1
|
Tan EX, Leong SX, Liew WA, Phang IY, Ng JY, Tan NS, Lee YH, Ling XY. Forward-predictive SERS-based chemical taxonomy for untargeted structural elucidation of epimeric cerebrosides. Nat Commun 2024; 15:2582. [PMID: 38519477 PMCID: PMC10960001 DOI: 10.1038/s41467-024-46838-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2023] [Accepted: 03/08/2024] [Indexed: 03/25/2024] Open
Abstract
Achieving untargeted chemical identification, isomeric differentiation, and quantification is critical to most scientific and technological problems but remains challenging. Here, we demonstrate an integrated SERS-based chemical taxonomy machine learning framework for untargeted structural elucidation of 11 epimeric cerebrosides, attaining >90% accuracy and robust single epimer and multiplex quantification with <10% errors. First, we utilize 4-mercaptophenylboronic acid to selectively capture the epimers at molecular sites of isomerism to form epimer-specific SERS fingerprints. Corroborating with in-silico experiments, we establish five spectral features, each corresponding to a structural characteristic: (1) presence/absence of epimers, (2) monosaccharide/cerebroside, (3) saturated/unsaturated cerebroside, (4) glucosyl/galactosyl, and (5) GlcCer or GalCer's carbon chain lengths. Leveraging these insights, we create a fully generalizable framework to identify and quantify cerebrosides at concentrations between 10-4 to 10-10 M and achieve multiplex quantification of binary mixtures containing biomarkers GlcCer24:1, and GalCer24:1 using their untrained spectra in the models.
Collapse
Affiliation(s)
- Emily Xi Tan
- School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University, 21 Nanyang Link, Nanyang, 637371, Singapore
| | - Shi Xuan Leong
- School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University, 21 Nanyang Link, Nanyang, 637371, Singapore
| | - Wei An Liew
- School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University, 21 Nanyang Link, Nanyang, 637371, Singapore
| | - In Yee Phang
- School of Chemical and Material Engineering, Jiangnan University, Wuxi, 214122, People's Republic of China
| | - Jie Ying Ng
- KK Research Centre, KKH, 100 Bukit Timah Road, Singapore, 229899, Singapore
| | - Nguan Soon Tan
- Lee Kong Chian School of Medicine, Nanyang Technological University, 59 Nanyang Drive, Singapore, 636921, Singapore
- School of Biological Sciences, Nanyang Technological University Singapore, 60 Nanyang Drive, Singapore, 637551, Singapore
| | - Yie Hou Lee
- KK Research Centre, KKH, 100 Bukit Timah Road, Singapore, 229899, Singapore.
- Obstetrics and Gynaecology Academic Clinical Program, Duke-NUS Medical School, Singapore, 169857, Singapore.
- Critical Analytics in Manufacturing Personalized Medicine, Singapore-MIT Alliance for Research and Technology, 1 CREATE Way, #04-13/14 Enterprise Wing, Singapore, 138602, Singapore.
| | - Xing Yi Ling
- School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University, 21 Nanyang Link, Nanyang, 637371, Singapore.
- School of Chemical and Material Engineering, Jiangnan University, Wuxi, 214122, People's Republic of China.
- Lee Kong Chian School of Medicine, Nanyang Technological University, 59 Nanyang Drive, Singapore, 636921, Singapore.
- Institute for Digital Molecular Analytics and Science (IDMxS), Nanyang Technological University, 59 Nanyang Drive, Singapore, 636921, Singapore.
| |
Collapse
|
2
|
Amornwairat P, Pissuwan D. Colorimetric Sensing of Gram-Negative and Gram-Positive Bacteria Using 4-Mercaptophenylboronic Acid-Functionalized Gold Nanoparticles in the Presence of Polyethylene Glycol. ACS OMEGA 2023; 8:13456-13464. [PMID: 37065017 PMCID: PMC10099429 DOI: 10.1021/acsomega.3c01205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Accepted: 03/21/2023] [Indexed: 06/19/2023]
Abstract
Gold nanoparticles (GNPs) have been used as detection probes for rapid and sensitive detection of various analytes, including bacteria. Here, we demonstrate a simple strategy for bacterial detection using GNPs functionalized with 4-mercaptophenylboronic acid (4-MPBA). 4-MPBA can interact with peptidoglycan or lipopolysaccharides present in bacterial organelles. After the addition of a high concentration of sodium hydroxide (NaOH), the functionalization of the surface of 50 nm GNPs with 4-MPBA (4-MPBA@GNPs) in the presence of polyethylene glycol results in a color change because of the aggregation of 4-MPBA@GNPs. This color change is dependent on the amount of bacteria present in the tested samples. Escherichia coli (E. coli) K-12 and Staphylococcus aureus (S. aureus) are used as Gram-negative and Gram-positive bacterial models, respectively. The color change can be detected within an hour by the naked eye. A linear relationship is observed between bacterial concentrations and the absorbance intensity at 533 nm; R 2 values of 0.9152 and 0.8185 are obtained for E. coli K-12 and S. aureus, respectively. The limit of detection of E. coli K-12 is ∼2.38 × 102 CFU mL-1 and that of S. aureus is ∼4.77 × 103 CFU mL-1. This study provides a promising approach for the rapid detection of target Gram-negative and Gram-positive bacteria.
Collapse
Affiliation(s)
- Pinyapat Amornwairat
- Materials
and Engineering Graduate Program, Faculty of Science, Mahidol University, Rama VI Road, Ratchathewi, Payathai, Bangkok 10400, Thailand
- Nanobiotechnology
and Nanobiomaterials Research Laboratory, School of Materials Science
and Innovation, Faculty of Science, Mahidol
University, Rama VI Road, Ratchathewi, Payathai, Bangkok 10400, Thailand
| | - Dakrong Pissuwan
- Materials
and Engineering Graduate Program, Faculty of Science, Mahidol University, Rama VI Road, Ratchathewi, Payathai, Bangkok 10400, Thailand
- Nanobiotechnology
and Nanobiomaterials Research Laboratory, School of Materials Science
and Innovation, Faculty of Science, Mahidol
University, Rama VI Road, Ratchathewi, Payathai, Bangkok 10400, Thailand
| |
Collapse
|
3
|
Hu S, Huo L, He J, Jin Y, Deng Y, Liu D. Ginseng glycoprotein and ginsenoside facilitate anti UV damage effects in diabetic rats. Front Pharmacol 2022; 13:1075594. [PMID: 36588701 PMCID: PMC9800513 DOI: 10.3389/fphar.2022.1075594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Accepted: 12/07/2022] [Indexed: 12/23/2022] Open
Abstract
Diabetes mellitus combined with ultraviolet (UV) radiation damage not only brings great mental stress to patients, but also seriously impairs their quality of life. A UV-irradiated diabetic rat trauma skin model was established by us to investigate the effects and possible mechanisms of ginsenoside and glycoprotein on skin trauma repair in UV-irradiated diabetic rats. In the study, ginsenosides and ginseng glycoproteins were extracted from different parts of ginseng roots. It found that it's easier to prepare saponins in ginseng bark and proteins in ginseng core in large quantities. Since glycoprotein-like metabolites are relatively novel ginseng extracts, specifically characterized its structures. It was verified that the ginseng glycoproteins are not toxic to HaCaT cells and can significantly increase the survival of HaCaT cells after UV damage at the in vitro cellular level. Experiments in vivo were conducted to evaluate the therapeutic effects of ginsenoside and ginseng glycoprotein in a rat model of diabetes mellitus combined with UV irradiation injury. Histopathological changes on rat skin after treatment with ginsenoside and ginseng glycoprotein were evaluated by hematoxylin and eosin (H&E) staining and aldehyde fuchsine staining. The expression levels of malondialdehyde (MDA), superoxide dismutase (SOD), glutathione peroxidase (GSH-Px), matrix metalloproteinases (MMPs), hydroxyproline (HYP), interleukin-6 (IL-6), interleukin-1β (IL-1β), and tumor necrosis factor-α (TNF-α) were measured. The results indicate that both ginsenoside and ginseng glycoprotein could improve skin damage and ulcers caused by diabetes combined with UV irradiation and could alleviate a range of skin damage caused by the combination of diabetes and UV irradiation, including peroxidation and collagen fiber loss. Ginsenoside and ginseng glycoproteins can be considered as natural product candidates for the development of new drugs to treat diabetes combined with UV irradiation-induced skin damage.
Collapse
Affiliation(s)
- Shuang Hu
- School of Pharmacy, Changchun University of Chinese Medicine, Changchun, China
| | - Lulu Huo
- School of Pharmacy, Changchun University of Chinese Medicine, Changchun, China
| | - Jing He
- School of Pharmacy, Changchun University of Chinese Medicine, Changchun, China
| | - Ye Jin
- School of Pharmacy, Changchun University of Chinese Medicine, Changchun, China,*Correspondence: Ye Jin, ; Yongzhi Deng, ; Da Liu,
| | - Yongzhi Deng
- Department of Acupuncture and Massage, The Third Affiliated Hospital of Changchun University of Chinese Medicine, Changchun, China,*Correspondence: Ye Jin, ; Yongzhi Deng, ; Da Liu,
| | - Da Liu
- School of Pharmacy, Changchun University of Chinese Medicine, Changchun, China,*Correspondence: Ye Jin, ; Yongzhi Deng, ; Da Liu,
| |
Collapse
|
4
|
Charlesworth K, van Heijst N, Maxwell A, Baylis B, Grossutti M, Leitch JJ, Dutcher JR. Binding Affinity of Concanavalin A to Native and Acid-Hydrolyzed Phytoglycogen Nanoparticles. Biomacromolecules 2022; 23:4778-4785. [PMID: 36252236 DOI: 10.1021/acs.biomac.2c00951] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Phytoglycogen (PG) is a polysaccharide produced in the kernels of sweet corn as soft, highly branched, compact nanoparticles. Its tree-like or dendritic architecture, combined with a high-safety profile, makes PG nanoparticles attractive for use in biological applications, many of which rely on the association or binding of small biomolecules. We have developed a methodology to functionalize surface plasmon resonance (SPR) sensor surfaces with PG nanoparticles, and we demonstrate the utility of the PG-functionalized SPR sensor by measuring the binding affinity of the tetrameric concanavalin A (ConA) protein to both native PG nanoparticles and smaller, softer acid-hydrolyzed PG nanoparticles. We measure comparable values of the equilibrium association constant K for native and acid-hydrolyzed PG, with a slightly smaller value for the acid-hydrolyzed particles that we attribute to unfavorable lateral interactions between the tetrameric subunits of ConA due to the increase in surface curvature of the smaller acid-hydrolyzed PG particles. We also use infrared reflection-absorption spectroscopy (IRRAS) to show that ConA maintains a large fraction of its native conformation, and thus its bioactivity, upon binding to PG, representing an important step toward the realization of PG as a novel bioactive delivery vehicle.
Collapse
Affiliation(s)
| | | | - Aidan Maxwell
- Department of Physics, University of Guelph, Guelph, Ontario, CanadaN1G 2W1
| | - Benjamin Baylis
- Department of Physics, University of Guelph, Guelph, Ontario, CanadaN1G 2W1
| | - Michael Grossutti
- Department of Physics, University of Guelph, Guelph, Ontario, CanadaN1G 2W1
| | - J Jay Leitch
- Department of Physics, University of Guelph, Guelph, Ontario, CanadaN1G 2W1
| | - John R Dutcher
- Department of Physics, University of Guelph, Guelph, Ontario, CanadaN1G 2W1
| |
Collapse
|
5
|
Kakuta T, Manyuan N, Kawasaki H. UV-Absorbing Ligand Capped Gold Nanoparticles for the SALDI-MS Analysis of Small Molecules. Mass Spectrom (Tokyo) 2022; 11:A0107. [PMID: 36713807 PMCID: PMC9853113 DOI: 10.5702/massspectrometry.a0107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 10/27/2022] [Indexed: 11/05/2022] Open
Abstract
We report that modifying the surface of gold nanoparticles (Au NPs) with 2-mercaptopyridine-3-carboxylic acid (MPyCA) enhances surface-assisted laser desorption/ionization (SALDI) performance in the analysis of small molecules. The MPyCA ligand has a strong UV absorbance at the wavelengths of the typical MALDI laser at 337 nm, resulting in efficient thermal/energy transfer from the Au NPs to analytes during pulse-laser irradiation. In addition, the MPyCA ligand contains carboxylic acid and pyridine groups, providing affinity to various analytes through acid-base interactions. Irganox1010, glucose and meropenem were utilized as model analytes to evaluate SALDI performance because these molecules are generally ionized with difficulty by conventional MALDI-MS. Our results demonstrate that the MPyCA-Au NP based SALDI-MS could detect Irganox1010, glucose and meropenem with stronger ion peaks for these molecules compared to MALDI-MS using CHCA. The limit of detection (LOD) for meropenem was much lower in the case of SALDI (LOD=1 ng/mL) compared to MALDI (LOD=10 μg/mL).
Collapse
Affiliation(s)
- Tomomi Kakuta
- Department of Chemistry and Materials Engineering, Faculty of Chemistry, Materials and Bioengineering, Kansai University, Osaka, Japan
| | - Nichayanan Manyuan
- Department of Chemistry and Materials Engineering, Faculty of Chemistry, Materials and Bioengineering, Kansai University, Osaka, Japan
| | - Hideya Kawasaki
- Department of Chemistry and Materials Engineering, Faculty of Chemistry, Materials and Bioengineering, Kansai University, Osaka, Japan,Correspondence to: Hideya Kawasaki, Department of Chemistry and Materials Engineering, Faculty of Chemistry, Materials and Bioengineering, Kansai University, 3–3–35 Yamate-cho, Suita, Osaka 564–8680, Japan, e-mail:
| |
Collapse
|
6
|
Xie Z, Yan Y, Tang K, Ding CF. Post-synthesis modification of covalent organic frameworks for ultrahigh enrichment of low-abundance glycopeptides from human saliva and serum. Talanta 2022; 236:122831. [PMID: 34635221 DOI: 10.1016/j.talanta.2021.122831] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2021] [Revised: 08/26/2021] [Accepted: 08/27/2021] [Indexed: 02/07/2023]
Abstract
In this study, a novel type of covalent organic framework (COF) material rich in boronic acid sites was prepared through post-synthesis modification (TbBD@PEI@Au@4-MPBA). The surface of COF material had abundant carboxylic acid groups, which could bind a large amount of polyethyleneimine (PEI) through electrostatic interaction. At the same time, the amino groups on the PEI can be grafted with Au nanoparticles (Au NPs) in situ, and then 4-mercaptophenylboronic acid (4-MPBA) was modified by the reaction of Au and sulfhydryl groups. The massive grafting of boronic acid groups made the material's enrichment effect on glycopeptides expected. The results of experiments indicated that the composite material has high sensitivity (5 amol μL-1) and selectivity (1:1000). In addition, the material has outstanding stability and reusability, with a load capacity of about 100 mg g-1 and a recovery of 99.3 ± 2.2%. What's more, after enriched by TbBD@PEI@Au@4-MPBA, 56 endogenous glycopeptides from fresh human saliva were detected by MALDI-TOF MS, 56 unique glycopeptides corresponding to 31 glycoproteins from human saliva and 513 unique glycopeptides corresponding to 208 glycoproteins from serum of throat cancer patient were detected by nano-LC-MS/MS, respectively, which was expected to be applied to glycoproteomics research.
Collapse
Affiliation(s)
- Zehu Xie
- Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis of Zhejiang Province, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang, 315211, China
| | - Yinghua Yan
- Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis of Zhejiang Province, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang, 315211, China.
| | - Keqi Tang
- Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis of Zhejiang Province, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang, 315211, China
| | - Chuan-Fan Ding
- Key Laboratory of Advanced Mass Spectrometry and Molecular Analysis of Zhejiang Province, Institute of Mass Spectrometry, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, Zhejiang, 315211, China.
| |
Collapse
|
7
|
Ielo I, Rando G, Giacobello F, Sfameni S, Castellano A, Galletta M, Drommi D, Rosace G, Plutino MR. Synthesis, Chemical-Physical Characterization, and Biomedical Applications of Functional Gold Nanoparticles: A Review. Molecules 2021; 26:5823. [PMID: 34641367 PMCID: PMC8510367 DOI: 10.3390/molecules26195823] [Citation(s) in RCA: 40] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Revised: 09/17/2021] [Accepted: 09/20/2021] [Indexed: 12/12/2022] Open
Abstract
Relevant properties of gold nanoparticles, such as stability and biocompatibility, together with their peculiar optical and electronic behavior, make them excellent candidates for medical and biological applications. This review describes the different approaches to the synthesis, surface modification, and characterization of gold nanoparticles (AuNPs) related to increasing their stability and available features useful for employment as drug delivery systems or in hyperthermia and photothermal therapy. The synthetic methods reported span from the well-known Turkevich synthesis, reduction with NaBH4 with or without citrate, seeding growth, ascorbic acid-based, green synthesis, and Brust-Schiffrin methods. Furthermore, the nanosized functionalization of the AuNP surface brought about the formation of self-assembled monolayers through the employment of polymer coatings as capping agents covalently bonded to the nanoparticles. The most common chemical-physical characterization techniques to determine the size, shape and surface coverage of AuNPs are described underlining the structure-activity correlation in the frame of their applications in the biomedical and biotechnology sectors.
Collapse
Affiliation(s)
- Ileana Ielo
- Institute for the Study of Nanostructured Materials, ISMN—CNR, Palermo, c/o Department of ChiBioFarAm, University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (I.I.); (F.G.); (S.S.); (A.C.)
| | - Giulia Rando
- Department of Chemical, Biological, Pharmaceutical and Analytical Sciences (ChiBioFarAm), University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (G.R.); (M.G.); (D.D.)
| | - Fausta Giacobello
- Institute for the Study of Nanostructured Materials, ISMN—CNR, Palermo, c/o Department of ChiBioFarAm, University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (I.I.); (F.G.); (S.S.); (A.C.)
| | - Silvia Sfameni
- Institute for the Study of Nanostructured Materials, ISMN—CNR, Palermo, c/o Department of ChiBioFarAm, University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (I.I.); (F.G.); (S.S.); (A.C.)
- Department of Engineering, University of Messina, Contrada di Dio, S. Agata, 98166 Messina, Italy
| | - Angela Castellano
- Institute for the Study of Nanostructured Materials, ISMN—CNR, Palermo, c/o Department of ChiBioFarAm, University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (I.I.); (F.G.); (S.S.); (A.C.)
| | - Maurilio Galletta
- Department of Chemical, Biological, Pharmaceutical and Analytical Sciences (ChiBioFarAm), University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (G.R.); (M.G.); (D.D.)
| | - Dario Drommi
- Department of Chemical, Biological, Pharmaceutical and Analytical Sciences (ChiBioFarAm), University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (G.R.); (M.G.); (D.D.)
| | - Giuseppe Rosace
- Department of Engineering and Applied Sciences, University of Bergamo, Viale Marconi 5, 24044 Dalmine, Italy
| | - Maria Rosaria Plutino
- Institute for the Study of Nanostructured Materials, ISMN—CNR, Palermo, c/o Department of ChiBioFarAm, University of Messina, Viale F. Stagno d’Alcontres 31, Vill. S. Agata, 98166 Messina, Italy; (I.I.); (F.G.); (S.S.); (A.C.)
| |
Collapse
|
8
|
Shen Y, Xiao K, Tian Z. Site- and structure-specific characterization of the human urinary N-glycoproteome with site-determining and structure-diagnostic product ions. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2021; 35:e8952. [PMID: 32965048 DOI: 10.1002/rcm.8952] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2019] [Revised: 09/14/2020] [Accepted: 09/15/2020] [Indexed: 06/11/2023]
Abstract
RATIONALE N-glycosylation is one of the most common protein post-translational modifications; it is extremely complex with multiple glycoforms from different monosaccharide compositions, sequences, glycosidic linkages, and anomeric positions. Each glycoform functions with a particular site- and structure-specific N-glycan that can be fully characterized using state-of-the-art tandem mass spectrometry (MS/MS) and the intact N-glycopeptide database search engine GPSeeker that we recently developed. Urine has recently gained increasing attention as a non-invasive source for disease marker discovery. In this study, we report our structure-specific N-glycoproteomics study of human urine. METHODS We performed trypsin digestion, Zwitterionic Hydrophilic Interaction chromatography (ZIC-HILIC) enrichment, C18-RPLC/nano-ESI-MS/MS using HCD with stepped normalized collisional energies, and GPSeeker database search for a comprehensive site- and structure-specific N-glycoproteomics characterization of the human urinary N-glycoproteome at the intact N-glycopeptide level. For this, we used b/y product ion pairs from the GlcNAc-containing site-determining peptide backbone and structure-diagnostic product ions from the N-glycan moieties, respectively. RESULTS We identified 2986 intact N-glycopeptides with comprehensive site and structure information for the peptide backbones (amino acid sequences and N-glycosites) and the N-glycan moieties (monosaccharide compositions, sequences/linkages). The 2986 intact N-glycopeptide IDs corresponded to 754 putative N-glycan linkage structures on 419 N-glycosites of 450 peptide backbones from 327 intact N-glycoproteins. Next, 146 linkage structures and 200 N-glycosites were confirmed with structure-diagnostic and GlcNAc-containing site-determining product ions, respectively. CONCLUSIONS We found 106 new N-glycosites not annotated in the current UniProt database. The elution-abundance patterns of urinary intact N-glycopeptide oxonium ions (m/z 138 and 204) of the same subject were temporally stable during the day and over 6 months. These patterns are rather different among different subjects. The results implied an interesting possibility that glycopeptide oxonium ion patterns could serve as distinguishing markers between individuals and/or between physiological and pathological states.
Collapse
Affiliation(s)
- Yun Shen
- School of Chemical Science and Engineering and Shanghai Key Laboratory of Chemical Assessment and Sustainability, Tongji University, Shanghai, 200092, China
| | - Kaijie Xiao
- School of Chemical Science and Engineering and Shanghai Key Laboratory of Chemical Assessment and Sustainability, Tongji University, Shanghai, 200092, China
| | - Zhixin Tian
- School of Chemical Science and Engineering and Shanghai Key Laboratory of Chemical Assessment and Sustainability, Tongji University, Shanghai, 200092, China
| |
Collapse
|
9
|
Fang D, Zhang S, Dai H, Hong Z, Lin Y. A self-enhanced renewable electrochemiluminescence biosensing platform for ultrasensitive detection of sialic acid. Electrochim Acta 2019. [DOI: 10.1016/j.electacta.2019.134956] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
|
10
|
Nanoparticle-based surface assisted laser desorption ionization mass spectrometry: a review. Mikrochim Acta 2019; 186:682. [DOI: 10.1007/s00604-019-3770-5] [Citation(s) in RCA: 59] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2019] [Accepted: 08/16/2019] [Indexed: 12/28/2022]
|
11
|
Capture and Analysis of Cell Surface N-Glycans by Hydrazide-Modified Magnetic Beads and CE-LIF. Chromatographia 2019. [DOI: 10.1007/s10337-019-03742-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
|
12
|
Liu S, Lämmerhofer M. Functionalized gold nanoparticles for sample preparation: A review. Electrophoresis 2019; 40:2438-2461. [PMID: 31056767 DOI: 10.1002/elps.201900111] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Revised: 04/23/2019] [Accepted: 04/27/2019] [Indexed: 12/13/2022]
Abstract
Sample preparation is a crucial step for the reliable and accurate analysis of both small molecule and biopolymers which often involves processes such as isolation, pre-concentration, removal of interferences (purification), and pre-processing (e.g., enzymatic digestion) of targets from a complex matrix. Gold nanoparticle (GNP)-assisted sample preparation and pre-concentration has been extensively applied in many analytical procedures in recent years due to the favorable and unique properties of GNPs such as size-controlled synthesis, large surface-to-volume ratio, surface inertness, straightforward surface modification, easy separation requiring minimal manipulation of samples. This review article primarily focuses on applications of GNPs in sample preparation, in particular for bioaffinity capture and biocatalysis. In addition, their most common synthesis, surface modification and characterization methods are briefly summarized. Proper surface modification for GNPs designed in accordance to their target application directly influence their functionalities, e.g., extraction efficiencies, and catalytic efficiencies. Characterization of GNPs after synthesis and modification is worthwhile for monitoring and controlling the fabrication process to ensure proper quality and functionality. Parameters such as morphology, colloidal stability, and physical/chemical properties can be assessed by methods such as surface plasmon resonance, dynamic light scattering, ζ-potential determinations, transmission electron microscopy, Taylor dispersion analysis, and resonant mass measurement, among others. The accurate determination of the surface coverage appears to be also mandatory for the quality control of functionality of the nanoparticles. Some promising applications of (functionalized) GNPs for bioanalysis and sample preparation are described herein.
Collapse
Affiliation(s)
- Siyao Liu
- Institute of Pharmaceutical Sciences, Pharmaceutical (Bio-)Analysis, University of Tübingen, Tübingen, Germany
| | - Michael Lämmerhofer
- Institute of Pharmaceutical Sciences, Pharmaceutical (Bio-)Analysis, University of Tübingen, Tübingen, Germany
| |
Collapse
|
13
|
Sha Q, Wu Y, Wang C, Sun B, Zhang Z, Zhang L, Lin Y, Liu X. Cellulose microspheres-filled pipet tips for purification and enrichment of glycans and glycopeptides. J Chromatogr A 2018; 1569:8-16. [DOI: 10.1016/j.chroma.2018.07.053] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Revised: 07/13/2018] [Accepted: 07/17/2018] [Indexed: 10/28/2022]
|
14
|
Nanoparticle assisted laser desorption/ionization mass spectrometry for small molecule analytes. Mikrochim Acta 2018; 185:200. [DOI: 10.1007/s00604-018-2687-8] [Citation(s) in RCA: 73] [Impact Index Per Article: 12.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2017] [Accepted: 01/18/2018] [Indexed: 12/14/2022]
|
15
|
Yao J, Wang J, Sun N, Deng C. One-step functionalization of magnetic nanoparticles with 4-mercaptophenylboronic acid for a highly efficient analysis of N-glycopeptides. NANOSCALE 2017; 9:16024-16029. [PMID: 29026904 DOI: 10.1039/c7nr04206j] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
A very simple and amazing approach was proposed to synthesize MPBA functionalized magnetic nanoparticles via the interaction between Fe and SH, and the as-prepared nanoparticles were successfully applied for the efficient analysis of glycopeptides in complex bio-samples with sensitivity and selectivity.
Collapse
Affiliation(s)
- Jizong Yao
- Department of Chemistry and Institutes of Biomedical Sciences, Collaborative Innovation Centre of Genetics and Development, Fudan University, Shanghai 200433, P. R. China.
| | | | | | | |
Collapse
|
16
|
Su H, Wang Y, Yu Z, Liu Y, Zhang X, Wang X, Sui H, Sun C, Zhao B. Surface-enhanced Raman spectroscopy study on the structure changes of 4-Mercaptophenylboronic Acid under different pH conditions. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2017; 185:336-342. [PMID: 28599237 DOI: 10.1016/j.saa.2017.05.068] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/13/2017] [Revised: 05/28/2017] [Accepted: 05/29/2017] [Indexed: 06/07/2023]
Abstract
4-Mercaptophenylboronic Acid (4-MPBA) plays pivotal role in various fields. The orientation and existing form of the 4-MPBA strongly depend on the pH value of the media. The general aim of this work is to obtain information about the structure changes of 4-MPBA absorbed on Ag nanoparticles in different pH environment. Surface-enhanced Raman spectroscopy (SERS) technique is a simple and rapid method to study adsorption phenomena at molecule level. The investigation is done by means of SERS. In order to interpret the experimental information, a series of SERS spectra is carried out. The relative intensities of the totally symmetric (a1 mode) and non-totally symmetric (b2 mode) bands in the SERS spectra of 4-MPBA change depend on the environmental pH values, which is a manifestation of charge transfer (CT) processes. The degree of charge transfer increases with the pH value of the media changing from acidity to alkalinity. The structure changes of MPBA had been carried out in different pH environment. We envision that this approach will be of great significance in related fields of 4-MPBA-involved detection.
Collapse
Affiliation(s)
- Hongyang Su
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Yue Wang
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Zhi Yu
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Yawen Liu
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Xiaolei Zhang
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Xiaolei Wang
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Huimin Sui
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Chengbin Sun
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China
| | - Bing Zhao
- State Key Laboratory of Supramolecular Structure and Materials, Jilin University, Changchun 130012, PR China.
| |
Collapse
|
17
|
Li J, Liu J, Liu Z, Tan Y, Liu X, Wang F. Detecting Proteins Glycosylation by a Homogeneous Reaction System with Zwitterionic Gold Nanoclusters. Anal Chem 2017; 89:4339-4343. [DOI: 10.1021/acs.analchem.6b04880] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Jinan Li
- CAS Key Laboratory of Separation Sciences for Analytical Chemistry, National Chromatographic R&A Center, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
- University of Chinese Academy of Science, Beijing 100049, China
| | - Jing Liu
- CAS Key Laboratory of Separation Sciences for Analytical Chemistry, National Chromatographic R&A Center, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
- College
of Pharmacy, Dalian Medical University, Dalian 116044, China
| | - Zheyi Liu
- CAS Key Laboratory of Separation Sciences for Analytical Chemistry, National Chromatographic R&A Center, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
- University of Chinese Academy of Science, Beijing 100049, China
| | - Yuan Tan
- State
Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
- University of Chinese Academy of Science, Beijing 100049, China
| | - Xiaoyan Liu
- State
Key Laboratory of Catalysis, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
| | - Fangjun Wang
- CAS Key Laboratory of Separation Sciences for Analytical Chemistry, National Chromatographic R&A Center, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS), Dalian 116023, China
| |
Collapse
|
18
|
Liu YC, Chen CJ. A Rapid Approach for Fabricating Boronic Acid-Functionalized Plates for On-Probe Detection of Glycoprotein and Glycopeptide. ACTA ACUST UNITED AC 2017; 6:S0063. [PMID: 28337401 DOI: 10.5702/massspectrometry.s0063] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2016] [Accepted: 01/11/2017] [Indexed: 01/26/2023]
Abstract
We developed a rapid and simple approach without using complex mechanical or chemical protocols to fabricate boronic acid-functionalized plates for glycoprotein or glycopeptide enrichment and mass spectrometry (MS) analysis. By coating the boronic acid-functionalized silica particles on a polydimethylsiloxane (PDMS)-coated matrix-assisted laser desorption/ionization (MALDI) plate, these particles can form a firmly monolayer of particles on PDMS membrane for sample handling without peeling off. The boronic acid particles-coated PDMS plate (BP plate) was successfully applied to the enrichment of horseradish peroxidase (HRP) protein and their digested glycopeptides.
Collapse
Affiliation(s)
- Yu-Ching Liu
- Proteomics Core Laboratory, Department of Medical Research, China Medical University Hospital
| | - Chao-Jung Chen
- Proteomics Core Laboratory, Department of Medical Research, China Medical University Hospital; Graduate Institute of Integrated Medicine, China Medical University
| |
Collapse
|
19
|
Sankoh S, Thammakhet C, Numnuam A, Limbut W, Kanatharana P, Thavarungkul P. 4-mercaptophenylboronic acid functionalized gold nanoparticles for colorimetric sialic acid detection. Biosens Bioelectron 2016; 85:743-750. [DOI: 10.1016/j.bios.2016.05.083] [Citation(s) in RCA: 64] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2016] [Revised: 05/14/2016] [Accepted: 05/25/2016] [Indexed: 01/12/2023]
|
20
|
Song P, Huang P, Huang T, Li H, Chen W, Lin L, Feng S, Tian R. Facile synthesis of carboxymethyl-β-cyclodextrin conjugated magnetic nanoparticles for selective enrichment of glycopeptides. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2016; 30 Suppl 1:190-195. [PMID: 27539437 DOI: 10.1002/rcm.7626] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
RATIONALE Selective enrichment of glycopeptides prior to mass spectrometry (MS) analysis is essential due to the low abundance of the modified glycopeptides in complex samples, ion suppression effects during MS ionization and detection caused by the co-presence of non-glycosylated peptides, etc. Among different enrichment approaches, hydrophilic interaction liquid chromatography (HILIC)-based magnetic separation has become one of the most popular methods in recent years, due to its high efficiency and selectivity for glycopeptide enrichment. METHODS Herein, novel carboxymethyl-β-cyclodextrin (CMCD)-modified magnetic nanoparticles (MNPs) were synthesized via a carbodiimide activation method. CMCD was covalently bonded with the -OH group on the surface of MNPs through carbodiimide, and the proposed procedure provides a rapid and efficient alternative for glycopeptide enrichment due to its stable interaction, time-saving, and easy operation. RESULTS The prepared absorbents with a mean diameter of 15 nm demonstrated a strong magnetic response to an externally applied magnetic field. The results of thermogravimetric analysis showed the content of bound CMCD was 3 wt%. The outer CMCD layer conjugated on the Fe3 O4 core showed high hydrophilic surface property. In the analysis of a complex mouse liver sample, a total of 666 unique N-glycosylation sites corresponding to 494 glycosylated proteins were identified successfully. CONCLUSIONS The study demonstrated an easy-to-use CMCD-modified MNPs-based approach with high selectivity and high capacity in the enrichment of low-abundance glycopeptides from complex biological samples. Copyright © 2016 John Wiley & Sons, Ltd.
Collapse
Affiliation(s)
- Peipei Song
- Key Laboratory of Oil Gas Fine Chemicals, Ministry of Education & Xinjiang Uyghur Autonomous Region, College of Chemistry and Chemical Engineering, Xinjiang University, Urumqi, 830046, China
- Department of Chemistry, South University of Science and Technology of China, Shenzhen, 518055, China
| | - Peiwu Huang
- Department of Chemistry, South University of Science and Technology of China, Shenzhen, 518055, China
| | - Tengjun Huang
- Key Laboratory of Oil Gas Fine Chemicals, Ministry of Education & Xinjiang Uyghur Autonomous Region, College of Chemistry and Chemical Engineering, Xinjiang University, Urumqi, 830046, China
| | - Hua Li
- Materials Characterization & Preparation Center, South University of Science and Technology of China, Shenzhen, 518055, China
| | - Wendong Chen
- Department of Chemistry, South University of Science and Technology of China, Shenzhen, 518055, China
| | - Lin Lin
- Materials Characterization & Preparation Center, South University of Science and Technology of China, Shenzhen, 518055, China
| | - Shun Feng
- Key Laboratory of Oil Gas Fine Chemicals, Ministry of Education & Xinjiang Uyghur Autonomous Region, College of Chemistry and Chemical Engineering, Xinjiang University, Urumqi, 830046, China
| | - Ruijun Tian
- Department of Chemistry, South University of Science and Technology of China, Shenzhen, 518055, China
- Shenzhen Key Laboratory of Cell Microenvironment, South University of Science and Technology of China, Shenzhen, 518055, China
| |
Collapse
|
21
|
Abdelhamid HN, Wu HF. Gold nanoparticles assisted laser desorption/ionization mass spectrometry and applications: from simple molecules to intact cells. Anal Bioanal Chem 2016; 408:4485-502. [DOI: 10.1007/s00216-016-9374-6] [Citation(s) in RCA: 60] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2015] [Revised: 11/29/2015] [Accepted: 01/28/2016] [Indexed: 01/05/2023]
|
22
|
Jiang B, Qu Y, Zhang L, Liang Z, Zhang Y. 4-Mercaptophenylboronic acid functionalized graphene oxide composites: Preparation, characterization and selective enrichment of glycopeptides. Anal Chim Acta 2016; 912:41-8. [DOI: 10.1016/j.aca.2016.01.018] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2015] [Revised: 01/08/2016] [Accepted: 01/10/2016] [Indexed: 10/22/2022]
|
23
|
Huang T, Xiong Y, Chen N, Wang D, Lai Y, Deng C. Highly selective enrichment of baicalin in rat plasma by boronic acid-functionalized core-shell magnetic microspheres: Validation and application to a pharmacokinetic study. Talanta 2015; 147:501-9. [PMID: 26592639 DOI: 10.1016/j.talanta.2015.10.042] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2015] [Revised: 10/11/2015] [Accepted: 10/14/2015] [Indexed: 10/22/2022]
Abstract
To the best of our knowledge, this study is the first to successfully apply a novel, highly selective enrichment technique based on boronic acid-functionalized core-shell magnetic microspheres (BA-Fe3O4@SiO2-Au@mSiO2) with a large surface area and uniform pore size, to determine the baicalin concentration in rat plasma by HPLC. By taking advantage of the special interaction between boronic acid and baicalin under alkaline conditions, as well as the microspheres' size exclusion ability, baicalin was selectively extracted from protein-rich biosamples, such as plasma, without any other pretreatment procedure except for a 10-min vortexing step. BA-Fe3O4@SiO2-Au@mSiO2 microsphere-adsorbed baicalin was straightforwardly and rapidly isolated from the matrix using a magnet. Baicalin was subsequently eluted from the microspheres under acidic conditions for 2min for further HPLC analysis. The extraction conditions, such as the amount of microspheres added, adsorption time, adsorption pH, and elution time and pH, were also determined. Furthermore, method validation, including the linear range, detection limit, precision, accuracy, and recovery, were determined. This newly developed method based on BA-Fe3O4@SiO2-Au@mSiO2 microspheres is a simple, accurate, selective, and green analytical preparatory technique for analyzing baicalin in rat plasma. This study will be further novel research on the analysis of complex plasma samples and the pharmacokinetics of drugs similar to baicalin.
Collapse
Affiliation(s)
- Taomin Huang
- Department of Pharmacy, Eye Ear Nose Throat Hospital of Fudan University, No. 83, Fenyang Road, Shanghai 200031, China.
| | - Ya Xiong
- Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, No. 220, Handan Road, Shanghai 200433, China
| | - Nianzu Chen
- Department of Pharmacy, Eye Ear Nose Throat Hospital of Fudan University, No. 83, Fenyang Road, Shanghai 200031, China
| | - Donglei Wang
- Department of Pharmacy, Eye Ear Nose Throat Hospital of Fudan University, No. 83, Fenyang Road, Shanghai 200031, China
| | - Yonghua Lai
- Department of Pharmacy, Eye Ear Nose Throat Hospital of Fudan University, No. 83, Fenyang Road, Shanghai 200031, China
| | - Chunhui Deng
- Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, No. 220, Handan Road, Shanghai 200433, China.
| |
Collapse
|
24
|
Li D, Chen Y, Liu Z. Boronate affinity materials for separation and molecular recognition: structure, properties and applications. Chem Soc Rev 2015; 44:8097-123. [PMID: 26377373 DOI: 10.1039/c5cs00013k] [Citation(s) in RCA: 355] [Impact Index Per Article: 39.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Boronate affinity materials, as unique sorbents, have emerged as important media for the selective separation and molecular recognition of cis-diol-containing compounds. With the introduction of boronic acid functionality, boronate affinity materials exhibit several significant advantages, including broad-spectrum selectivity, reversible covalent binding, pH-controlled capture/release, fast association/desorption kinetics, and good compatibility with mass spectrometry. Because cis-diol-containing biomolecules, including nucleosides, saccharides, glycans, glycoproteins and so on, are the important targets in current research frontiers such as metabolomics, glycomics and proteomics, boronate affinity materials have gained rapid development and found increasing applications in the last decade. In this review, we critically survey recent advances in boronate affinity materials. We focus on fundamental considerations as well as important progress and new boronate affinity materials reported in the last decade. We particularly discuss on the effects of the structure of boronate ligands and supporting materials on the properties of boronate affinity materials, such as binding pH, affinity, selectivity, binding capacity, tolerance for interference and so on. A variety of promising applications, including affinity separation, proteomics, metabolomics, disease diagnostics and aptamer selection, are introduced with main emphasis on how boronate affinity materials can solve the issues in the applications and what merits boronate affinity materials can provide.
Collapse
Affiliation(s)
- Daojin Li
- State Key Laboratory of Analytical Chemistry for Life Science and Collaborative Innovation Center of Chemistry for Life Sciences, School of Chemistry and Chemical Engineering, Nanjing University, 22 Hankou Road, Nanjing 210093, China.
| | | | | |
Collapse
|
25
|
Parlak C, Ramasami P, Tursun M, Rhyman L, Kaya MF, Atar N, Alver Ö, Şenyel M. 4-Mercaptophenylboronic acid: conformation, FT-IR, Raman, OH stretching and theoretical studies. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2015; 144:131-138. [PMID: 25754388 DOI: 10.1016/j.saa.2015.02.040] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2014] [Revised: 02/02/2015] [Accepted: 02/09/2015] [Indexed: 06/04/2023]
Abstract
4-Mercaptophenylboronic acid (4-mpba, C6H7BO2S) was investigated experimentally by vibrational spectroscopy. The molecular structure and spectroscopic parameters were studied by computational methods. The molecular dimer was investigated for intermolecular hydrogen bonding. Potential energy distribution analysis of normal modes was performed to identify characteristic frequencies. The present work provides a simple physical picture of the OH stretch vibrational spectra of 4-mpba and analogues of the compound studied. When the different computational methods are compared, there is a strong evidence of the better performance of the BLYP functional than the popular B3LYP functional to describe hydrogen bonding in the dimer. The findings of this research work should be useful to experimentalists in their quests for functionalised 4-mpba derivatives.
Collapse
Affiliation(s)
- Cemal Parlak
- Department of Physics, Dumlupinar University, Kütahya 43100, Turkey
| | - Ponnadurai Ramasami
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit 80837, Mauritius.
| | - Mahir Tursun
- Department of Physics, Dumlupinar University, Kütahya 43100, Turkey
| | - Lydia Rhyman
- Computational Chemistry Group, Department of Chemistry, Faculty of Science, University of Mauritius, Réduit 80837, Mauritius
| | - Mehmet Fatih Kaya
- Department of Physics, Science Faculty, Anadolu University, Eskişehir 26470, Turkey
| | - Necip Atar
- Department of Chemical Engineering, Faculty of Engineering, Pamukkale University, Denizli 20070, Turkey
| | - Özgür Alver
- Department of Physics, Science Faculty, Anadolu University, Eskişehir 26470, Turkey
| | - Mustafa Şenyel
- Department of Physics, Science Faculty, Anadolu University, Eskişehir 26470, Turkey
| |
Collapse
|
26
|
Harvey DJ. Analysis of carbohydrates and glycoconjugates by matrix-assisted laser desorption/ionization mass spectrometry: an update for 2009-2010. MASS SPECTROMETRY REVIEWS 2015; 34:268-422. [PMID: 24863367 PMCID: PMC7168572 DOI: 10.1002/mas.21411] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2013] [Revised: 07/16/2013] [Accepted: 07/16/2013] [Indexed: 05/07/2023]
Abstract
This review is the sixth update of the original article published in 1999 on the application of MALDI mass spectrometry to the analysis of carbohydrates and glycoconjugates and brings coverage of the literature to the end of 2010. General aspects such as theory of the MALDI process, matrices, derivatization, MALDI imaging, arrays and fragmentation are covered in the first part of the review and applications to various structural typed constitutes the remainder. The main groups of compound that are discussed in this section are oligo and polysaccharides, glycoproteins, glycolipids, glycosides and biopharmaceuticals. Many of these applications are presented in tabular form. Also discussed are medical and industrial applications of the technique, studies of enzyme reactions and applications to chemical synthesis.
Collapse
Affiliation(s)
- David J. Harvey
- Department of BiochemistryOxford Glycobiology InstituteUniversity of OxfordOxfordOX1 3QUUK
| |
Collapse
|
27
|
Zhao M, Xie Y, Deng C, Zhang X. Recent advances in the application of core–shell structured magnetic materials for the separation and enrichment of proteins and peptides. J Chromatogr A 2014; 1357:182-93. [DOI: 10.1016/j.chroma.2014.04.078] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2014] [Revised: 04/20/2014] [Accepted: 04/22/2014] [Indexed: 12/28/2022]
|
28
|
Stübiger G, Wuczkowski M, Bicker W, Belgacem O. Nanoparticle-Based Detection of Oxidized Phospholipids by MALDI Mass Spectrometry: Nano-MALDI Approach. Anal Chem 2014; 86:6401-9. [DOI: 10.1021/ac500719u] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Gerald Stübiger
- Center
for Physiology and Pharmacology, Medical University of Vienna, Schwarzspanierstrasse 17, A-1090 Vienna, Austria
| | | | - Wolfgang Bicker
- FTC-Forensic-Toxicological Laboratory Ltd., Gaudenzdorfer
Gürtel 43-45, 1120 Vienna, Austria
| | - Omar Belgacem
- Shimadzu, Wharfside, Trafford Wharf
Road, Manchester M17 1GP, U.K
| |
Collapse
|
29
|
Bie Z, Chen Y, Li H, Wu R, Liu Z. Off-line hyphenation of boronate affinity monolith-based extraction with matrix-assisted laser desorption/ionization time-of-flight mass spectrometry for efficient analysis of glycoproteins/glycopeptides. Anal Chim Acta 2014; 834:1-8. [PMID: 24928239 DOI: 10.1016/j.aca.2014.04.035] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/24/2014] [Revised: 04/16/2014] [Accepted: 04/20/2014] [Indexed: 12/12/2022]
Abstract
Boronate affinity materials have attracted increasing attentions as sample enrichment platforms for glycoproteomic analysis in recent years. However, most of the boronate affinity materials that have already employed for proteomic analysis are suffering from apparent disadvantages, such as alkaline pH for binding, weak affinity, and relatively poor selectivity. Benzoboroxoles are a unique class of boronic acids which have showed excellent binding properties for the recognition of cis-diol-containing compounds. Recently, a 3-carboxy-benzoboroxole-functionalized monolithic column had been reported and it had exhibited the best selectivity and affinity as well as the lowest binding pH among all reported boronate affinity monolithic columns. In this study, an off-line hyphenation of this boronate affinity monolithic column-based extraction with matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) was developed and the powerfulness of this hyphenated approach in the analysis of glycoproteins and glycopeptides in complex samples was investigated. The approach was first applied to the analysis of glycopeptides in the tryptic digest of horseradish peroxidase (HRP). Totally 22 glycopeptides were identified. To the best of our knowledge, this is the best performance among all the boronic acid-functionalized materials. We further employed this approach to the analysis of intact proteins in human saliva. Totally 6 intact glycoproteins were successfully identified. As comparison, when the samples were analyzed without extraction, only a few glycopeptides were identified from the tryptic digest of HRP while no glycoproteins were found from the saliva samples.
Collapse
Affiliation(s)
- Zijun Bie
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Yang Chen
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Hengye Li
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Ronghu Wu
- Department of Chemistry and Biochemistry, Georgia Institute of Technology, GA 30332, USA
| | - Zhen Liu
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China.
| |
Collapse
|
30
|
Hu J, Ma R, Liu F, Chen Y, Ju H. Mercaptophenylboronic acid modified gold nanoparticle@silica bubbles for buoyant separation and specific enrichment of glycopeptides. RSC Adv 2014. [DOI: 10.1039/c4ra03769c] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023] Open
Abstract
A buoyant separation method was proposed for specific enrichment of glycopeptides using mercaptophenylboronic acid modified gold nanoparticles @silica bubbles.
Collapse
Affiliation(s)
- Junjie Hu
- State Key Laboratory of Analytical Chemistry for Life Science
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093, P.R. China
| | - Rongna Ma
- State Key Laboratory of Analytical Chemistry for Life Science
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093, P.R. China
| | - Fei Liu
- State Key Laboratory of Analytical Chemistry for Life Science
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093, P.R. China
| | - Yunlong Chen
- State Key Laboratory of Analytical Chemistry for Life Science
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093, P.R. China
| | - Huangxian Ju
- State Key Laboratory of Analytical Chemistry for Life Science
- School of Chemistry and Chemical Engineering
- Nanjing University
- Nanjing 210093, P.R. China
| |
Collapse
|
31
|
Novel nanomaterials used for sample preparation for protein analysis. Anal Bioanal Chem 2013; 406:35-47. [DOI: 10.1007/s00216-013-7392-1] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Revised: 09/09/2013] [Accepted: 09/20/2013] [Indexed: 11/26/2022]
|
32
|
Li Y, Zhang X, Deng C. Functionalized magnetic nanoparticles for sample preparation in proteomics and peptidomics analysis. Chem Soc Rev 2013; 42:8517-39. [DOI: 10.1039/c3cs60156k] [Citation(s) in RCA: 139] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
|
33
|
Xia N, Deng D, Zhang L, Yuan B, Jing M, Du J, Liu L. Sandwich-type electrochemical biosensor for glycoproteins detection based on dual-amplification of boronic acid-gold nanoparticles and dopamine-gold nanoparticles. Biosens Bioelectron 2012; 43:155-9. [PMID: 23298627 DOI: 10.1016/j.bios.2012.12.020] [Citation(s) in RCA: 62] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2012] [Revised: 11/20/2012] [Accepted: 12/09/2012] [Indexed: 12/20/2022]
Abstract
Glycoproteins play important roles in a wide variety of biological processes. The change in the concentration levels has been associated with many cancers, as well as other diseases. Thus, rapid, sensitive and selective determination of glycoproteins is much preferred. In this work, we reported a sandwich-type electrochemical biosensor based on dual-amplification of 4-mercaptophenylboronic acid (MBA)-capped gold nanoparticles (MBA-AuNPs) and dopamine (DA)-capped AuNPs (DA-AuNPs). Biological recognition elements such as synthetic receptor and aptamer immobilized onto gold electrodes were used to capture glycoproteins. The captured glycoproteins were then derivatized with MBA-AuNPs through the formation of tight covalent bonds between the boronic acids of MBA-AuNPs and diols of glycoproteins. Electroactive DA-AuNPs were attached by the anchored MBA-AuNPs via the interaction of boronic acids with DA tags, which facilities the amplified voltammetric detection of glycoproteins. With avidin and prostate specific antigen (PSA) as model analytes, we demonstrated the feasibility and sensitivity of the proposed method. The results indicated that sub-picomolar avidin/PSA can be readily measured. We believe that this strategy will be valuable for the electrochemical detection of other glycoproteins.
Collapse
Affiliation(s)
- Ning Xia
- College of Chemistry and Chemical Engineering, Anyang Normal University, Anyang, Henan 455000, People's Republic of China.
| | | | | | | | | | | | | |
Collapse
|
34
|
Siegel D. Applications of reversible covalent chemistry in analytical sample preparation. Analyst 2012; 137:5457-82. [PMID: 23013801 DOI: 10.1039/c2an35697j] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Reversible covalent chemistry (RCC) adds another dimension to commonly used sample preparation techniques like solid-phase extraction (SPE), solid-phase microextraction (SPME), molecular imprinted polymers (MIPs) or immuno-affinity cleanup (IAC): chemical selectivity. By selecting analytes according to their covalent reactivity, sample complexity can be reduced significantly, resulting in enhanced analytical performance for low-abundance target analytes. This review gives a comprehensive overview of the applications of RCC in analytical sample preparation. The major reactions covered include reversible boronic ester formation, thiol-disulfide exchange and reversible hydrazone formation, targeting analyte groups like diols (sugars, glycoproteins and glycopeptides, catechols), thiols (cysteinyl-proteins and cysteinyl-peptides) and carbonyls (carbonylated proteins, mycotoxins). Their applications range from low abundance proteomics to reversible protein/peptide labelling to antibody chromatography to quantitative and qualitative food analysis. In discussing the potential of RCC, a special focus is on the conditions and restrictions of the utilized reaction chemistry.
Collapse
Affiliation(s)
- David Siegel
- BAM Federal Institute for Materials Research and Testing, Richard-Willstätter-Str 11, 12489 Berlin, Germany.
| |
Collapse
|
35
|
Ongay S, Boichenko A, Govorukhina N, Bischoff R. Glycopeptide enrichment and separation for protein glycosylation analysis. J Sep Sci 2012; 35:2341-72. [DOI: 10.1002/jssc.201200434] [Citation(s) in RCA: 121] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
| | | | | | - Rainer Bischoff
- Department of Analytical Biochemistry; University of Groningen; Groningen The Netherlands
| |
Collapse
|
36
|
Krenkova J, Foret F, Svec F. Less common applications of monoliths: V. Monolithic scaffolds modified with nanostructures for chromatographic separations and tissue engineering. J Sep Sci 2012; 35:1266-83. [DOI: 10.1002/jssc.201100956] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Jana Krenkova
- Institute of Analytical Chemistry of the ASCR; Brno; Czech Republic
| | - Frantisek Foret
- Institute of Analytical Chemistry of the ASCR; Brno; Czech Republic
| | - Frantisek Svec
- The Molecular Foundry; E. O. Lawrence Berkeley National Laboratory; Berkeley; California; USA
| |
Collapse
|
37
|
Xiong Z, Zhao L, Wang F, Zhu J, Qin H, Wu R, Zhang W, Zou H. Synthesis of branched PEG brushes hybrid hydrophilic magnetic nanoparticles for the selective enrichment of N-linked glycopeptides. Chem Commun (Camb) 2012; 48:8138-40. [DOI: 10.1039/c2cc33600f] [Citation(s) in RCA: 94] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
|
38
|
Gold nanomaterials as a new tool for bioanalytical applications of laser desorption ionization mass spectrometry. Anal Bioanal Chem 2011; 402:601-23. [DOI: 10.1007/s00216-011-5120-2] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2011] [Revised: 05/13/2011] [Accepted: 05/17/2011] [Indexed: 10/18/2022]
|
39
|
Liu S, Chen H, Lu X, Deng C, Zhang X, Yang P. Facile Synthesis of Copper(II)Immobilized on Magnetic Mesoporous Silica Microspheres for Selective Enrichment of Peptides for Mass Spectrometry Analysis. Angew Chem Int Ed Engl 2010. [DOI: 10.1002/ange.201003602] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
|
40
|
Liu S, Chen H, Lu X, Deng C, Zhang X, Yang P. Facile Synthesis of Copper(II)Immobilized on Magnetic Mesoporous Silica Microspheres for Selective Enrichment of Peptides for Mass Spectrometry Analysis. Angew Chem Int Ed Engl 2010; 49:7557-61. [PMID: 20806305 DOI: 10.1002/anie.201003602] [Citation(s) in RCA: 150] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Affiliation(s)
- Shasha Liu
- Department of Chemistry & Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China
| | | | | | | | | | | |
Collapse
|
41
|
Zhang M, He X, Chen L, Zhang Y. Preparation of IDA-Cu functionalized core–satellite Fe3O4/polydopamine/Au magnetic nanocomposites and their application for depletion of abundant protein in bovine blood. ACTA ACUST UNITED AC 2010. [DOI: 10.1039/c0jm01336f] [Citation(s) in RCA: 126] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|