Hyphenation of capillary zone electrophoresis with mass spectrometry for proteomic analysis: Optimization and comparison of two coupling interfaces

Gou, Marie-Jia; Nys, Gwenaël; COBRAIVILLE, Gaël; Demelenne, Alice; Servais, Anne-Catherine; Fillet, Marianne

doi:10.1016/j.chroma.2020.460873

Article (Scientific journals)

Hyphenation of capillary zone electrophoresis with mass spectrometry for proteomic analysis: Optimization and comparison of two coupling interfaces

Gou, Marie-Jia; Nys, Gwenaël; COBRAIVILLE, Gaël et al.

2020 • In Journal of Chromatography. A

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https://hdl.handle.net/2268/245883

DOI
10.1016/j.chroma.2020.460873

PubMed
31987525

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Keywords :

Capillary zone electrophoresis mass spectrometry; Coaxial sheath liquid interface; EMASS-II; Preconcentration; Proteomics; Capillary electrophoresis; Escherichia coli; Ion mobility spectrometers; Liquid chromatography; Liquids; Mass spectrometry; Molecular biology; Nitrogen compounds; Peptides; Capillary zone electrophoresis; Liquid interface; Pre-concentration; Drug products

Abstract :

[en] Capillary electrophoresis tandem mass spectrometry (CE–MS/MS) is an interesting tool for proteomic analysis as the separation principle is orthogonal to liquid chromatography tandem mass spectrometry (LC–MS/MS). The combination of both techniques can bring complementary information to enlarge proteome coverage. In this study, sample preconcentration techniques were investigated in order to improve sample loading and therefore sensitivity. Dynamic pH junction (DPJ) was found to be the most interesting approach by using 200 mM ammonium acetate (NH4Ac) adjusted to pH 10.0 as sample matrix. The use of DPJ allowed the identification of more peptides and proteins compared to conventional injections. Moreover, the sheath liquid (SL) composition was optimized in order to enhance signal intensity. A nanoflow SL interface (EMASS-II) was compared to the traditional coaxial SL interface (Triple tube) in terms of number of identified and proteins as well as detection sensitivity (peak area and peak height). MS acquisition was performed using both data-dependent acquisition (DDA) and data-independent acquisition (DIA) modes. The results showed that the combined use of these two acquisition modes provided additional information in terms of identification. Moreover, the use of EMASS-II interface allowed the identification of approximately two times more peptides and proteins. Besides, there was an improvement in sensitivity using EMASS-II as peak height and peak area were improved by 4 and 6-fold, respectively, compared to the Triple tube. Altogether, by combining an efficient sample preconcentration method, a nanoflow CE–MS interface and a hybrid ion-mobility qTOF mass spectrometer, a satisfying sequence coverage was obtained by analyzing 1 µg of E. coli proteome digest. © 2020

Research center :

CIRM - Centre Interdisciplinaire de Recherche sur le Médicament - ULiège

Disciplines :

Pharmacy, pharmacology & toxicology

Author, co-author :

Gou, Marie-Jia ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments

Nys, Gwenaël ; Université de Liège - ULiège > CIRM

COBRAIVILLE, Gaël ; Centre Hospitalier Universitaire de Liège - CHU > Département de médecine interne > Service de rhumatologie

Demelenne, Alice ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments

Servais, Anne-Catherine ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments

Fillet, Marianne ; Université de Liège - ULiège > Département de pharmacie > Analyse des médicaments

Language :

English

Title :

Hyphenation of capillary zone electrophoresis with mass spectrometry for proteomic analysis: Optimization and comparison of two coupling interfaces

Publication date :

2020

Journal title :

Journal of Chromatography. A

ISSN :

0021-9673

eISSN :

1873-3778

Publisher :

Elsevier B.V.

Peer reviewed :

Peer Reviewed verified by ORBi

Available on ORBi :

since 10 March 2020

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Bibliography

Gilmore, J.M., Washburn, M.P., Advances in shotgun proteomics and the analysis of membrane proteomes. J. Proteom. 73 (2010), 2078–2091, 10.1016/j.jprot.2010.08.005.
Gillet, L.C., Leitner, A., Aebersold, R., Mass spectrometry applied to bottom-up proteomics: entering the high-throughput era for hypothesis testing. Annu. Rev. Anal. Chem. 9 (2016), 449–472, 10.1146/annurev-anchem-071015-041535.
Wither, M.J., Hansen, K.C., Reisz, J.A., Mass spectrometry-based bottom-up proteomics: sample preparation, LC-MS/MS analysis, and database query strategies. Curr. Protoc. Protein Sci., 86, 2016, 10.1002/cpps.18 16.4.1-16.4.20.
Zhang, Y., Fonslow, B.R., Shan, B., Baek, M., Yates, J.R., Protein analysis by shotgun/bottom-up proteomics. Chem. Rev. 113 (2013), 2343–2394, 10.1021/cr3003533.
Zhang, Z., Qu, Y., Dovichi, N.J., Capillary zone electrophoresis-mass spectrometry for bottom-up proteomics. TrAC 108 (2018), 23–37, 10.1016/j.trac.2018.08.008.
C. Martelli, C. Desiderio, Capillary electrophoresis-mass spectrometry for proteomics, in: Capill. Electromigr. Sep. Methods, Elsevier Inc., 2018: pp. 335–351. doi: 10.1016/B978-0-12-809375-7.00014-9.
Stolz, A., Jooß, K., Höcker, O., Römer, J., Schlecht, J., Neusüß, C., Recent advances in capillary electrophoresis-mass spectrometry: Instrumentation, methodology and applications. Electrophoresis, 2018, 1–34, 10.1002/elps.201800331.
Neusuß, C., Romer, J., Hocker, O., Jooß, K., Coupling of capillary electromigration techniques to mass spectrometry. Capill. Electromigr. Sep. Methods, 2018, 293–311, 10.1016/B978-0-12-809375-7.00012-5.
Nyssen, L., Fillet, M., Cavalier, E., Servais, A.-C., Highly sensitive and selective separation of intact parathyroid hormone and variants by sheathless CE-ESI-MS/MS. Electrophoresis 40 (2019), 1550–1557, 10.1002/elps.201800507.
Smith, R.D., Barinaga, C.J., Udseth, H.R., Improved electrospray ionization interface for capillary zone electrophoresis-mass spectrometry. Anal. Chem. 60 (1988), 1948–1952.
Bonvin, G., Schappler, J., Rudaz, S., Capillary electrophoresis-electrospray ionization-mass spectrometry interfaces: fundamental concepts and technical developments. J. Chromatogr. A 1267 (2012), 17–31, 10.1016/j.chroma.2012.07.019.
Kitagawa, F., Otsuka, K., Recent applications of on-line sample preconcentration techniques in capillary electrophoresis. J. Chromatogr. A 1335 (2014), 43–60, 10.1016/j.chroma.2013.10.066.
Peuchen, E.H., Zhu, G., Sun, L., Dovichi, N.J., Evaluation of a commercial electro-kinetically pumped sheath-flow nanospray interface coupled to an automated capillary zone electrophoresis system. Anal. Bioanal. Chem. 409 (2017), 1789–1795, 10.1007/s00216-016-0122-8.
Sun, L., Zhu, G., Yan, X., Champion, M.M., Dovichi, N.J., Capillary zone electrophoresis for analysis of complex proteomes using an electrokinetically pumped sheath flow nanospray interface. Proteomics 14 (2014), 622–628, 10.1002/pmic.201300295.
Höcker, O., Montealegre, C., Neusüß, C., Characterization of a nanoflow sheath liquid interface and comparison to a sheath liquid and a sheathless porous-tip interface for CE–ESI–MS in positive and negative ionization. Anal. Bioanal. Chem. 410 (2018), 5265–5275, 10.1007/s00216-018-1179-3.
Scriba, G.K.E., Separation of peptides by capillary electrophoresis. Schmitt-Kopplin, P., (eds.) Capillary Electrophoresis Methods Mol. Biol., 2016, 365–391, 10.1007/978-1-4939-6403-1.
Sänger-van de Griend, C.E., Van Schepdael, A., Method development and validation of capillary electromigration methods 10. Capillary Electrophoresis Methods Mol. Biol., 2018, 235–267, 10.1016/B978-0-12-809375-7.00010-1.
Pioch, M., Bunz, S.-C., Neusüß, C., Capillary electrophoresis/mass spectrometry relevant to pharmaceutical and biotechnological applications. Electrophoresis 33 (2012), 1517–1530, 10.1002/elps.201200030.
Ramautar, R., Heemskerk, A.A.M., Hensbergen, P.J., Deelder, A.M., Busnel, J.M., Mayboroda, O.A., CE-MS for proteomics: advances in interface development and application. J. Proteom. 75 (2012), 3814–3828, 10.1016/j.jprot.2012.04.050.
Herrero, M., Ibañez, E., Cifuentes, A., Capillary electrophoresis-electrospray-mass spectrometry in peptide analysis and peptidomics. Electrophoresis 29 (2008), 2148–2160, 10.1002/elps.200700404.
Heemskerk, A.A.M., Deelder, A.M., Mayboroda, O.A., CE-ESI-MS for bottom-up proteomics: advances in separation, interfacing and applications. Mass Spectrom. Rev., 2016, 259–271, 10.1002/mas.
Ohnesorge, J., Neusüß, C., Wätzig, H., Quantitation in capillary electrophoresis-mass spectrometry. Electrophoresis 26 (2005), 3973–3987, 10.1002/elps.200500398.
Sun, L., Zhu, G., Zhang, Z., Mou, S., Dovichi, N.J., Third-generation electrokinetically pumped sheath-flow nanospray interface with improved stability and sensitivity for automated capillary zone electrophoresis-mass spectrometry analysis of complex proteome digests. J. Proteome Res. 14 (2015), 2312–2321, 10.1021/acs.jproteome.5b00100.
Osbourn, D.M., Weiss, D.J., Lunte, C.E., On-line preconcentration methods for capillary electrophoresis. Electrophoresis 21 (2000), 2768–2779 10.1002/1522-2683(20000801)21:14<2768: AID-ELPS2768>3.0.CO;2.
Breadmore, M.C., Shallan, A.I., Rabanes, H.R., Gstoettenmayr, D., Abdul Keyon, A.S., Gaspar, A., Dawod, M., Quirino, J.P., Recent advances in enhancing the sensitivity of electrophoresis and electrochromatography in capillaries and microchips (2010–2012). Electrophoresis 34 (2013), 29–54, 10.1002/elps.201200396.
Guo, X., Fillmore, T.L., Gao, Y., Tang, K., Capillary electrophoresis-nanoelectrospray ionization-selected reaction monitoring mass spectrometry via a true sheathless metal-coated emitter interface for robust and high-sensitivity sample quantification. Anal. Chem. 88 (2016), 4418–4425, 10.1021/acs.analchem.5b04912.
Busnel, J.M., Schoenmaker, B., Ramautar, R., Carrasco-Pancorbo, A., Ratnayake, C., Feitelson, J.S., Chapman, J.D., Deelder, A.M., Mayboroda, O.A., Tomlinson, A.J., Benson, L.M., Jameson, S., Naylor, S., Mikšík, I., Monton, M.R.N., Imami, K., Nakanishi, M., Kim, J., Terabe, S., High capacity capillary electrophoresis-electrospray ionization mass spectrometry: coupling a porous sheathless interface with transient- isotachophoresis. Anal. Chem. 82 (2010), 9476–9483, 10.1021/ac102159d.
Xia, S., Zhang, L., Qiu, B., Lu, M., Chi, Y., Chen, G., On-line preconcentration and quantitative analysis of peptide hormone of brain and intestine using on-column transient isotachophoresis coupled with capillary electrophoresis/electrospray ionization mass spectrometry. Rapid Commun. Mass Spectrom. 22 (2008), 3719–3726, 10.1002/rcm.
Bahga, S.S., Santiago, J.G., Coupling isotachophoresis and capillary electrophoresis: a review and comparison of methods. Analyst 138 (2012), 735–754, 10.1039/c2an36150g.
Waterval, J.C.M., Hommels, G., Teeuwsen, J., Bult, A., Lingeman, H., Underberg, W.J.M., Quantitative analysis of pharmaceutically active peptides using on-capillary analyte preconcentration transient isotachophoresis. Electrophoresis 21 (2000), 2851–2858 10.1002/1522-2683(20000801)21:14<2851::AID-ELPS2851>3.0.CO;2-Q.
Tomlinson, A.J., Benson, L.M., Jameson, S., Naylor, S., Rapid loading of large sample volumes, analyte cleanup, and modified moving boundary transient isotachophoresis conditions for membrane preconcentration-capillary electrophoresis in small diameter capillaries. Electrophoresis 17 (1996), 1801–1807.
Zhu, G., Sun, L., Dovichi, N.J., Dynamic pH junction preconcentration in capillary electrophoresis- electrospray ionization-mass spectrometry for proteomics analysis. Analyst 141 (2016), 5216–5220, 10.1039/c6an01140c.
Hasan, N., Park, S.H., Oh, E., Song, E.J., Ban, E., Yoo, Y.S., Sensitivity enhancement of CE and CE–MS for the analysis of peptides by a dynamic pH junction. J. Sep. Sci., 2010, 3701–3709, 10.1002/jssc. 201000020.N.
Monton, M.R.N., Imami, K., Nakanishi, M., Kim, J., Terabe, S., Dynamic pH junction technique for on-line preconcentration of peptides in capillary electrophoresis. J. Chromatogr. A 1079 (2005), 266–273, 10.1016/j.chroma.2005.03.069.
Zhu, G., Sun, L., Yan, X., Dovichi, N.J., Bottom-Up proteomics of Escherichia coli using dynamic pH junction preconcentration and capillary zone electrophoresis-electrospray ionization-tandem mass spectrometry. Anal. Chem. 86 (2014), 6331–6336, 10.1021/ac5004486.
Imami, K., Monton, M.R.N., Ishihama, Y., Terabe, S., Simple on-line sample preconcentration technique for peptides based on dynamic pH junction in capillary electrophoresis-mass spectrometry. J. Chromatogr. A 1148 (2007), 250–255, 10.1016/j.chroma.2007.03.014.
C.W. Klampfl, M. Himmelsbach, Sheath liquids in CE-MS: role, parameters, and optimization, in: Capill. Electrophor. Spectrom. Princ. Appl., 201641–65.
Yan, X., Essaka, D.C., Sun, L., Zhu, G., Dovichi, N.J., Bottom-up proteome analysis of E. coli using capillary zone electrophoresis-tandem mass spectrometry with an electrokinetic sheath-flow electrospray interface. Proteomics 13 (2013), 2546–2551, 10.1002/pmic.201300062.
Wojcik, R., Dada, O.O., Sadilek, M., Dovichi, N.J., Simplified capillary electrophoresis nanospray sheath-flow interface for high efficiency and sensitive peptide analysis. Rapid Commun. Mass Spectrom, 2010, 2254–2560., 10.1002/rcm.
Hu, A., Noble, W.S., Wolf-Yadin, A., Technical advances in proteomics: new developments in data-independent acquisition. F1000 Research, 2016, 419.
Ma, X., Liu, J., Zhang, Z., Bo, T., Bai, Y., Liu, H., Drift tube ion mobility and four-dimensional molecular feature extraction enable data-independent tandem mass spectrometric ‘omics’ analysis without quadrupole selection. Rapid Commun. Mass Spectrom. 31 (2017), 33–38, 10.1002/rcm.7767.
Zhu, G., Sun, L., Yan, X., Dovichi, N.J., Single-shot proteomics using capillary zone electrophoresis-electrospray ionization-tandem mass spectrometry with production of more than 1 250 Escherichia coli peptide identifications in a 50 min separation. Anal. Chem. 85 (2013), 2569–2573, 10.1021/ac303750g.