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Sample Displacement Batch Chromatography of Proteins. Methods Mol Biol 2020. [PMID: 33128756 DOI: 10.1007/978-1-0716-0775-6_19] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/27/2023]
Abstract
In downstream processing, large-scale chromatography plays an important role. For its development, screening experiments followed by pilot-plant chromatography are mandatory steps. Here we describe fast, simple, and inexpensive methods for establishing a preparative chromatography for the separation of complex protein mixtures, based on sample displacement batch chromatography. The methods are demonstrated by anion-exchange chromatography of a human plasma protein fraction (Cohn IV-4), including the screening step and upscaling of the chromatography by a factor of one hundred. The results of the screening experiments and the preparative chromatography are monitored by SDS-PAGE electrophoresis. In summary, we provide a protocol, which should be easily adaptable for the chromatographic large-scale purification of other proteins, in the laboratory as well as in the manufacturing of biopharmaceuticals. These protocols cover the initial piloting steps for establishing a large-scale sample batch chromatography. The results from the piloting steps may also be applied for packed columns for performing simulated-moving-bed (SMB) chromatography rather than batch chromatography.
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Kotasinska M, Richter V, Kwiatkowski M, Schlüter H. Sample displacement batch chromatography of proteins. Methods Mol Biol 2014; 1129:325-338. [PMID: 24648085 DOI: 10.1007/978-1-62703-977-2_24] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
In downstream processing large scale chromatography plays an important role. For its development screening experiments followed by pilot plant chromatography are mandatory steps. Here we describe fast, simple, and inexpensive methods for establishing a preparative chromatography for the separation of complex protein mixtures, based on sample displacement batch chromatography. The methods are demonstrated by anion-exchange chromatography of a human plasma protein fraction (Cohn IV-4), including the screening step and scaling up of the chromatography by a factor of 100. The results of the screening experiments and the preparative chromatography are monitored by SDS-PAGE electrophoresis. In summary we provide a protocol which should be easily adaptable for the chromatographic large scale purification of other proteins, in the laboratory as well as in industry for commercial manufacturing. For the latter these protocols cover the initial piloting steps for establishing a sample batch chromatography based on packed columns rather than batch chromatography.
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Affiliation(s)
- Marta Kotasinska
- Institute of Clinical Chemistry - Mass Spectrometric Proteomics, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
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Zhao G, Bai S, Sun Y. Development of a displacer-immobilized ligand docking scheme for displacer screening for protein displacement chromatography. Biochem Eng J 2011. [DOI: 10.1016/j.bej.2011.03.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Morrison CJ, Moore JA, Cramer SM. Alkyl Based Selective Displacers for Protein Purification in Ion Exchange Chromatography. Chromatographia 2010. [DOI: 10.1365/s10337-010-1792-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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Evans ST, Morrison CJ, Freed A, Cramer SM. The effect of feed composition on the behavior of chemically selective displacement systems. J Chromatogr A 2010; 1217:1249-54. [DOI: 10.1016/j.chroma.2009.12.020] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2009] [Revised: 11/30/2009] [Accepted: 12/03/2009] [Indexed: 11/24/2022]
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Ahrends R, Lichtner B, Bertsch A, Kohlbacher O, Hildebrand D, Trusch M, Schlüter H. Application of displacement chromatography for the proteome analysis of a human plasma protein fraction. J Chromatogr A 2009; 1217:3321-9. [PMID: 19854443 DOI: 10.1016/j.chroma.2009.10.028] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2009] [Revised: 10/05/2009] [Accepted: 10/09/2009] [Indexed: 11/17/2022]
Abstract
It was the aim of this study to compare the performance of displacement chromatography with gradient elution chromatography both applied as the cation-exchange separation step for a proteome analysis in a bottom-up approach using multidimensional chromatography for the separation of tryptic peptides prior to their mass spectrometric analysis. The tryptic digest of the human Cohn fraction IV-4 served as a sample. For both chromatography modes commonly used operating parameters were chosen thus ensuring optimal separation results of equal sample amounts for each mode. All resulting fractions were analyzed with an HPLC-chip-LC-MS system. The eluate of the HPLC-chip column was ionized by electrospray ionization (ESI) and analyzed with an ion-trap mass spectrometer. For guaranteeing high confidence concerning the identity of the peptides, the mass spectrometric data were processed by different bioinformatic tools applying stringent criteria. By the displacement approach the total amount of identified proteins (78) was significantly higher than in the gradient mode (58). The results showed that displacement chromatography is a well suited alternative in comparison to gradient elution separation for analysis of proteomes via the bottom-up approach applying multidimensional chromatography, especially in those cases when larger quantities of proteins are available.
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Affiliation(s)
- Robert Ahrends
- University Medical Center Hamburg-Eppendorf, Department of Clinical Chemistry, Mass Spectrometric Proteomics, Campus Forschung, N27 Room 00.008, Martinistr 52, 20246 Hamburg, Germany
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Morrison CJ, Breneman CM, Moore JA, Cramer SM. Evaluation of Chemically Selective Displacer Analogues for Protein Purification. Anal Chem 2009; 81:6186-94. [DOI: 10.1021/ac900710f] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Christopher J. Morrison
- Department of Chemical and Biological Engineering, Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180
| | - Curt M. Breneman
- Department of Chemical and Biological Engineering, Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180
| | - J. A. Moore
- Department of Chemical and Biological Engineering, Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180
| | - Steven M. Cramer
- Department of Chemical and Biological Engineering, Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180
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Morrison CJ, Cramer SM. Characterization and design of chemically selective cationic displacers using a robotic high-throughput screen. Biotechnol Prog 2009; 25:825-33. [DOI: 10.1002/btpr.159] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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Morrison CJ, Godawat R, McCallum SA, Garde S, Cramer SM. Mechanistic studies of displacer-protein binding in chemically selective displacement systems using NMR and MD simulations. Biotechnol Bioeng 2009; 102:1428-37. [DOI: 10.1002/bit.22170] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Morrison CJ, Park SK, Simocko C, McCallum SA, Cramer SM, Moore JA. Synthesis and characterization of fluorescent displacers for online monitoring of displacement chromatography. J Am Chem Soc 2009; 130:17029-37. [PMID: 19053488 DOI: 10.1021/ja806279x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
One of the major impediments to the implementation of displacement chromatography for the purification of biomolecules is the need to collect fractions from the column effluent for time-consuming offline analysis. The ability to employ direct online monitoring of displacement chromatography would have significant implications for applications ranging from analytical to preparative bioseparations. To this end, a set of novel fluorescent displacers were rationally designed using known chemically selective displacers as a template. Fluorescent cores were functionalized with different charge moieties, creating a homologous library of displacers. These compounds were then tested on two protein pairs, alpha-chymotrypsinogen A/ribonuclease A and cytochrome c/lysozyme, using batch and column displacement experiments. Of the synthesized displacers, two were found to be highly selective while one was determined to be a high-affinity displacer. Column displacements using one of the selective displacers yielded complete separation of both protein pairs while facilitating direct online detection using UV and fluorescence detection. Saturation transfer difference NMR was also carried out to investigate the binding of the fluorescent displacers to proteins. The results indicated a selective binding between the selective displacers and alpha-chymotrypsinogen A, while no binding was observed for ribonuclease A, confirming that protein-displacer binding is responsible for the selectivity in these systems. This work demonstrates the utility of fluorescent displacers to enable online monitoring of displacer breakthroughs while also acting as efficient displacers for protein purification.
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Affiliation(s)
- Christopher J Morrison
- Departments of Chemical and Biological Engineering, Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute, 110 Eighth Street, Troy, New York 12180, USA
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Evans ST, Freed A, Cramer SM. Displacer concentration effects in displacement chromatography. J Chromatogr A 2009; 1216:79-85. [DOI: 10.1016/j.chroma.2008.11.040] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2008] [Revised: 11/03/2008] [Accepted: 11/07/2008] [Indexed: 10/21/2022]
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Vutukuru S, Kane RS. Surface plasmon resonance spectroscopy-based high-throughput screening of ligands for use in affinity and displacement chromatography. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:11784-11789. [PMID: 18788766 DOI: 10.1021/la8023088] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
We describe an approach that uses surface plasmon resonance (SPR) spectroscopy and self-assembled monolayers (SAMs) for the high-throughput screening of ligands for use in displacement and affinity chromatographic processes. We identified a set of commercially available organic amines and allowed them to react with SAMs presenting interchain carboxylic anhydride groups; the resulting surfaces presented ligands of interest in a background of carboxylic acid groups. We used SPR spectroscopy to determine the extent of adsorption of two model proteinslysozyme and cytochrome conto these "multimodal" surfaces and to select promising "affinity" ligands for further characterization. The attachment of selected ligands to UltraLink Biosupport resulted in beads with a significantly greater affinity for lysozyme than for cytochrome c that would be suitable for use in affinity chromatographic processes. Furthermore, we also used the screens to design "affinity displacers"small molecules that selectively retain lysozyme on chromatographic resins, while displacing cytochrome c. The combination of SPR spectroscopy and SAMs represents a powerful technique for identifying novel ligands that enable the purification of complex protein mixtures.
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Affiliation(s)
- Srinavya Vutukuru
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, New York 12180, USA
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Saary MJ. Radar plots: a useful way for presenting multivariate health care data. J Clin Epidemiol 2008; 61:311-7. [PMID: 18313553 DOI: 10.1016/j.jclinepi.2007.04.021] [Citation(s) in RCA: 76] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2006] [Revised: 04/03/2007] [Accepted: 04/14/2007] [Indexed: 11/16/2022]
Abstract
OBJECTIVE Health care researchers have not taken full advantage of the potential to effectively convey meaning in their multivariate data through graphical presentation. The aim of this paper is to translate knowledge from the fields of analytical chemistry, toxicology, and marketing research to the field of medicine by introducing the radar plot, a useful graphical display method for multivariate data. STUDY DESIGN AND SETTING Descriptive study based on literature review. RESULTS The radar plotting technique is described, and examples are used to illustrate not only its programming language, but also the differences in tabular and bar chart approaches compared to radar-graphed data displays. CONCLUSION Radar graphing, a form of radial graphing, could have great utility in the presentation of health-related research, especially in situations in which there are large numbers of independent variables, possibly with different measurement scales. This technique has particular relevance for researchers who wish to illustrate the degree of multiple-group similarity/consensus, or group differences on multiple variables in a single graphical display.
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Affiliation(s)
- M Joan Saary
- Gage Occupational and Environmental Health Unit, Department of Occupational and Environmental Health, St. Michael's Hospital, Toronto, ON, Canada.
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Vutukuru S, Kate SD, McCallum SA, Morrison CJ, Cramer SM, Kane RS. An affinity-based strategy for the design of selective displacers for the chromatographic separation of proteins. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2008; 24:6768-6773. [PMID: 18512879 DOI: 10.1021/la800581b] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
We describe an affinity-based strategy for designing selective protein displacers for the chromatographic purification of proteins. To design a displacer that is selective for a target protein, we attached a component with affinity for the target protein to a resin-binding component; we then tested the ability of such displacers to selectively retain the target protein on a resin relative to another protein having a similar retention time. In particular, we synthesized displacers based on biotin, which selectively retained avidin as compared to aprotinin on SP Sepharose high performance resin. In addition, we have extended this approach to develop an affinity-peptide-based displacer that discriminates between lysozyme and cytochrome c. Here, a selective displacer was designed from a lysozyme-binding peptide that had been identified and optimized previously using phage-display technology. Our results suggest a general strategy for designing highly selective affinity-based displacers by identifying molecules (e.g., peptides) that bind to a protein of interest and using an appropriate linker to attach these molecules to a moiety that binds to the stationary phase.
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Affiliation(s)
- Srinavya Vutukuru
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, NY 12180, USA
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Liu J, Hilton ZA, Cramer SM. Chemically Selective Displacers for High-Resolution Protein Separations in Ion-Exchange Systems: Effect of Displacer−Protein Interactions. Anal Chem 2008; 80:3357-64. [DOI: 10.1021/ac702565p] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jia Liu
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Ricketts Building, 110 8th Street, Troy, New York 12180
| | - Zachary A. Hilton
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Ricketts Building, 110 8th Street, Troy, New York 12180
| | - Steven M. Cramer
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Ricketts Building, 110 8th Street, Troy, New York 12180
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Chen J, Yang T, Luo Q, Breneman CM, Cramer SM. Investigation of protein retention in hydrophobic interaction chromatographic (HIC) systems using the preferential interaction theory and quantitative structure property relationship models. REACT FUNCT POLYM 2007. [DOI: 10.1016/j.reactfunctpolym.2007.07.029] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Liu J, Park SK, Moore JA, Cramer SM. Effect of Displacer Chemistry on Displacer Efficacy for a Sugar-Based Anion Exchange Displacer Library. Ind Eng Chem Res 2006. [DOI: 10.1021/ie060495m] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jia Liu
- Department of Chemical and Biological Engineering and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, Troy, New York 12180
| | - Sun K. Park
- Department of Chemical and Biological Engineering and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, Troy, New York 12180
| | - J. A. Moore
- Department of Chemical and Biological Engineering and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, Troy, New York 12180
| | - Steven M. Cramer
- Department of Chemical and Biological Engineering and Department of Chemistry and Chemical Biology, Rensselaer Polytechnic Institute, Troy, New York 12180
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Liu J, Yang T, Ladiwala A, Cramer SM, Breneman CM. High Throughput Determination and QSER Modeling of Displacer DC‐50 Values for Ion Exchange Systems. SEP SCI TECHNOL 2006. [DOI: 10.1080/01496390600894822] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Liu H, Yao X, Zhang R, Liu M, Hu Z, Fan B. Accurate Quantitative Structure−Property Relationship Model To Predict the Solubility of C60 in Various Solvents Based on a Novel Approach Using a Least-Squares Support Vector Machine. J Phys Chem B 2005; 109:20565-71. [PMID: 16853662 DOI: 10.1021/jp052223n] [Citation(s) in RCA: 108] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
A least-squares support vector machine (LSSVM) was used for the first time as a novel machine-learning technique for the prediction of the solubility of C60 in a large number of diverse solvents using calculated molecular descriptors from the molecular structure alone and on the basis of the software CODESSA as inputs. The heuristic method of CODESSA was used to select the correlated descriptors and build the linear model. Both the linear and the nonlinear models can give very satisfactory prediction results: the square of the correlation coefficient R(2) was 0.892 and 0.903, and the root-mean-square error was 0.126 and 0.116, respectively, for the whole data set. The prediction result of the LSSVM model is better than that obtained by the heuristic method and the reference, which proved LSSVM was a useful tool in the prediction of the solubility of C60. In addition, this paper provided a new and effective method for predicting the solubility of C60 from its structures and gave some insight into the structural features related to the solubility of C60 in different solvents.
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Affiliation(s)
- Huanxiang Liu
- Department of Chemistry, Lanzhou University, Lanzhou 730000, People's Republic of China
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Abstract
A multidimensional, batch high-throughput screening (MD-HTS) protocol was developed to investigate the effects of various parameters on the selectivity of ion-exchange protein displacement systems. A variety of molecules were screened, and the results were employed to provided insights into the influence of displacer chemistry and concentration, resin chemistry, and mobile-phase salt counterion on the efficacy and selectivity of these nonlinear chromatographic systems. These results open up the possibility of tailoring the selectivity of displacement separations by choosing appropriate combinations of operating conditions using the MD-HTS technique. The screens were also employed for the identification of displacers and conditions for the separation of a challenging protein mixture by selective displacement chromatography. Column displacements were carried out with potential lead compounds identified from the MD-HTS screens, and the results confirmed that selective displacement could indeed be achieved for this model mixture. Furthermore, the results indicated that this approach is particularly useful when the order of elution is not changed, but the inherent selectivity is increased in the presence of the displacer. The results presented in this paper demonstrate the utility of the MD-HTS technique for rapid method development in protein ion-exchange displacement chromatography.
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Affiliation(s)
- Kaushal Rege
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, New York 12180, USA
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Yao X, Panaye A, Doucet J, Chen H, Zhang R, Fan B, Liu M, Hu Z. Comparative classification study of toxicity mechanisms using support vector machines and radial basis function neural networks. Anal Chim Acta 2005. [DOI: 10.1016/j.aca.2004.11.066] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Tugcu N, Cramer SM. The effect of multi-component adsorption on selectivity in ion exchange displacement systems. J Chromatogr A 2005; 1063:15-23. [PMID: 15700453 DOI: 10.1016/j.chroma.2004.10.099] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
This paper examines chemically selective displacement chromatography using affinity ranking plots, batch displacer screening experiments, column displacements, multi-component adsorption isotherms and spectroscopy. The affinity ranking plot indicated that the displacers, sucrose octasulfate (SOS) and tatrazine, should possess sufficient affinity to displace the proteins amyloglucosidase and apoferritin over a wide range of operating conditions. In addition, the plots indicated that the separation of these proteins by displacement chromatography would be extremely difficult. Further, the two proteins were shown to have very similar retention times under shallow linear gradient conditions. When batch displacement experiments were carried out, both tartrazine and SOS exhibited significant selectivity differences with respect to their ability to displace these two proteins, in contrast to the affinity ranking plot results. Column displacement experiments carried out with sucrose octasulfate agreed with the predictions of the affinity ranking plots, with both proteins being displaced but poorly resolved under several column displacement conditions. On the other hand, column displacement with tartrazine as the displacer resulted in the selective displacement and partial purification of apoferritin. Single- and multi-component isotherms of the proteins with or without the presence of displacers were determined and were used to help explain the selectivity reversals observed in the column and batch displacement experiments. In addition, fluorescence and CD spectra suggested that the displacers did not induce any structural changes to either of the proteins. The results in this paper indicate that multi-component adsorption behavior can be exploited for creating chemically selective displacement separations.
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Affiliation(s)
- N Tugcu
- Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute, Troy, NY 12180, USA
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