1
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Balbisi M, Sugár S, Turiák L. Protein glycosylation in lung cancer from a mass spectrometry perspective. MASS SPECTROMETRY REVIEWS 2024. [PMID: 38576136 DOI: 10.1002/mas.21882] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Revised: 01/27/2024] [Accepted: 03/23/2024] [Indexed: 04/06/2024]
Abstract
Lung cancer is a severe disease for which better diagnostic and therapeutic approaches are urgently needed. Increasing evidence implies that aberrant protein glycosylation plays a crucial role in the pathogenesis and progression of lung cancer. Differences in glycosylation patterns have been previously observed between healthy and cancerous samples as well as between different lung cancer subtypes, which suggests untapped diagnostic potential. In addition, understanding the changes mediated by glycosylation may shed light on possible novel therapeutic targets and personalized treatment strategies for lung cancer patients. Mass spectrometry based glycomics and glycoproteomics have emerged as powerful tools for in-depth characterization of changes in protein glycosylation, providing valuable insights into the molecular basis of lung cancer. This paper reviews the literature on the analysis of protein glycosylation in lung cancer using mass spectrometry, which is dominated by manuscripts published over the past 5 years. Studies analyzing N-glycosylation, O-glycosylation, and glycosaminoglycan patterns in tissue, serum, plasma, and rare biological samples of lung cancer patients are highlighted. The current knowledge on the potential utility of glycan and glycoprotein biomarkers is also discussed.
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Affiliation(s)
- Mirjam Balbisi
- MTA-TTK Lendület (Momentum) Glycan Biomarker Research Group, HUN-REN Research Centre for Natural Sciences, Budapest, Hungary
- Semmelweis University Doctoral School, Budapest, Hungary
| | - Simon Sugár
- MTA-TTK Lendület (Momentum) Glycan Biomarker Research Group, HUN-REN Research Centre for Natural Sciences, Budapest, Hungary
| | - Lilla Turiák
- MTA-TTK Lendület (Momentum) Glycan Biomarker Research Group, HUN-REN Research Centre for Natural Sciences, Budapest, Hungary
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2
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Ba S, Lan F, Luo B, Wu Y. Construction of dual-hydrophilic metal-organic framework with hierarchical porous structure for efficient glycopeptide enrichment. Talanta 2023; 259:124505. [PMID: 37054618 DOI: 10.1016/j.talanta.2023.124505] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Revised: 03/20/2023] [Accepted: 03/29/2023] [Indexed: 04/15/2023]
Abstract
As an important role in life activities, it is necessary and important to study protein glycosylation. The pre-enrichment of N-glycopeptides is a significant step in glycoproteomics research. According to the inherent size, hydrophilicity and other properties of N-glycopeptides, affinity materials designed to match them will be able to separate N-glycopeptides from complex samples. In this work, we designed and prepared dual-hydrophilic hierarchical porous metal-organic frameworks (MOFs) nanospheres by metal-organic assembly (MOA) based template method and post-synthesis modification strategy. The hierarchical porous structure significantly improved the diffusion rate and binding sites for N-glycopeptide enrichment. Furthermore, the combination of hydrophilic MOFs and small molecules endowed the as-prepared MOFs nanospheres excellent hydrophilicity, which is conducive to the enrichment of N-glycopeptides based on hydrophilic interaction liquid chromatography (HILIC). Therefore, the nanospheres showed surprising enrichment ability for N-glycopeptides such as excellent selectivity (1/500, human serum immunoglobulin G/bovine serum albumin, m/m) and extremely low detective limitation (0.5 fmol). Meanwhile, 550 N-glycopeptides were identified from rat liver samples, proving its application potential in glycoproteomics research and providing design idea for porous affinity materials.
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Affiliation(s)
- Shengdong Ba
- National Engineering Research Center for Biomaterials, Sichuan University, Chengdu 610064, PR China
| | - Fang Lan
- National Engineering Research Center for Biomaterials, Sichuan University, Chengdu 610064, PR China
| | - Bin Luo
- Analytical and Testing Center, Sichuan University, Chengdu 610064, PR China.
| | - Yao Wu
- National Engineering Research Center for Biomaterials, Sichuan University, Chengdu 610064, PR China.
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3
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Kim JY, Lee GB, Lee JC, Moon MH. High-Speed Screening of Lipoprotein Components Using Online Miniaturized Asymmetrical Flow Field-Flow Fractionation and Electrospray Ionization Tandem Mass Spectrometry: Application to Hepatocellular Carcinoma Plasma Samples. Anal Chem 2021; 93:4867-4875. [PMID: 33689313 DOI: 10.1021/acs.analchem.0c04756] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
This study introduces a high-speed screening method for the quantitative analysis of lipoprotein components in human plasma samples using online miniaturized asymmetrical flow field-flow fractionation and electrospray ionization-tandem mass spectrometry (mAF4-ESI-MS/MS). Using an mAF4 channel, high-density lipoproteins and low-density lipoproteins can be fractionated by size at a high speed (<10 min) and directly fed to ESI-MS/MS for the simultaneous screening of targeted lipid species and apolipoprotein A1 (ApoA1). By employing the heated electrospray ionization probe as an ionization source, an mAF4 effluent flow rate of up to a few tens of microliters per minute can be used, which is adequate for direct feeding to MS without splitting the outflow, resulting in a consistent feed rate to MS for stable MS detection. mAF4-ESI-MS/MS was applied to hepatocellular carcinoma (HCC) plasma samples for targeted quantification of 25 lipid biomarker candidates and ApoA1 compared with healthy controls, the results of which were in statistical agreement with the quantified results obtained by nanoflow ultrahigh performance liquid chromatography-tandem mass spectrometry. Moreover, the present method provided the simultaneous detection of changes in lipoprotein size and the relative amount. This study demonstrated the potential of mAF4-ESI-MS/MS as an alternative high-speed screening platform for the top-down analysis of targeted lipoprotein components in patients with HCC, which is applicable to other diseases that involve the perturbation of lipoproteins.
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Affiliation(s)
- Jin Yong Kim
- Department of Chemistry, Yonsei University, Seoul 03722, Republic of Korea
| | - Gwang Bin Lee
- Department of Chemistry, Yonsei University, Seoul 03722, Republic of Korea
| | - Jong Cheol Lee
- Department of Chemistry, Yonsei University, Seoul 03722, Republic of Korea
| | - Myeong Hee Moon
- Department of Chemistry, Yonsei University, Seoul 03722, Republic of Korea
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4
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Wang Y, Yang C, Nie Y, Li Y, Tian X. Reinjection flow field-flow fractionation method for nanoparticle quantitative analysis in unknown and complex samples. J Chromatogr A 2021; 1638:461897. [PMID: 33485028 DOI: 10.1016/j.chroma.2021.461897] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2020] [Revised: 01/05/2021] [Accepted: 01/08/2021] [Indexed: 11/29/2022]
Abstract
An analytical challenge that arises in environmental and food analysis is to quantify heterogeneous nanoparticles especially in polydisperse and complex samples. The method stated herein based on the reinjection asymmetrical flow field-flow fractionation (AF4 × AF4) coupled with inductively coupled plasma-mass spectrometer (ICP-MS) and statistical deconvolution allowed for identifying the molecular weight (Mw) and selenium abundance of the low Mw protein fractions (ca. < 132 kDa) in an unknown and complex sample (e.g., selenium-rich soybean protein isolates (Se-SPI)). A non-linear decay crossflow program was also developed to get better resolution and shorter elution time for both low and high Mw components. The concept of the reinjection method was based on the excellent ability for reducing sample complexity regarding the size fractionation, and peak reproducibility under the identical conditions of AF4 system. The standard protein mixture was used as a proof-of-principle sample. The results showed the underlying peaks predicted by the reinjection method were agreed with the separation result using the standard mixture (the relative standard deviation of peak locations < 1%), which indicated the reinjection method could provide an accurate assessment of the underlying peak number and location, and was promising to minimize the overfitting problem for statistic deconvolution. Interestingly, significant differences of Se abundance in protein fractions were observed in the low Mw range for Se-SPI, ranging from 0.28 to 1.66 cps/V with the Mw ranging from 13.75 kDa to 104.17 kDa, which indicated significant differences in the ability of binding Se for these selenium-rich proteins in Se-SPI.
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Affiliation(s)
- Yu Wang
- Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan, 430078, China.
| | - Chao Yang
- Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan, 430078, China.
| | - Yulun Nie
- Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan, 430078, China.
| | - Yong Li
- Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan, 430078, China.
| | - Xike Tian
- Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan, 430078, China.
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5
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Liu L, Yang C, Liu C, Piao J, Kaw HY, Cui J, Shang H, Ri HC, Kim JM, Jin M, Li D. Open-tubular radially cyclical electric field-flow fractionation (OTR-CyElFFF): an online concentric distribution strategy for simultaneous separation of microparticles. LAB ON A CHIP 2020; 20:3535-3543. [PMID: 32852497 DOI: 10.1039/d0lc00620c] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
An open-tubular radially cyclical electric field-flow fractionation technique which achieves the online separation of microparticles in a functional annular channel is proposed in this study. The system was set up by using a stainless steel tube and a platinum wire modified with ionic liquid/mesoporous silica materials as the external and internal electrodes. The feasibility for online separation of various particles was experimentally demonstrated. Particles in the channel were affected by a radial electric field and field-flow fractionation (FFF). On the cross section, different particles showed distinctive migration distances depending on their own properties and the different magnitudes of forces being exerted. The same kind of particles form an annular distribution within the same annulus while different particles form annular distributions at varied concentric annuli through electrophoresis. Under a laminar flow of FFF, different sizes of particles formed a conical arrangement within the annular separation channel. With the joint influence of electric field and flow field, different trajectories were obtained and the particles were eventually separated. Voltage, frequency and duty cycle value are the main parameters affecting the separation of particles. By adjusting these parameters, particles migrate in a zigzag trajectory on one side of the electrodes (mode I) and reach both sides of the electrodes (mode II). Six polystyrene particles were completely separated with high resolution within several minutes. Our system offers numerous advantages of label-free, high-resolution and online separation without tedious operations, and it is a promising tool for the effective separation of various micro-objects.
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Affiliation(s)
- Lu Liu
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Cui Yang
- Department of Chemistry, Changchun Normal University, Changji North Road 677, Changchun City, Jilin Province 130032, China
| | - Cuicui Liu
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Jishou Piao
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Han Yeong Kaw
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Jiaxuan Cui
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Haibo Shang
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Hyok Chol Ri
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Ji Man Kim
- Department of Chemistry, Sungkyunkwan University, Korea
| | - Mingshi Jin
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
| | - Donghao Li
- Department of Chemistry, Yanbian University, Park Road 977, Yanji City, Jilin Province 133002, PR China.
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6
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One-pot preparation of hydrophilic citric acid-magnetic nanoparticles for identification of glycopeptides in human saliva. Talanta 2020; 206:120178. [DOI: 10.1016/j.talanta.2019.120178] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2019] [Revised: 07/07/2019] [Accepted: 07/24/2019] [Indexed: 12/22/2022]
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7
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Sun S, Hu Y, Ao M, Shah P, Chen J, Yang W, Jia X, Tian Y, Thomas S, Zhang H. N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping. Clin Proteomics 2019; 16:35. [PMID: 31516400 PMCID: PMC6731604 DOI: 10.1186/s12014-019-9254-0] [Citation(s) in RCA: 48] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2019] [Accepted: 08/14/2019] [Indexed: 02/06/2023] Open
Abstract
BACKGROUND N-linked glycoprotein is a highly interesting class of proteins for clinical and biological research. The large-scale characterization of N-linked glycoproteins accomplished by mass spectrometry-based glycoproteomics has provided valuable insights into the interdependence of glycoprotein structure and protein function. However, these studies focused mainly on the analysis of specific sample type, and lack the integration of glycoproteomic data from different tissues, body fluids or cell types. METHODS In this study, we collected the human glycosite-containing peptides identified through their de-glycosylated forms by mass spectrometry from over 100 publications and unpublished datasets generated from our laboratory. A database resource termed N-GlycositeAtlas was created and further used for the distribution analyses of glycoproteins among different human cells, tissues and body fluids. Finally, a web interface of N-GlycositeAtlas was created to maximize the utility and value of the database. RESULTS The N-GlycositeAtlas database contains more than 30,000 glycosite-containing peptides (representing > 14,000 N-glycosylation sites) from more than 7200 N-glycoproteins from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. CONCLUSIONS The entire human N-glycoproteome database as well as 22 sub-databases associated with individual tissues or body fluids can be downloaded from the N-GlycositeAtlas website at http://nglycositeatlas.biomarkercenter.org.
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Affiliation(s)
- Shisheng Sun
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
- College of Life Science, Northwest University, Xi’an, 710069 Shaanxi China
| | - Yingwei Hu
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Minghui Ao
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Punit Shah
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Jing Chen
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Weiming Yang
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Xingwang Jia
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Yuan Tian
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Stefani Thomas
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
| | - Hui Zhang
- Department of Pathology, Johns Hopkins University, Baltimore, MD 21287 USA
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8
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Dang L, Jia L, Zhi Y, Li P, Zhao T, Zhu B, Lan R, Hu Y, Zhang H, Sun S. Mapping human N-linked glycoproteins and glycosylation sites using mass spectrometry. Trends Analyt Chem 2019; 114:143-150. [PMID: 31831916 PMCID: PMC6907083 DOI: 10.1016/j.trac.2019.02.009] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
N-linked glycoprotein is a highly interesting class of proteins for clinical and biological research. Over the last decade, large-scale profiling of N-linked glycoproteins and glycosylation sites from biological and clinical samples has been achieved through mass spectrometry-based glycoproteomic approaches. In this paper, we reviewed the human glycoproteomic profiles that have been reported in more than 80 individual studies, and mainly focused on the N-glycoproteins and glycosylation sites identified through their deglycosylated forms of glycosite-containing peptides. According to our analyses, more than 30,000 glycosite-containing peptides and 7,000 human glycoproteins have been identified from five different body fluids, twelve human tissues (or related cell lines), and four special cell types. As the glycoproteomic data is still missing for many organs and tissues, a systematical glycoproteomic analysis of various human tissues and body fluids using a uniform platform is still needed for an integrated map of human N-glycoproteomes.
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Affiliation(s)
- Liuyi Dang
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Li Jia
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Yuan Zhi
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Pengfei Li
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Ting Zhao
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Bojing Zhu
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Rongxia Lan
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
| | - Yingwei Hu
- Department of Pathology, Johns Hopkins University, Baltimore, Maryland 21287, USA
| | - Hui Zhang
- Department of Pathology, Johns Hopkins University, Baltimore, Maryland 21287, USA
| | - Shisheng Sun
- College of Life Sciences, Northwest University, Xi’an, Shaanxi province 710069, China
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9
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Lee SY, Lee S, Park SB, Kim KY, Hong J, Kang D. Development of a parallel microbore hollow fiber enzyme reactor platform for online 18O-labeling: Application to lectin-specific lung cancer N-glycoproteome. J Chromatogr B Analyt Technol Biomed Life Sci 2018; 1100-1101:58-64. [PMID: 30292950 DOI: 10.1016/j.jchromb.2018.09.041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Revised: 08/29/2018] [Accepted: 09/28/2018] [Indexed: 11/19/2022]
Abstract
We introduce a simple online 18O-labeling protocol for protein samples that uses a parallelizing microbore hollow fiber enzyme reactor (mHFER) as an alternative tool for online proteolytic digestion. Online 18O-labeling is performed by separately attaching two mHFERs in parallel to a 10-port switching valve with a high-pressure syringe pump and two syringes containing 16O- or 18O-water. 16O-/18O-labeled peptides are formed in this manner and simultaneously analyzed online using nanoflow liquid chromatography-tandem mass spectrometry (nLC-MS/MS) without any residual trypsin activity. The usefulness of a parallel mHFER platform (P-mHFER) in 18O-labeling was tested using both cytochrome C and alpha-1-acid-glycoprotein to verify the incorporation level of two 18O atoms into tryptic peptides and to provide a quantitative assessment with varied mixing ratios. Additionally, our 18O-labeling approach was used to study the serum N-glycoproteome from lung cancer patients and controls to evaluate the applicability of lectin-based quantitative N-glycoproteomics. We successfully quantified 76 peptides (from 62 N-glycoproteins). Nineteen of these peptides from lung cancer serum were up-/down-regulated at least 2.5-fold compared to controls. As a result, the P-mHFER-based online 18O-labeling platform presented here can be a simple and reproducible way to allow quantitative proteomic analysis of diverse proteome samples.
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Affiliation(s)
- Sun Young Lee
- College of Pharmacy, Kyung Hee University, Seoul 02447, Republic of Korea
| | - Seonjeong Lee
- College of Pharmacy, Kyung Hee University, Seoul 02447, Republic of Korea
| | - Sung Bum Park
- Therapeutics & Biotechnology Division, Korea Research Institute of Chemical Technology, P.O. Box 107, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Ki Young Kim
- Therapeutics & Biotechnology Division, Korea Research Institute of Chemical Technology, P.O. Box 107, Yuseong-gu, Daejeon 34134, Republic of Korea
| | - Jongki Hong
- College of Pharmacy, Kyung Hee University, Seoul 02447, Republic of Korea.
| | - Dukjin Kang
- Center for Bioanalysis, Division of Chemical and Medical Metrology, Korea Research Institute of Standards and Science, Daejeon, 34113, Republic of Korea.
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10
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Kayili HM, Barlas N, Atakay M, Salih B. Fast purification of glycans and glycopeptides using silk-packed micropipette tip for matrix-assisted laser desorption/ionization-mass spectrometry and high-performance liquid chromatography-fluorescence detection analysis. Microchem J 2018. [DOI: 10.1016/j.microc.2018.03.034] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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11
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Bi C, Liang Y, Shen L, Tian S, Zhang K, Li Y, He X, Chen L, Zhang Y. Maltose-Functionalized Hydrophilic Magnetic Nanoparticles with Polymer Brushes for Highly Selective Enrichment of N-Linked Glycopeptides. ACS OMEGA 2018; 3:1572-1580. [PMID: 30023808 PMCID: PMC6044954 DOI: 10.1021/acsomega.7b01788] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2017] [Accepted: 01/24/2018] [Indexed: 05/15/2023]
Abstract
Efficient enrichment glycoproteins/glycopeptides from complex biological solutions are very important in the biomedical sciences, in particular biomarker research. In this work, the high hydrophilic polyethylenimine conjugated polymaltose polymer brushes functionalized magnetic Fe3O4 nanoparticles (NPs) denoted as Fe3O4-PEI-pMaltose were designed and synthesized via a simple two-step modification. The obtained superhydrophilic Fe3O4-PEI-pMaltose NPs displayed outstanding advantages in the enrichment of N-linked glycopeptides, including high selectivity (1:100, mass ratios of HRP and bovine serum albumin (BSA) digest), low detection limit (10 fmol), large binding capacity (200 mg/g), and high enrichment recovery (above 85%). The above-mentioned excellent performance of novel Fe3O4-PEI-pMaltose NPs was attributed to graft of maltose polymer brushes and efficient assembly strategy. Moreover, Fe3O4-PEI-pMaltose NPs were further utilized to selectively enrich glycopeptides from human renal mesangial cell (HRMC, 200 μg) tryptic digest, and 449 N-linked glycopeptides, representing 323 different glycoproteins and 476 glycosylation sites, were identified. It was expected that the as-synthesized Fe3O4-PEI-pMaltose NPs, possessing excellent performance (high binding capacity, good selectivity, low detection limit, high enrichment recovery, and easy magnetic separation) coupled to a facile preparation procedure, have a huge potential in N-glycosylation proteome analysis of complex biological samples.
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Affiliation(s)
- Changfen Bi
- Tianjin
Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine,
Institute of Radiation Medicine, Peking
Union Medical College & Chinese Academy of Medical Sciences, Tianjin 300192, China
| | - Yulu Liang
- Research
Center for Analytical Sciences, College of Chemistry, Tianjin Key
Laboratory of Biosensing and Molecular Recognition, State Key Laboratory
of Medicinal Chemical Biology, Nankai University, Tianjin 300071, China
- Collaborative Innovation
Center of Chemical Science and Engineering (Tianjin), Tianjin 300071, China
| | - Lijin Shen
- 2011
Collaborative Innovation Center of Tianjin for Medical Epigenetics, Tianjin Medical University, Tianjin 300070, China
| | - Shanshan Tian
- 2011
Collaborative Innovation Center of Tianjin for Medical Epigenetics, Tianjin Medical University, Tianjin 300070, China
| | - Kai Zhang
- 2011
Collaborative Innovation Center of Tianjin for Medical Epigenetics, Tianjin Medical University, Tianjin 300070, China
| | - Yiliang Li
- Tianjin
Key Laboratory of Radiation Medicine and Molecular Nuclear Medicine,
Institute of Radiation Medicine, Peking
Union Medical College & Chinese Academy of Medical Sciences, Tianjin 300192, China
| | - Xiwen He
- Research
Center for Analytical Sciences, College of Chemistry, Tianjin Key
Laboratory of Biosensing and Molecular Recognition, State Key Laboratory
of Medicinal Chemical Biology, Nankai University, Tianjin 300071, China
| | - Langxing Chen
- Research
Center for Analytical Sciences, College of Chemistry, Tianjin Key
Laboratory of Biosensing and Molecular Recognition, State Key Laboratory
of Medicinal Chemical Biology, Nankai University, Tianjin 300071, China
- Collaborative Innovation
Center of Chemical Science and Engineering (Tianjin), Tianjin 300071, China
| | - Yukui Zhang
- Research
Center for Analytical Sciences, College of Chemistry, Tianjin Key
Laboratory of Biosensing and Molecular Recognition, State Key Laboratory
of Medicinal Chemical Biology, Nankai University, Tianjin 300071, China
- Dalian
Institute of Chemical Physics, Chinese Academy
of Sciences, Dalian 116023, China
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12
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Wang J, Li J, Gao M, Zhang X. Self-assembling covalent organic framework functionalized magnetic graphene hydrophilic biocomposites as an ultrasensitive matrix for N-linked glycopeptide recognition. NANOSCALE 2017; 9:10750-10756. [PMID: 28715013 DOI: 10.1039/c7nr02932b] [Citation(s) in RCA: 67] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
The development of additional functions and applications of covalent organic framework (COF)-derived materials still remains highly desired. In our work, a novel COF-functionalized magnetic graphene biocomposite (MagG@COF-5) was first developed as an ultrasensitive hydrophilic matrix via a facile self-assembly method for efficiently recognizing N-linked glycopeptides. By integrating the characteristics of the magnetic graphene and COF-5 layer, the MagG@COF-5 owns features of an outstanding magnetic response, a high specific area, strong hydrophilic properties and a unique size-exclusion effect. Accordingly, the MagG@COF-5 biocomposite showed excellent performance in N-linked glycopeptide analysis with a low detection limit (0.5 fmol μL-1), an excellent size-exclusion effect (HRP digests/BSA, 1 : 600), good recyclability and reusability. More excitingly, the practical applicability of the biocomposite was evaluated by treatment with human serum (1 μL), in which 232 N-linked glycopeptides from 85 glycoproteins were detected. All the results demonstrate that the as-synthesized MagG@COF-5 biocomposite has huge potential for use in glycoproteome and clinical diagnosis fields. It will also open up new phases for application of COF-based materials.
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Affiliation(s)
- Jiaxi Wang
- Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200433, China.
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13
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14
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Kim JY, Lim HB, Moon MH. Online Miniaturized Asymmetrical Flow Field-Flow Fractionation and Inductively Coupled Plasma Mass Spectrometry for Metalloprotein Analysis of Plasma from Patients with Lung Cancer. Anal Chem 2016; 88:10198-10205. [DOI: 10.1021/acs.analchem.6b02775] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Jin Yong Kim
- Department
of Chemistry, Yonsei University, Seoul, 03722, Korea
| | - Heung Bin Lim
- Department
of Chemistry, Dankook University, Yongin-si, Gyeonggi-do 16890, Korea
| | - Myeong Hee Moon
- Department
of Chemistry, Yonsei University, Seoul, 03722, Korea
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15
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Zhang J, He T, Tang L, Zhang ZQ. Boronic acid functionalized Fe3
O4
magnetic microspheres for the specific enrichment of glycoproteins. J Sep Sci 2016; 39:1691-9. [DOI: 10.1002/jssc.201500921] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2015] [Revised: 02/22/2016] [Accepted: 02/22/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Jing Zhang
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, School of Chemistry and Chemical Engineering; Shaanxi Normal University; Xi'an China
- Institute of Sport Biology, School of Physical Education; Shaanxi Normal University; Xi'an China
| | - Tian He
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, School of Chemistry and Chemical Engineering; Shaanxi Normal University; Xi'an China
| | - Liang Tang
- Institute of Sport Biology, School of Physical Education; Shaanxi Normal University; Xi'an China
| | - Zhi-Qi Zhang
- Key Laboratory of Analytical Chemistry for Life Science of Shaanxi Province, School of Chemistry and Chemical Engineering; Shaanxi Normal University; Xi'an China
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16
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Makan AC, Spallek MJ, du Toit M, Klein T, Pasch H. Advanced analysis of polymer emulsions: Particle size and particle size distribution by field-flow fractionation and dynamic light scattering. J Chromatogr A 2016; 1442:94-106. [DOI: 10.1016/j.chroma.2016.03.013] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2015] [Revised: 02/19/2016] [Accepted: 03/06/2016] [Indexed: 12/01/2022]
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17
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Byeon SK, Kim JY, Lee JS, Moon MH. Variations in plasma and urinary lipids in response to enzyme replacement therapy for Fabry disease patients by nanoflow UPLC-ESI-MS/MS. Anal Bioanal Chem 2016; 408:2265-74. [PMID: 26873218 DOI: 10.1007/s00216-016-9318-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2015] [Revised: 12/16/2015] [Accepted: 01/07/2016] [Indexed: 01/23/2023]
Abstract
A deficiency of α-galactosidase A causes Fabry disease (FD) by disrupting lipid metabolism, especially trihexosylceramide (THC). Enzyme replacement therapy (ERT) is clinically offered to FD patients in an attempt to lower the accumulated lipids. Studies on specific types of lipids that are directly or indirectly altered by FD are very scarce, even though they are crucial in understanding the biological process linked to the pathogenesis of FD. We performed a comprehensive lipid profiling of plasma and urinary lipids from FD patients with nanoflow liquid chromatography electrospray-ionization tandem mass spectrometry (nLC-ESI-MS/MS) and identified 129 plasma and 111 urinary lipids. Among these, lipids that exhibited alternations (>twofold) in patients were selected as targets for selected reaction monitoring (SRM)-based high-speed quantitation using nanoflow ultra-performance LC-ESI-MS/MS (nUPLC-ESI-MS/MS) and 31 plasma and 26 urinary lipids showed significant elevation among FD patients. Higher percentages of sphingolipids (SLs; 48% for plasma and 42% for urine) were highly elevated in patients; whereas, a smaller percentage of phospholipids (PLs; 15% for plasma and 13% for urine) were significantly affected. Even though α-galactosidase A is reported to affect THC only, the results show that other classes of lipids (especially SLs) are changed as well, indicating that FD not only alters metabolism of THC but various classes of lipids too. Most lipids showing significant increases in relative amounts before ERT decreased after ERT, but overall, ERT influenced plasma lipids more than urinary lipids.
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Affiliation(s)
- Seul Kee Byeon
- Department of Chemistry, Yonsei University, Seoul, 03722, Republic of Korea
| | - Jin Yong Kim
- Department of Chemistry, Yonsei University, Seoul, 03722, Republic of Korea
| | - Jin-Sung Lee
- Department of Pediatrics, Yonsei University College of Medicine, Seoul, 03722, Republic of Korea.
| | - Myeong Hee Moon
- Department of Chemistry, Yonsei University, Seoul, 03722, Republic of Korea.
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18
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Affiliation(s)
- He Huang
- Ben May Department of Cancer Research, The University of Chicago, Chicago, Illinois 60637, United States
| | - Shu Lin
- Department of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Benjamin A. Garcia
- Department of Biochemistry and Biophysics, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Yingming Zhao
- Ben May Department of Cancer Research, The University of Chicago, Chicago, Illinois 60637, United States
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19
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Kim JY, Oh D, Kim SK, Kang D, Moon MH. Isotope-coded carbamidomethylation for quantification of N-glycoproteins with online microbore hollow fiber enzyme reactor-nanoflow liquid chromatography-tandem mass spectrometry. Anal Chem 2014; 86:7650-7. [PMID: 24960276 DOI: 10.1021/ac501544r] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
This paper introduces a simple, inexpensive, and robust quantitative proteomic method for quantifying N-linked glycoproteins based on isotope-coded carbamidomethylation (iCCM) incorporated into an online microbore hollow fiber enzyme reactor and nanoflow liquid chromatography-tandem mass spectrometry (mHFER-nLC-MS/MS). The iCCM quantitation uses carbamidomethylation (CM; a routine protection of thiol groups before proteolysis) of the Cys residue of proteins with iodoacetamide (IAA) or its isotope (IAA-(13)C2,D2: 4 Da difference). CM-/iCCM-labeled proteome samples are mixed for proteolysis; then, online enrichment of N-glycopeptides using lectin affinity is carried out in an mHFER before nLC-MS/MS for quantification using multiple reaction monitoring (MRM). Initial evaluation of the iCCM method varying the mixing ratio of CM-/iCCM-labeled bovine serum albumin (BSA) standards yielded successful quantification of 18 peptides with less than 2% variation in the calculated ratio of light/heavy-labeled peptides. The iCCM quantitation with mHFER-nLC-MS/MS was evaluated with three standard glycoproteins (α-1-acid glycoproteins, fetuin and transferrin) and then applied to serum glycoproteins from liver cancer patients and controls, resulting in successful quantification of 73 N-glycopeptides (from 49 N-glycoproteins), among which 19 N-glycopeptides from 14 N-glycoproteins showed more than a 2.5-fold aberrant change in liver cancer patients' sera compared with the pooled control. Although iCCM quantitation with mHFER-nLC-MS/MS applies only to glycopeptides with Cys residue, the method can offer several advantages over other labeling methods when applied to targeted glycoproteins: The iCCM method does not require an additional labeling reaction under special conditions nor complicated procedures to purify labeled products using additional columns. Isotope labeling at the protein level can minimize potential uncertainty originating from unequal efficiencies in protein digestion in separate vials and retrieval of each labeled peptide when labeling takes place at the peptide level. In addition, the labeling reagents for the iCCM method are readily obtained at a reasonable cost, which can make protein quantification easily accessible.
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Affiliation(s)
- Jin Yong Kim
- Department of Chemistry, Yonsei University , Seoul, 120-749, Korea
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20
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Hua S, Hu CY, Kim BJ, Totten SM, Oh MJ, Yun N, Nwosu CC, Yoo JS, Lebrilla CB, An HJ. Glyco-Analytical Multispecific Proteolysis (Glyco-AMP): A Simple Method for Detailed and Quantitative Glycoproteomic Characterization. J Proteome Res 2013; 12:4414-23. [DOI: 10.1021/pr400442y] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Serenus Hua
- Asia Glycomics Reference Site, Daejeon 305-764, South Korea
- Cancer
Research Institute, Chungnam National University, Daejeon 305-764, South Korea
| | - Chloe Y. Hu
- Department
of Chemistry, University of California—Davis, Davis, California 95616, United States
| | - Bum Jin Kim
- Graduate
School of Analytical Science and Technology, Chungnam National University, Daejeon 305-764, South Korea
| | - Sarah M. Totten
- Department
of Chemistry, University of California—Davis, Davis, California 95616, United States
| | - Myung Jin Oh
- Asia Glycomics Reference Site, Daejeon 305-764, South Korea
- Graduate
School of Analytical Science and Technology, Chungnam National University, Daejeon 305-764, South Korea
| | - Nayoung Yun
- Graduate
School of Analytical Science and Technology, Chungnam National University, Daejeon 305-764, South Korea
| | - Charles C. Nwosu
- Department
of Chemistry, University of California—Davis, Davis, California 95616, United States
| | - Jong Shin Yoo
- Graduate
School of Analytical Science and Technology, Chungnam National University, Daejeon 305-764, South Korea
- Division
of Mass Spectrometry Research, Korea Basic Science Institute, Ochang 363-883, South Korea
| | - Carlito B. Lebrilla
- Department
of Chemistry, University of California—Davis, Davis, California 95616, United States
| | - Hyun Joo An
- Asia Glycomics Reference Site, Daejeon 305-764, South Korea
- Cancer
Research Institute, Chungnam National University, Daejeon 305-764, South Korea
- Graduate
School of Analytical Science and Technology, Chungnam National University, Daejeon 305-764, South Korea
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21
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Sukumar UK, Bhushan B, Dubey P, Matai I, Sachdev A, Packirisamy G. Emerging applications of nanoparticles for lung cancer diagnosis and therapy. INTERNATIONAL NANO LETTERS 2013. [DOI: 10.1186/2228-5326-3-45] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Abstract
Lung cancer is by far the leading cause of cancer-related mortality worldwide, most of them being active tobacco smokers. Non small cell lung cancer accounts for around 85% to 90% of deaths, whereas the rest is contributed by small cell lung cancer. The extreme lethality of lung cancer arises due to lack of suitable diagnostic procedures for early detection of lung cancer and ineffective conventional therapeutic strategies. In course with desperate attempts to address these issues independently, a multifunctional nanotherapeutic or diagnostic system is being sought as a favorable solution. The manifestation of physiochemical properties of such nanoscale systems is tuned favorably to come up with a versatile cancer cell targeted diagnostic and therapeutic system. Apart from this, the aspect of being at nanoscale by itself confers the system with an advantage of passive accumulation at the site of tumor. This review provides a broad perspective of three major subclasses of such nanoscale therapeutic and diagnostic systems which include polymeric nanoparticles-based approaches, metal nanoparticles-based approaches, and bio-nanoparticles-based approaches. This review work also serves the purpose of gaining an insight into the pros and cons of each of these approaches with a prospective improvement in lung cancer therapeutics and diagnostics.
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22
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Li Q, Tang D, Lou F, Yang X, Chen G. Simultaneous Electrochemical Multiplexed Immunoassay of Biomarkers Based on Multifunctionalized Graphene Nanotags. ChemElectroChem 2013. [DOI: 10.1002/celc.201300039] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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23
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Pan Y, Bai H, Ma C, Deng Y, Qin W, Qian X. Brush polymer modified and lectin immobilized core-shell microparticle for highly efficient glycoprotein/glycopeptide enrichment. Talanta 2013; 115:842-8. [PMID: 24054672 DOI: 10.1016/j.talanta.2013.06.031] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2013] [Revised: 06/16/2013] [Accepted: 06/20/2013] [Indexed: 12/12/2022]
Abstract
Protein glycosylation regulates numerous important biological processes and plays key roles in many diseases including cancer, diabetes and inflammation. The ability to efficiently profile variation of protein glycosylation in biological samples is very useful for identifying new diagnostic biomarkers or developing new therapeutic approaches. Due to the low availability of glycoprotein/glycopeptide from natural sources, enrichment before mass spectrometry (MS) analysis is usually a prerequisite. Affinity enrichment using lectins is currently one of the most widely adopted approaches. Conventionally, lectins are immobilized on solid supporting materials for sample recovery. However, the limited specific surface area, high steric hindrance and rigid nature of such supporting materials restricts lectin loading amount and results in low flexibility as well as accessibility of the immobilized lectins. Therefore, we proposed using core-shell microparticles composed of silica core and brush-like polymer chains shell for improved lectin immobilization. The surface bound brush-like polymer are synthesized by in situ growth of polymer chains from microparticle surface using surface initiated atom transfer radical polymerization (SI-ATRP). The flexible non-crosslinked polymer chains not only provide numerous binding sites, but also work as three-dimensional support for lectin immobilization, which leads to high loading amount and good accessibility of the immobilized lectin. Successful enrichment which facilitated glycoprotein/glycopeptide identification is demonstrated.
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Affiliation(s)
- Yiting Pan
- School of Life Science and Technology, Beijing Institute of Technology, Beijing 100081, PR China; National Center for Protein Sciences Beijing, State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, PR China
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24
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Novotny MV, Alley WR. Recent trends in analytical and structural glycobiology. Curr Opin Chem Biol 2013; 17:832-40. [PMID: 23790311 DOI: 10.1016/j.cbpa.2013.05.029] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2013] [Accepted: 05/24/2013] [Indexed: 12/22/2022]
Abstract
The great complexity of glycosylated biomolecules necessitates a set of powerful analytical methodologies to reveal functionally important structural features. Mass spectrometry (MS), with its different ionization techniques, mass analyzers, and detection strategies, has become the most important analytical method in glycomic and glycoproteomic investigations. In combination with MS, microscale separations (based on capillary chromatography and electrophoresis) and carbohydrate microchemistry, we feature here conceptually important applications of the recent years. This review focuses on methodological advances pertaining to disease biomarker research, immunology, developmental biology, and measurements of importance to biopharmaceuticals. High-sensitivity determinations and sample enrichment/preconcentration are particularly emphasized in glycomic and glycoproteomic profiling.
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Affiliation(s)
- Milos V Novotny
- Department of Chemistry, Indiana University, Bloomington, IN 47405, United States.
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25
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Kim JY, Lee SY, Kim SK, Park SR, Kang D, Moon MH. Development of an Online Microbore Hollow Fiber Enzyme Reactor Coupled with Nanoflow Liquid Chromatography-Tandem Mass Spectrometry for Global Proteomics. Anal Chem 2013; 85:5506-13. [DOI: 10.1021/ac400625k] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Jin Yong Kim
- Department of Chemistry, Yonsei University, Seoul, 120-749, Korea
| | - Sun Young Lee
- Center for Bioanalysis, Division
of Metrology for Quality of Life, Korea Research Institute of Standards and Science, Daejeon, 305-340, Korea
| | - Sook-Kyung Kim
- Center for Bioanalysis, Division
of Metrology for Quality of Life, Korea Research Institute of Standards and Science, Daejeon, 305-340, Korea
| | - Sang Ryoul Park
- Center for Bioanalysis, Division
of Metrology for Quality of Life, Korea Research Institute of Standards and Science, Daejeon, 305-340, Korea
| | - Dukjin Kang
- Center for Bioanalysis, Division
of Metrology for Quality of Life, Korea Research Institute of Standards and Science, Daejeon, 305-340, Korea
| | - Myeong Hee Moon
- Department of Chemistry, Yonsei University, Seoul, 120-749, Korea
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26
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Tang D, Hou L, Niessner R, Xu M, Gao Z, Knopp D. Multiplexed electrochemical immunoassay of biomarkers using metal sulfide quantum dot nanolabels and trifunctionalized magnetic beads. Biosens Bioelectron 2013; 46:37-43. [PMID: 23500474 DOI: 10.1016/j.bios.2013.02.027] [Citation(s) in RCA: 104] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2013] [Revised: 02/14/2013] [Accepted: 02/16/2013] [Indexed: 02/03/2023]
Abstract
A novel multiplexed stripping voltammetric immunoassay protocol was designed for the simultaneous detection of multiple biomarkers (CA 125, CA 15-3, and CA 19-9 used as models) using PAMAM dendrimer-metal sulfide quantum dot (QD) nanolabels as distinguishable signal tags and trifunctionalized magnetic beads as an immunosensing probe. The probe was prepared by means of co-immobilization of primary monoclonal anti-CA 125, anti-CA 15-3 and anti-CA 19-9 antibodies on a single magnetic bead. The PAMAM dendrimer-metal sulfide QD nanolabels containing CdS, ZnS and PbS were synthesized by using in situ synthesis method, which were utilized for the labeling of polyclonal rabbit anti-CA 125, anti-CA 15-3 and anti-CA 19-9 detection antibodies, respectively. A sandwich-type immunoassay format was adopted for the simultaneous determination of target biomarkers in a low-binding microtiter plate. The subsequent anodic stripping voltammetric analysis of cadmium, zinc, and lead components released by acid from the corresponding QD nanolabels was conducted at an in situ prepared mercury film electrode based on the difference of peak potentials. Experimental results indicated that the multiplexed immunoassay enabled the simultaneous detection of three cancer biomarkers in a single run with wide dynamic ranges of 0.01-50 U mL(-1) and detection limits (LODs) of 0.005 U mL(-1). Intra-assay and inter-assay coefficients of variation (CVs) were less than 7.2% and 10.4%, respectively. No significant differences at the 0.05 significance level were encountered in the analysis of 10 clinical serum specimens between the multiplexed immunoassay and a commercially available enzyme-linked immunosorbent assay (ELISA).
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Affiliation(s)
- Dianping Tang
- Key Laboratory of Analysis and Detection for Food Safety, Fujian Province & Ministry of Education, Department of Chemistry, Fuzhou University, Fuzhou 350166, China.
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