti Kebangsaan Malaysia; Bangi Malaysia
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Potentially antidiabetic and antihypertensive compounds identified from Pistacia atlantica leaf extracts by LC fingerprinting. J Pharm Biomed Anal 2018; 149:547-556. [DOI: 10.1016/j.jpba.2017.11.049] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2017] [Revised: 11/19/2017] [Accepted: 11/20/2017] [Indexed: 01/20/2023]
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9
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Hefny Gad M, Tuenter E, El-Sawi N, Younes S, El-Ghadban EM, Demeyer K, Pieters L, Vander Heyden Y, Mangelings D. Identification of some Bioactive Metabolites in a Fractionated Methanol Extract from Ipomoea aquatica (Aerial Parts) through TLC, HPLC, UPLC-ESI-QTOF-MS and LC-SPE-NMR Fingerprints Analyses. PHYTOCHEMICAL ANALYSIS : PCA 2018; 29:5-15. [PMID: 28776774 DOI: 10.1002/pca.2709] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2017] [Accepted: 06/03/2017] [Indexed: 05/28/2023]
Abstract
INTRODUCTION The plant species Ipomoea aquatica contains various bioactive constituents, e.g. phenols and flavonoids, which have several medical uses. All previous studies were executed in Asia; however, no reports are available from Africa, and the secondary metabolites of this plant species from Africa are still unknown. OBJECTIVE The present study aims finding suitable conditions to identify the bioactive compounds from different fractions. METHODOLOGY Chromatographic fingerprint profiles of different fractions were developed using high-performance liquid chromatography (HPLC) and then these conditions were transferred to thin-layer chromatography (TLC). Subsequently, the chemical structure of some bioactive compounds was elucidated using ultra-performance liquid chromatography-quadrupole time of flight-tandem mass spectrometry (UPLC-QTOF-MS) and liquid chromatography-solid phase extraction-nuclear magnetic resonance (LC-SPE-NMR) spectroscopy. RESULTS The HPLC fingerprints, developed on two coupled Chromolith RP-18e columns, using a gradient mobile phase (methanol/water/trifluoroacetic acid, 5:95:0.05, v/v/v), showed more peaks than the TLC profile. The TLC fingerprint allows the identification of the types of chemical constituents, e.g. flavonoids. Two flavonoids (nicotiflorin and ramnazin-3-O-rutinoside) and two phenolic compounds (dihydroxybenzoic acid pentoside and di-pentoside) were tentatively identified by QTOF-MS, while NMR confirmed the structure of rutin and nicotiflorin. CONCLUSION The HPLC and TLC results showed that HPLC fingerprints give more and better separated peaks, but TLC helped in determining the class of the active compounds in some fractions. Bioactive constituents were identified as well using MS and NMR analyses. Two flavonoids and two phenolic compounds were tentatively identified in this species for the first time, to the best of our knowledge. Copyright © 2017 John Wiley & Sons, Ltd.
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Affiliation(s)
- Mahmoud Hefny Gad
- Department of Analytical Chemistry and Pharmaceutical Technology, Centre for Pharmaceutical Research, Vrije Universiteit Brussel (VUB), Laarbeeklaan 103, B-1090, Brussels, Belgium
- Medicinal and Aromatic Plants Research Department, Horticulture Institute, Agriculture Research Centre, Dokki, Giza, Egypt
| | - Emmy Tuenter
- Natural Products & Food Research and Analysis (NatuRA), Department of Pharmaceutical Sciences, University of Antwerp, Universiteitsplein 1, B-2610, Antwerp, Belgium
| | - Nagwa El-Sawi
- Department of Chemistry, Faculty of Science, Sohag University, Sohag, Egypt
| | - Sabry Younes
- Department of Chemistry, Faculty of Science, Sohag University, Sohag, Egypt
| | - El-Mewafy El-Ghadban
- Medicinal and Aromatic Plants Research Department, Horticulture Institute, Agriculture Research Centre, Dokki, Giza, Egypt
| | - Kristiaan Demeyer
- Department of Toxicology, Dermato-Cosmetology and Pharmacognosy, Centre for Pharmaceutical Research, Vrije Universiteit Brussel (VUB), Laarbeeklaan 103, B-1090, Brussels, Belgium
| | - Luc Pieters
- Natural Products & Food Research and Analysis (NatuRA), Department of Pharmaceutical Sciences, University of Antwerp, Universiteitsplein 1, B-2610, Antwerp, Belgium
| | - Yvan Vander Heyden
- Department of Analytical Chemistry and Pharmaceutical Technology, Centre for Pharmaceutical Research, Vrije Universiteit Brussel (VUB), Laarbeeklaan 103, B-1090, Brussels, Belgium
| | - Debby Mangelings
- Department of Analytical Chemistry and Pharmaceutical Technology, Centre for Pharmaceutical Research, Vrije Universiteit Brussel (VUB), Laarbeeklaan 103, B-1090, Brussels, Belgium
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Thai TH, Hai NT, Hien NT, Ha CTT, Cuong NT, Binh PT, Dang NH, Dat NT. Cytotoxic Constituents of Mallotus Microcarpus. Nat Prod Commun 2017. [DOI: 10.1177/1934578x1701200325] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
A new 3-methoxybenzensulfonic acid 4- O-β-D-glucopyranoside (1), and ten known compounds (2–11) were isolated from the methanolic extract of the stems of Mallotus microcarpus. The cytotoxicity of the isolated compounds was evaluated by the MTT method. 3-Methoxybenzensulfonic acid 4- O-β-D-glucopyranoside (1) and methyl salicylate 2-rutinoside (5) showed strong cytotoxicity against EGFR-TKI-resistant human lung cancer A549 cells in comparison with camptothecin. Compound 1, leonuriside A (2), 3,4'-dihydroxypropiophenone 3- O-glucoside (6) and (1 R,2 S)-hovetrichoside A (10) inhibited the growth of human breast cancer MCF-7 cell line with IC50 values in the range of 0.48–1.78 μM. This is the first report on the chemical composition and cytotoxic activity of M. microcarpus.
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Affiliation(s)
- Tran Huy Thai
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology (VAST), 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
- Graduate University of Science and Technology, VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Nguyen Thi Hai
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology (VAST), 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
- Graduate University of Science and Technology, VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
- Faculty of Natural Science and Technology, Tan Trao University, Yen Son District, Tuyen Quang, Vietnam
| | - Nguyen Thi Hien
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology (VAST), 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Chu Thị Thu Ha
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology (VAST), 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Nguyen The Cuong
- Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology (VAST), 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Pham Thanh Binh
- Institute of Marine Biochemistry (IMBC), VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Nguyen Hai Dang
- Institute of Marine Biochemistry (IMBC), VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
| | - Nguyen Tien Dat
- Graduate University of Science and Technology, VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
- Institute of Marine Biochemistry (IMBC), VAST, 18-Hoang Quoc Viet, Cau Giay, Hanoi, Vietnam
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Prediction of Radix Astragali Immunomodulatory Effect of CD80 Expression from Chromatograms by Quantitative Pattern-Activity Relationship. BIOMED RESEARCH INTERNATIONAL 2017; 2017:3923865. [PMID: 28337449 PMCID: PMC5350422 DOI: 10.1155/2017/3923865] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/09/2016] [Revised: 12/15/2016] [Accepted: 01/15/2017] [Indexed: 11/22/2022]
Abstract
The current use of a single chemical component as the representative quality control marker of herbal food supplement is inadequate. In this CD80-Quantitative-Pattern-Activity-Relationship (QPAR) study, we built a bioactivity predictive model that can be applicable for complex mixtures. Through integrating the chemical fingerprinting profiles of the immunomodulating herb Radix Astragali (RA) extracts, and their related biological data of immunological marker CD80 expression on dendritic cells, a chemometric model using the Elastic Net Partial Least Square (EN-PLS) algorithm was established. The EN-PLS algorithm increased the biological predictive capability with lower value of RMSEP (11.66) and higher values of Rp2 (0.55) when compared to the standard PLS model. This CD80-QPAR platform provides a useful predictive model for unknown RA extract's bioactivities using the chemical fingerprint inputs. Furthermore, this bioactivity prediction platform facilitates identification of key bioactivity-related chemical components within complex mixtures for future drug discovery and understanding of the batch-to-batch consistency for quality clinical trials.
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Klein-Júnior LC, Viaene J, Tuenter E, Salton J, Gasper AL, Apers S, Andries JP, Pieters L, Henriques AT, Vander Heyden Y. The use of chemometrics to study multifunctional indole alkaloids from Psychotria nemorosa (Palicourea comb. nov.). Part II: Indication of peaks related to the inhibition of butyrylcholinesterase and monoamine oxidase-A. J Chromatogr A 2016; 1463:71-80. [DOI: 10.1016/j.chroma.2016.08.005] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2016] [Revised: 08/01/2016] [Accepted: 08/02/2016] [Indexed: 01/12/2023]
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Alvarez-Zapata R, Sánchez-Medina A, Chan-Bacab M, García-Sosa K, Escalante-Erosa F, García-Rodríguez RV, Peña-Rodríguez LM. Chemometrics-enhanced high performance liquid chromatography-ultraviolet detection of bioactive metabolites from phytochemically unknown plants. J Chromatogr A 2015; 1422:213-221. [PMID: 26515384 DOI: 10.1016/j.chroma.2015.10.026] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Revised: 09/28/2015] [Accepted: 10/08/2015] [Indexed: 10/22/2022]
Abstract
This work describes the use of Colubrina greggii as a model to investigate the use of chemometric analysis combined with data from a leishmanicidal bioassay, using Principal Component Analysis (PCA) and Orthogonal Projections to Latent Structures (O-PLS), to detect biologically active natural products in crude extracts from plants having little or no phytochemical information. A first analysis of the HPLC-UV profiles of the extract and its semi-purified fractions using both Principal Component Analysis (PCA) and Orthogonal Partial Least Squares (O-PLS) indicated that the components at tR 48.2, 48.7, 51.8min correlated with the variation in bioactivity. However, a further O-PLS analysis of the HPLC-UV profiles of fractions obtained through a final semi-preparative HPLC purification showed two components at tR 48.7 and 49.5min which correlated with the variation of the bioactivity in a high performance predictive model, with high determination coefficient, high correlation coefficient values (R(2) and Q(2)=0.99) and a low root mean square error (RMSE=0.018). This study demonstrates that the association of chemometric analysis with bioassay results can be an excellent strategy for the detection and isolation of bioactive metabolites from phytochemically unknown plant crude extracts.
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Affiliation(s)
- Radamés Alvarez-Zapata
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Calle 43 N. 130, Col. Chuburná, CP 97200 Mérida, Yucatán, Mexico
| | - Alberto Sánchez-Medina
- Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, Av. Dr. Luis Castelazo Ayala S/N, Col. Industrial Ánimas, CP 91190 Xalapa, Veracruz, Mexico
| | - Manuel Chan-Bacab
- Departamento de Microbiología Ambiental y Biotecnología, Universidad Autónoma de Campeche, Av. Agustín Melgar S/N, Col. Buenavista, CP 24039 Campeche, Campeche, México
| | - Karlina García-Sosa
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Calle 43 N. 130, Col. Chuburná, CP 97200 Mérida, Yucatán, Mexico
| | - Fabiola Escalante-Erosa
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Calle 43 N. 130, Col. Chuburná, CP 97200 Mérida, Yucatán, Mexico
| | - Rosa Virginia García-Rodríguez
- Unidad de Servicios de Apoyo en Resolución Analítica, Universidad Veracruzana, Av. Dr. Luis Castelazo Ayala S/N, Col. Industrial Ánimas, CP 91190 Xalapa, Veracruz, Mexico
| | - Luis Manuel Peña-Rodríguez
- Unidad de Biotecnología, Centro de Investigación Científica de Yucatán, Calle 43 N. 130, Col. Chuburná, CP 97200 Mérida, Yucatán, Mexico.
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Chen H, Poon J, Poon SK, Cui L, Fan K, Sze D. Ensemble learning for prediction of the bioactivity capacity of herbal medicines from chromatographic fingerprints. BMC Bioinformatics 2015; 16 Suppl 12:S4. [PMID: 26329995 PMCID: PMC4705500 DOI: 10.1186/1471-2105-16-s12-s4] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
Background Recent quality control of complex mixtures, including herbal medicines, is not limited to chemical chromatographic definition of one or two selected compounds; multivariate linear regression methods with dimension reduction or regularisation have been used to predict the bioactivity capacity from the chromatographic fingerprints of the herbal extracts. The challenge of this type of analysis requires a multi-dimensional approach at two levels: firstly each herb comprises complex mixtures of active and non-active chemical components; and secondly there are many factors relating to the growth, production, and processing of the herbal products. All these factors result in the significantly diverse concentrations of bioactive compounds in the herbal products. Therefore, it is imminent to have a predictive model with better generalisation that can accurately predict the bioactivity capacity of samples when only the chemical fingerprints data are available. Results In this study, the algorithm of Stacking Multivariate Linear Regression (SMLR) and a few other commonly used chemometric approaches were evaluated. They were to predict the Cluster of Differentiation 80 (CD80) expression bioactivity of a commonly used herb, Astragali Radix (AR), from the corresponding chemical chromatographic fingerprints. SMLR provides a superior prediction accuracy in comparison with the other multivariate linear regression methods of PCR, PLSR, OPLS and EN in terms of MSEtest and the goodness of prediction of test samples. Conclusions SMLR is a better platform than some multivariate linear regression methods. The first advantage of SMLR is that it has better generalisation to predict the bioactivity capacity of herbal medicines from their chromatographic fingerprints. Future studies should aim to further improve the SMLR algorithm. The second advantage of SMLR is that single chemical compounds can be effectively identified as highly bioactive components which demands further CD80 bioactivity confirmation..
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Viaene J, Goodarzi M, Dejaegher B, Tistaert C, Hoang Le Tuan A, Nguyen Hoai N, Chau Van M, Quetin-Leclercq J, Vander Heyden Y. Discrimination and classification techniques applied on Mallotus and Phyllanthus high performance liquid chromatography fingerprints. Anal Chim Acta 2015; 877:41-50. [DOI: 10.1016/j.aca.2015.02.034] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2014] [Revised: 02/02/2015] [Accepted: 02/10/2015] [Indexed: 10/24/2022]
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