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Town JS, Gao Y, Hancox E, Liarou E, Shegiwal A, Atkins CJ, Haddleton D. Automatic peak assignment and visualisation of copolymer mass spectrometry data using the 'genetic algorithm'. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2020; 34 Suppl 2:e8654. [PMID: 31721321 PMCID: PMC7507196 DOI: 10.1002/rcm.8654] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Revised: 10/11/2019] [Accepted: 11/05/2019] [Indexed: 06/10/2023]
Abstract
Copolymer analysis is vitally important as the materials have a wide variety of applications due to their tunable properties. Processing mass spectrometry data for copolymer samples can be very complex due to the increase in the number of species when the polymer chains are formed by two or more monomeric units. In this paper, we describe the use of the genetic algorithm for automated peak assignment of copolymers synthesised by a variety of polymerisation methods. We find that in using this method we are able to easily assign copolymer spectra in a few minutes and visualise them into heat maps. These heat maps allow us to look qualitatively at the distribution of the chains, by showing how they alter with different polymerisation techniques, and by changing the initial copolymer composition. This methodology is simple to use and requires little user input, which makes it well suited for use by less expert users. The data outputted by the automatic assignment may also allow for more complex data processing in the future.
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Affiliation(s)
- James S. Town
- Department of ChemistryUniversity of WarwickWarwick, UK
| | - Yuqui Gao
- Department of ChemistryUniversity of WarwickWarwick, UK
| | - Ellis Hancox
- Department of ChemistryUniversity of WarwickWarwick, UK
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2
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DeLaney K, Li L. Capillary electrophoresis coupled to MALDI mass spectrometry imaging with large volume sample stacking injection for improved coverage of C. borealis neuropeptidome. Analyst 2019; 145:61-69. [PMID: 31723949 PMCID: PMC6917920 DOI: 10.1039/c9an01883b] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Neuropeptides are important signaling molecules responsible for a wide range of functions within the nervous and neuroendocrine system. However, they are difficult to study due to numerous challenges, most notably their large degree of variability and low abundance in vivo. As a result, effective separation methods with sensitive detection capabilities are necessary for profiling neuropeptides in tissue samples, particularly those of simplified model organisms such as crustaceans. In order to address these challenges, this study utilized a capillary electrophoresis (CE)-matrix-assisted laser desorption/ionization (MALDI)-mass spectrometry imaging (MSI) platform, building upon our previous design for improved neuropeptidomic coverage. The capillary was coated with polyethylenimine (PEI) to reduce peptide adsorption and reverse the electroosmotic flow, and large volume sample stacking (LVSS) was used to load and pre-concentrate 1 μL of sample. The method demonstrated good reproducibility, with lower than 5% relative standard deviation for standards, and a limit of detection of approximately 100 pM for an allatostatin III peptide standard. The method was tested on brain and sinus gland (SG) tissue extracts and enabled detection of over 200 neuropeptides per run. When comparing the number detected in brain extracts in a direct spot, 60-second fractions, and 30-second fractions, the continuous trace collection afforded by the CE-MALDI-MSI platform yielded the largest number of detected neuropeptides. The method was compared to conventional LC-ESI-MS, and though the number of neuropeptides detected by LC-ESI-MS was slightly larger, the two methods were highly complementary, indicating the potential for the CE-MALDI-MSI method to uncover previously undetected neuropeptides in the crustacean nervous system. These results indicate the potential of CE-MALDI-MSI for routine use in neuropeptide research.
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Affiliation(s)
- Kellen DeLaney
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI 53706-1322
| | - Lingjun Li
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI 53706-1322
- School of Pharmacy, University of Wisconsin-Madison, 777 Highland Avenue, Madison, WI 53705-2222
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3
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Some Applications of Liquid Chromatography-Mass Spectrometry in the Biomedical Field. ACTA ACUST UNITED AC 2018. [DOI: 10.1016/bs.coac.2017.09.002] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/12/2023]
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4
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Uliyanchenko E. Applications of Hyphenated Liquid Chromatography Techniques for Polymer Analysis. Chromatographia 2017. [DOI: 10.1007/s10337-016-3193-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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5
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Polymer architectures via mass spectrometry and hyphenated techniques: A review. Anal Chim Acta 2016; 932:1-21. [DOI: 10.1016/j.aca.2016.05.024] [Citation(s) in RCA: 61] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Revised: 04/07/2016] [Accepted: 05/16/2016] [Indexed: 11/22/2022]
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Wu T, Hu HL, Du YP, Jiang D, Yu BH. Discrimination of Thermoplastic Polyesters by MALDI-TOF MS and Py-GC/MS. INTERNATIONAL JOURNAL OF POLYMER ANALYSIS AND CHARACTERIZATION 2014. [DOI: 10.1080/1023666x.2014.920126] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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7
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Malik MI, Pasch H. Novel developments in the multidimensional characterization of segmented copolymers. Prog Polym Sci 2014. [DOI: 10.1016/j.progpolymsci.2013.10.005] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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8
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Crecelius AC, Vitz J, Schubert US. Mass spectrometric imaging of synthetic polymers. Anal Chim Acta 2014; 808:10-7. [DOI: 10.1016/j.aca.2013.07.033] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2013] [Revised: 07/01/2013] [Accepted: 07/09/2013] [Indexed: 02/07/2023]
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Škrášková K, Heeren RM. A review of complementary separation methods and matrix assisted laser desorption ionization-mass spectrometry imaging: Lowering sample complexity. J Chromatogr A 2013; 1319:1-13. [DOI: 10.1016/j.chroma.2013.10.027] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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10
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Krueger K, Terne C, Werner C, Freudenberg U, Jankowski V, Zidek W, Jankowski J. Characterization of Polymer Membranes by MALDI Mass-Spectrometric Imaging Techniques. Anal Chem 2013; 85:4998-5004. [DOI: 10.1021/ac4002063] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Katharina Krueger
- Charité-Universitaetsmedizin Berlin, Medizinische Klinik IV, Hindenburgdamm 30, D-12200
Berlin, Germany
| | - Cindy Terne
- Charité-Universitaetsmedizin Berlin, Medizinische Klinik IV, Hindenburgdamm 30, D-12200
Berlin, Germany
- Helmholtz Virtual Institute − Multifunctional Materials in Medicine, Berlin and Teltow, Germany
| | | | | | - Vera Jankowski
- Charité-Universitaetsmedizin Berlin, Medizinische Klinik IV, Hindenburgdamm 30, D-12200
Berlin, Germany
| | - Walter Zidek
- Charité-Universitaetsmedizin Berlin, Medizinische Klinik IV, Hindenburgdamm 30, D-12200
Berlin, Germany
| | - Joachim Jankowski
- Charité-Universitaetsmedizin Berlin, Medizinische Klinik IV, Hindenburgdamm 30, D-12200
Berlin, Germany
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Zhang Z, Jiang S, Li L. Semi-automated liquid chromatography-mass spectrometric imaging platform for enhanced detection and improved data analysis of complex peptides. J Chromatogr A 2013; 1293:44-50. [PMID: 23623366 DOI: 10.1016/j.chroma.2013.03.042] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2012] [Revised: 03/16/2013] [Accepted: 03/18/2013] [Indexed: 11/18/2022]
Abstract
A semi-automated analytical platform featuring the coupling of monolithic reversed-phase liquid chromatography (RPLC) to matrix-assisted laser desorption/ionization mass spectrometric imaging (MALDI MSI) has been developed and evaluated. This is the first time that LC separation is readily coupled to MS imaging detection for the analysis of complex peptide mixtures both qualitatively and quantitatively. Methacrylate-based monolithic column with C12 functional groups is fabricated for fast RPLC separation. The LC flow and matrix flow are collected on a commercially available MALDI plate which is mechanically controlled and analyzed with MALDI MSI subsequently. Both tryptic peptides digested from bovine serum albumin (BSA) and endogenous neuropeptides extracted from the blue crab Callinectes sapidus are analyzed with this novel LC-MSI platform. Compared with regular offline LC fractionation coupled with MALDI MS detection, LC-MSI exhibits significantly increased MS signal intensity due to retaining of temporal resolution from separation dimension via continuous sampling, which results in increased number of peptides detected and accurate quantitation. In addition, imaging signals enable improved data analysis based on either mass-to-charge ratio or retention time, which is extremely beneficial for the analysis of complex analytes. These findings have demonstrated the potential of employing LC-MSI platform for enhanced proteomics and peptidomics studies.
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Affiliation(s)
- Zichuan Zhang
- School of Pharmacy, University of Wisconsin, 777 Highland Avenue, Madison, WI 53705, USA
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Zhang Z, Jia C, Li L. Neuropeptide analysis with liquid chromatography-capillary electrophoresis-mass spectrometric imaging. J Sep Sci 2012; 35:1779-84. [PMID: 22807360 DOI: 10.1002/jssc.201200051] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Herein we report the first attempt of coupling multidimensional separations to matrix-assisted laser desorption/ionization (MALDI) mass spectrometric imaging detection. Complex neuropeptide mixtures extracted from crustaceans were first fractionated by reversed-phase liquid chromatography (RPLC), and then subjected to a capillary electrophoresis-mass spectrometric imaging platform. With a specific focus on orcokinin family neuropeptides, we demonstrated that these trace-level analytes from complex neural tissue samples can be fully separated from chemical noise and interfering components and visualized as mass spectrometric imaging signals. A total of 19 putative orcokinins were detected, with highly efficient separations within the family being achieved for the first time. The results indicate that two-dimensional separation coupling to mass spectrometric imaging can serve as a novel and powerful tool in proteomics and peptidomics studies.
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Affiliation(s)
- Zichuan Zhang
- School of Pharmacy, University of Wisconsin, Madison, Wisconsin 53705, USA
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13
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Recent developments in liquid chromatography–mass spectrometry and related techniques. J Chromatogr A 2012; 1259:3-15. [DOI: 10.1016/j.chroma.2012.08.072] [Citation(s) in RCA: 228] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2012] [Revised: 08/22/2012] [Accepted: 08/23/2012] [Indexed: 11/22/2022]
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Zhang Z, Ye H, Wang J, Hui L, Li L. Pressure-assisted capillary electrophoresis coupling with matrix-assisted laser desorption/ionization-mass spectrometric imaging for quantitative analysis of complex peptide mixtures. Anal Chem 2012; 84:7684-91. [PMID: 22891936 DOI: 10.1021/ac300628s] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Herein, we report a pressure-assisted capillary electrophoresis-mass spectrometric imaging (PACE-MSI) platform for peptide analysis. This new platform has addressed the sample diffusion and peak splitting problems that appeared in our previous groove design, and it enables homogeneous deposition of the CE trace for high-throughput MALDI imaging. In the coupling of CE to MSI, individual peaks (m/z) can be visualized as discrete colored image regions and extracted from the MS imaging data, thus eliminating issues with peak overlapping and reducing reliance on an ultrahigh mass resolution mass spectrometer. Through a PACE separation, 46 tryptic peptides from bovine serum albumin and 150 putative neuropeptides from the pericardial organs of a model organism blue crab Callinectes sapidus were detected from the MALDI MS imaging traces, enabling a 4- to 6-fold increase of peptide coverage as compared with direct MALDI MS analysis. For the first time, quantitation with high accuracy was obtained using PACE-MSI for both digested tryptic peptides and endogenous neuropeptides from complex biological samples in combination with isotopic formaldehyde labeling. Although MSI is typically employed in tissue imaging, we show in this report that it offers a unique tool for quantitative analysis of complex trace-level analytes with CE separation. These results demonstrate a great potential of the PACE-MSI platform for enhanced quantitative proteomics and neuropeptidomics.
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Affiliation(s)
- Zichuan Zhang
- School of Pharmacy, University of Wisconsin, Madison, 53705, United States
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15
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Sample preparation for mass spectrometry imaging: Small mistakes can lead to big consequences. J Proteomics 2012; 75:4893-4911. [DOI: 10.1016/j.jprot.2012.04.012] [Citation(s) in RCA: 204] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2012] [Revised: 04/11/2012] [Accepted: 04/12/2012] [Indexed: 12/13/2022]
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