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Šesták J, Moravcová D, Kahle V. Instrument platforms for nano liquid chromatography. J Chromatogr A 2015; 1421:2-17. [DOI: 10.1016/j.chroma.2015.07.090] [Citation(s) in RCA: 85] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Revised: 07/23/2015] [Accepted: 07/24/2015] [Indexed: 11/25/2022]
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Enhancement of ionization efficiency of mass spectrometric analysis from non-electrospray ionization friendly solvents with conventional and novel ionization techniques. Anal Chim Acta 2015; 897:45-52. [DOI: 10.1016/j.aca.2015.09.035] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Revised: 09/17/2015] [Accepted: 09/19/2015] [Indexed: 11/21/2022]
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Haun J, Leonhardt J, Portner C, Hetzel T, Tuerk J, Teutenberg T, Schmidt TC. Online and Splitless NanoLC × CapillaryLC with Quadrupole/Time-of-Flight Mass Spectrometric Detection for Comprehensive Screening Analysis of Complex Samples. Anal Chem 2013; 85:10083-90. [DOI: 10.1021/ac402002m] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Jakob Haun
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
- Instrumental
Analytical Chemistry, University of Duisburg-Essen, Universitätsstr. 5, 45141 Essen, Germany
| | - Juri Leonhardt
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
- Instrumental
Analytical Chemistry, University of Duisburg-Essen, Universitätsstr. 5, 45141 Essen, Germany
| | - Christoph Portner
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
| | - Terence Hetzel
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
- Instrumental
Analytical Chemistry, University of Duisburg-Essen, Universitätsstr. 5, 45141 Essen, Germany
| | - Jochen Tuerk
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
| | - Thorsten Teutenberg
- Institut
für Energie- und Umwelttechnik e. V., IUTA (Institute of Energy and Environmental Technology), Bliersheimer Str. 58-60, 47229 Duisburg, Germany
| | - Torsten C. Schmidt
- Instrumental
Analytical Chemistry, University of Duisburg-Essen, Universitätsstr. 5, 45141 Essen, Germany
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Donato P, Cacciola F, Tranchida PQ, Dugo P, Mondello L. Mass spectrometry detection in comprehensive liquid chromatography: basic concepts, instrumental aspects, applications and trends. MASS SPECTROMETRY REVIEWS 2012; 31:523-559. [PMID: 22383300 DOI: 10.1002/mas.20353] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2011] [Revised: 11/10/2011] [Accepted: 11/10/2011] [Indexed: 05/31/2023]
Abstract
The review, as can be deduced from the title, focuses on both theoretical and practical aspects of the use of mass spectrometry as a third, added dimension to a comprehensive LC (LC × LC) system, generating the most powerful analytical tool today for non-volatile analytes. The first part deals with the technical requirements for linkage of an LC × LC system to an MS one, including the choice of the mobile phase (buffer and salts), flow rate (splitting), type of ionization (interface); advantages and disadvantages of off-line and on-line methods are discussed, as well. A discussion of the various aspects of instrumentation is provided, both from a chromatographic and mass spectrometry standpoint, with particular emphasis directed to the choice of column sets, spatial resolution, mass resolving power, mass accuracy, and tandem-MS capabilities. The extent to which mass spectrometry may be of aid in unraveling column-outlet multicompound bands is highlighted, along with its effectiveness as a chromatographic detector of excellent sensitivity, universality yet with potential in terms of selectivity and amenability to quantitative analysis over a wide dynamic range. The following section of the review contains significant applications of comprehensive two-dimensional LC coupled to MS in different areas of research, with details on interfaces, column stationary phases, modulation and MS parameters. It is not the intention of the authors to provide a comprehensive description of the techniques, but merely to discuss only those aspects which are essential for successful applications of the LC-MS combination. The reader will be acquainted with the enormous potential of this hyphenated technique, and the factors and instrumental developments that have concurred to make it emerge to a central role in specialized fields, such as proteomics.
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Affiliation(s)
- Paola Donato
- University Campus Bio-Medico, Via Álvaro del Portillo 21, 00128 Rome, Italy
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Donato P, Cacciola F, Mondello L, Dugo P. Comprehensive chromatographic separations in proteomics. J Chromatogr A 2011; 1218:8777-90. [DOI: 10.1016/j.chroma.2011.05.070] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2011] [Revised: 05/11/2011] [Accepted: 05/21/2011] [Indexed: 01/22/2023]
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Dugo P, Kumm T, Cacciola F, Dugo G, Mondello L. Multidimensional Liquid Chromatographic Separations Applied to the Analysis of Food Samples. J LIQ CHROMATOGR R T 2010. [DOI: 10.1080/10826070802128888] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- P. Dugo
- a Dipartimento di Scienze degli Alimenti e dell'Ambiente, Facoltà di Scienze MM.FF.NN. , Università di Messina , Salita Sperone, 98166, Messina, Italy
| | - T. Kumm
- b Dipartimento Farmaco-chimico, Facoltà di Farmacia , Università di Messina , Messina, Italy
| | - F. Cacciola
- b Dipartimento Farmaco-chimico, Facoltà di Farmacia , Università di Messina , Messina, Italy
| | - G. Dugo
- b Dipartimento Farmaco-chimico, Facoltà di Farmacia , Università di Messina , Messina, Italy
| | - L. Mondello
- b Dipartimento Farmaco-chimico, Facoltà di Farmacia , Università di Messina , Messina, Italy
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Dugo P, Cacciola F, Kumm T, Dugo G, Mondello L. Comprehensive multidimensional liquid chromatography: Theory and applications. J Chromatogr A 2008; 1184:353-68. [PMID: 17655853 DOI: 10.1016/j.chroma.2007.06.074] [Citation(s) in RCA: 231] [Impact Index Per Article: 14.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2007] [Revised: 06/27/2007] [Accepted: 06/28/2007] [Indexed: 11/23/2022]
Abstract
Comprehensive two-dimensional (2D) liquid chromatographic (LC x LC) techniques can be considered innovative methods only recently developed and adopted in many configurations. The revolutionary aspect of comprehensive two-dimensional techniques, with respect to classical multidimensional (MD) chromatography, is that the entire sample is subjected to the 2D advantage. The major benefit is that the separation capacities of each dimension are multiplied, offering a high peak capacity to resolve samples of great complexity. The first part of the present review briefly describes the theoretical and practical aspects related to the development of a multidimensional comprehensive liquid chromatographic method. Applicational experiences in comprehensive liquid chromatography are then described, divided into four groups, according to the HPLC modes used in the two dimensions and to the nature of the samples analyzed.
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Affiliation(s)
- Paola Dugo
- Dipartimento di Scienza degli alimenti e dell'ambiente, Facoltà di Scienze, Università di Messina, Salita Sperone 31, 98166 Messina, Italy.
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Gao M, Deng C, Yu W, Zhang Y, Yang P, Zhang X. Large scale depletion of the high-abundance proteins and analysis of middle- and low-abundance proteins in human liver proteome by multidimensional liquid chromatography. Proteomics 2008; 8:939-47. [DOI: 10.1002/pmic.200600099] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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Cacciola F, Jandera P, Mondello L. Comparison of High-Temperature Gradient Heart-Cutting and Comprehensive LC × LC Systems for the Separation of Phenolic Antioxidants. Chromatographia 2007. [DOI: 10.1365/s10337-007-0379-3] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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Zhang J, Xu X, Gao M, Yang P, Zhang X. Comparison of 2-D LC and 3-D LC with post- and pre-tryptic-digestion SEC fractionation for proteome analysis of normal human liver tissue. Proteomics 2007; 7:500-512. [PMID: 17309095 DOI: 10.1002/pmic.200500880] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
The current "shotgun" proteomic analysis, strong cation exchange-RPLC-MS/MS system, is a widely used method for proteome research. Currently, it is not suitable for complicated protein sample analysis, like mammal tissues or cells. To increase the protein identification confidence and number, an additional separation dimension for sample fractionation is necessary to be coupled prior to current multi-dimensional protein identification technology (MudPIT). In this work, SEC was elaborately selected and applied for sample prefractionation in consideration of its non-bias against sample and variety of choice of mobile phases. The analysis of the global lysate of normal human liver tissue sample provided by the China Human Liver Proteome Project, were performed to compare the proteome coverage, sequence coverage (peptide per protein identification) and protein identification efficiency in MudPIT, 3-D LC-MS/MS identification strategy with preproteolytic and postproteolytic fractionation. It was demonstrated that 3-D LC-MS/MS utilizing protein level fractionation was the most effective method. A MASCOT search using the MS/MS results acquired by QSTAR(XL) identified 1622 proteins from 3-D LC-MS/MS identification approaches. A primary analysis on molecular weight, pI and grand average hydrophobicity value distribution of the identified proteins in different approaches was made to further evaluate the 3-D LC-MS/MS analysis strategy.
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Affiliation(s)
- Jie Zhang
- Department of Chemistry & Research Center for Proteome, Fudan University, Shanghai, P. R. China
| | - Xiuqing Xu
- Department of Chemistry & Research Center for Proteome, Fudan University, Shanghai, P. R. China
| | - Mingxia Gao
- Department of Chemistry & Research Center for Proteome, Fudan University, Shanghai, P. R. China
| | - Pengyuan Yang
- Department of Chemistry & Research Center for Proteome, Fudan University, Shanghai, P. R. China
| | - Xiangmin Zhang
- Department of Chemistry & Research Center for Proteome, Fudan University, Shanghai, P. R. China
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Gao M, Deng C, Lin S, Hu F, Tang J, Yao N, Zhang X. Recent developments and contributions from Chinese scientists in multidimensional separations for proteomics and traditional Chinese medicines. J Sep Sci 2007; 30:785-91. [PMID: 17536722 PMCID: PMC7167053 DOI: 10.1002/jssc.200600372] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2006] [Revised: 12/07/2006] [Indexed: 11/11/2022]
Abstract
The most basic task in proteomics remains the detection and identification of proteins from a biological sample, and the most traditional way to achieve this goal consists in protein separations performed by two-dimensional polyacrylamide gel electrophoresis (2-D PAGE). Yet the 2-D PAGE-mass spectrometry (MS) approach has its drawbacks with regard to automation, sensitivity, and throughput. Consequently, considerable effort has been devoted to the development of non-gel-based proteome separation technologies in an effort to alleviate the shortcomings of 2-D PAGE. In addition, traditional Chinese medicines (TCMs), due to their long period of clinical testing and reliable therapeutic efficacy, are attracting increased global attention. However, hundreds or even thousands of components are usually present in TCMs, which results in great difficulties of separation. As a mainstream separation tool, multidimensional liquid separation systems have shown powerful separation ability, high peak capacity, and excellent detectability in the analysis of complex samples including biological samples and TCMs, etc. Therefore, this review emphasizes the most recent advances in multidimensional liquid chromatography and capillary electrophoresis-based separation techniques, and the corresponding applications in proteomics and TCMs. In view of the significant contributions from Chinese scientists, this review focuses mainly on the work of Chinese scientists in the above fields.
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Affiliation(s)
- Mingxia Gao
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Chunhui Deng
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Shuang Lin
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Fengli Hu
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Jia Tang
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Ning Yao
- Department of Chemistry, Fudan University, Shanghai, China. Fax: +86‐21‐6564‐1740
- Research Center of Proteome, Fudan University, Shanghai, China
| | - Xiangmin Zhang
- Research Center of Proteome, Fudan University, Shanghai, China
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Gao M, Zhang J, Deng C, Yang P, Zhang X. Novel Strategy of High-Abundance Protein Depletion Using Multidimensional Liquid Chromatography. J Proteome Res 2006; 5:2853-60. [PMID: 17022657 DOI: 10.1021/pr0602186] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
In this study, for the first time, a comprehensive two-dimensional (2D) liquid-phase separation system, coupling strong cation exchange chromatography (SCX) to reversed-phase high performance liquid chromatography (RPLC), instead of specificity depletion method, was developed at the intact protein level for depletion of high-abundance proteins from rat liver. Proteins were prefractionated by SCX in the first dimensional separation, followed by RPLC with high resolution separation. UV absorption intensity was used to differentiate high-abundance proteins. The proteins with the absorbance intensity above 0.1 AU were defined as high abundance proteins and depleted. After removal of high-abundance proteins; other proteins were pooled, digested, and subsequently separated by capillary liquid chromatography coupled with MALDI-TOF/TOF mass spectrometry analysis. The high efficiency of the strategy was demonstrated by analyzing the soluble protein extracted from rat liver tissue. In total, 77 high-abundance proteins were depleted in one experiment flow. The ratio of depleted content of high-abundance proteins to that of total proteins was about 34.5%. In total, 1530 proteins were identified using the depletion strategy. Quantitative estimation of high-abundance proteins through liquid chromatography combined with UV absorption spectra was achieved. On the basis of the reproducible experimental results, a rapid and high-throughput depletion protocol was put forward. Along with depletion of the most (79.1%) high-abundance proteins and the separation of digested peptides, the total separation time could be less than 30 h. This strategy has no bias for depleting high-abundance proteins and enhances the number of identified proteins; therefore, it can be widely used in the global proteins analysis.
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Affiliation(s)
- Mingxia Gao
- Department of Chemistry and Research Center of Proteome, Fudan University, Shanghai 200433, China
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Zhang J, Gao M, Tang J, Yang P, Liu Y, Zhang X. Improvements in protein identification confidence and proteome coverage for human liver proteome study by coupling a parallel mass spectrometry/mass spectrometry analysis with multi-dimensional chromatography separation. Anal Chim Acta 2006. [DOI: 10.1016/j.aca.2006.03.045] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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Pierce KM, Wood LF, Wright BW, Synovec RE. A Comprehensive Two-Dimensional Retention Time Alignment Algorithm To Enhance Chemometric Analysis of Comprehensive Two-Dimensional Separation Data. Anal Chem 2005; 77:7735-43. [PMID: 16316183 DOI: 10.1021/ac0511142] [Citation(s) in RCA: 112] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A comprehensive two-dimensional (2D) retention time alignment algorithm was developed using a novel indexing scheme. The algorithm is termed comprehensive because it functions to correct the entire chromatogram in both dimensions and it preserves the separation information in both dimensions. Although the algorithm is demonstrated by correcting comprehensive two-dimensional gas chromatography (GC x GC) data, the algorithm is designed to correct shifting in all forms of 2D separations, such as LC x LC, LC x CE, CE x CE, and LC x GC. This 2D alignment algorithm was applied to three different data sets composed of replicate GC x GC separations of (1) three 22-component control mixtures, (2) three gasoline samples, and (3) three diesel samples. The three data sets were collected using slightly different temperature or pressure programs to engender significant retention time shifting in the raw data and then demonstrate subsequent corrections of that shifting upon comprehensive 2D alignment of the data sets. Thirty 12-min GC x GC separations from three 22-component control mixtures were used to evaluate the 2D alignment performance (10 runs/mixture). The average standard deviation of first column retention time improved 5-fold from 0.020 min (before alignment) to 0.004 min (after alignment). Concurrently, the average standard deviation of second column retention time improved 4-fold from 3.5 ms (before alignment) to 0.8 ms (after alignment). Alignment of the 30 control mixture chromatograms took 20 min. The quantitative integrity of the GC x GC data following 2D alignment was also investigated. The mean integrated signal was determined for all components in the three 22-component mixtures for all 30 replicates. The average percent difference in the integrated signal for each component before and after alignment was 2.6%. Singular value decomposition (SVD) was applied to the 22-component control mixture data before and after alignment to show the restoration of trilinearity to the data, since trilinearity benefits chemometric analysis. By applying comprehensive 2D retention time alignment to all three data sets (control mixtures, gasoline samples, and diesel samples), classification by principal component analysis (PCA) substantially improved, resulting in 100% accurate scores clustering.
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Affiliation(s)
- Karisa M Pierce
- Department of Chemistry, University of Washington, Seattle, 98195, USA
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