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Calligaris D, Verdier-Pinard P, Devred F, Villard C, Braguer D, Lafitte D. Microtubule targeting agents: from biophysics to proteomics. Cell Mol Life Sci 2010; 67:1089-104. [PMID: 20107862 PMCID: PMC11115596 DOI: 10.1007/s00018-009-0245-6] [Citation(s) in RCA: 50] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2009] [Revised: 12/02/2009] [Accepted: 12/21/2009] [Indexed: 12/13/2022]
Abstract
This review explores various aspects of the interaction between microtubule targeting agents and tubulin, including binding site, affinity, and drug resistance. Starting with the basics of tubulin polymerization and microtubule targeting agent binding, we then highlight how the three-dimensional structures of drug-tubulin complexes obtained on stabilized tubulin are seeded by precise biological and biophysical data. New avenues opened by thermodynamics analysis, high throughput screening, and proteomics for the molecular pharmacology of these drugs are presented. The amount of data generated by biophysical, proteomic and cellular techniques shed more light onto the microtubule-tubulin equilibrium and tubulin-drug interaction. Combining these approaches provides new insight into the mechanism of action of known microtubule interacting agents and rapid in-depth characterization of next generation molecules targeting the interaction between microtubules and associated modulators of their dynamics. This will facilitate the design of improved and/or alternative chemotherapies targeting the microtubule cytoskeleton.
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Affiliation(s)
- D. Calligaris
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - P. Verdier-Pinard
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - F. Devred
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - C. Villard
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - D. Braguer
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
| | - Daniel Lafitte
- INSERM UMR 911, Centre de Recherche en Oncologie biologique et en Oncopharmacologie, Faculté de Pharmacie, Aix-Marseille Université, 27 Boulevard Jean Moulin, 13385 Marseille Cedex 05, France
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Abstract
MALDI imaging as a molecular mass spectrometry imaging technique (MSI) can provide accurate information about molecular composition on a surface. The last decade of MSI development has brought the technology to clinical and biomedical applications as a complementary technique of MRI and other molecular imaging. Then, this IMS technique is used for endogenous and exogenous molecule detection in pharmaceutical and biomedical fields. However, some limitations still exist due to physical and chemical aspects, and sensitivity of certain compounds is very low. Thus, we developed a multiplex technique for fast detection of different compound natures. The multiplex MALDI imaging technique uses a photocleavable group that can be detect easily by MALDI instrument. These techniques of targeted imaging using Tag-Mass molecules allow the multiplex detection of compounds like antibodies or oligonucleotides. Here, we describe how we used this technique to detect huge proteins and mRNA by MALDI imaging in rat brain and in a model for regeneration; the leech.
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Affiliation(s)
- Jonathan Stauber
- Laboratoire de Neuroimmunologie et Neurochimie Evolutives, FRE CNRS 3249, MALDI Imaging Team, Université Lille Nord de France, Université Lille 1, Villeneuve d'Ascq, France
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53
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Stauber J, El Ayed M, Wisztorski M, Day R, Fournier I, Salzet M. Polymerase Chain Reaction and Immunoassay−Matrix Assisted Laser Desorption Mass Spectrometry Using Tag-Mass Technology: New Tools to Break Down Quantification Limits and Multiplexes. Anal Chem 2009; 81:9512-21. [DOI: 10.1021/ac901416s] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- J. Stauber
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
| | - M. El Ayed
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
| | - M. Wisztorski
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
| | - R. Day
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
| | - I. Fournier
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
| | - M. Salzet
- University de Lille1, CNRS, MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, Villeneuve d’Ascq F-59655, France, and Université de Sherbrooke, Département de Pharmacologie, Faculté de médecine, Sherbrooke, Québec, J1H 5N4, Canada
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Franck J, Arafah K, Barnes A, Wisztorski M, Salzet M, Fournier I. Improving Tissue Preparation for Matrix-Assisted Laser Desorption Ionization Mass Spectrometry Imaging. Part 1: Using Microspotting. Anal Chem 2009; 81:8193-202. [DOI: 10.1021/ac901328p] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Julien Franck
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
| | - Karim Arafah
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
| | - Alan Barnes
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
| | - Maxence Wisztorski
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
| | - Michel Salzet
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
| | - Isabelle Fournier
- Université de Lille1, CNRS, Team, Laboratoire de Neuroimmunologie des Annélides, MALDI Imaging, F-59655 Villeneuve d’Ascq Cedex, France, and Shimadzu Corporation, Wharfside, Trafford Wharf Road, Manchester, U.K
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55
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Franck J, Arafah K, Elayed M, Bonnel D, Vergara D, Jacquet A, Vinatier D, Wisztorski M, Day R, Fournier I, Salzet M. MALDI imaging mass spectrometry: state of the art technology in clinical proteomics. Mol Cell Proteomics 2009; 8:2023-33. [PMID: 19451175 DOI: 10.1074/mcp.r800016-mcp200] [Citation(s) in RCA: 140] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
A decade after its inception, MALDI imaging mass spectrometry has become a unique technique in the proteomics arsenal for biomarker hunting in a variety of diseases. At this stage of development, it is important to ask whether we can consider this technique to be sufficiently developed for routine use in a clinical setting or an indispensable technology used in translational research. In this report, we consider the contributions of MALDI imaging mass spectrometry and profiling technologies to clinical studies. In addition, we outline new directions that are required to align these technologies with the objectives of clinical proteomics, including: 1) diagnosis based on profile signatures that complement histopathology, 2) early detection of disease, 3) selection of therapeutic combinations based on the individual patient's entire disease-specific protein network, 4) real time assessment of therapeutic efficacy and toxicity, 5) rational redirection of therapy based on changes in the diseased protein network that are associated with drug resistance, and 6) combinatorial therapy in which the signaling pathway itself is viewed as the target rather than any single "node" in the pathway.
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Affiliation(s)
- Julien Franck
- MALDI Imaging Team, Laboratoire de Neuroimmunologie des Annélides, IFR 147, CNR-FRE 2933, University of Lille1, 59655 Villeneuve d'Ascq, France
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Thiery G, Anselmi E, Audebourg A, Darii E, Abarbri M, Terris B, Tabet JC, Gut IG. Improvements of TArgeted multiplex mass spectrometry IMaging. Proteomics 2008; 8:3725-34. [PMID: 18780398 DOI: 10.1002/pmic.200701150] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
MALDI mass spectrometers have become popular tools for imaging histological sections. Currently this technology is primarily used for imaging naturally occurring molecules. Here we report on the improvement of TArgeted multiplex MS IMaging (TAMSIM) technology. For TAMSIM we attach photocleavable mass tags to antibodies. Staining histological sections is done analogously to standard immunohistochemical procedures with chemiluminescent or fluorescent detection with the sole difference that multiple antibodies each with a distinct mass tag are used in a single reaction. Mass tags are released from their respective antibodies by a laser pulse at 355 nm without added matrix. After scanning, MS images are created for each tag mass. The enhancements of TAMSIM presented here relate to four elements, the use of an improved generation of tags, their conjugation directly to primary antibodies, the comparison of fresh frozen sections with paraffin embedded ones for the TAMSIM imaging technology and finally, the increase of multiplex detection. Sections of healthy human pancreatic tissue were imaged to visualize different specific biomarkers (synaptophysin, chromogranin, insulin, calcitonin, somatostatin) in neuroendocrine cells of Langerhans islets. The aim was to localize these biomarkers on the tissue sections simultaneously.
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Affiliation(s)
- Gwendoline Thiery
- CEA/Institut de Génomique-Centre National de Génotypage, Evry, France
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57
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Fournier I, Wisztorski M, Salzet M. Tissue imaging using MALDI-MS: a new frontier of histopathology proteomics. Expert Rev Proteomics 2008; 5:413-24. [PMID: 18532909 DOI: 10.1586/14789450.5.3.413] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Modern pathology is an amalgam of many disciplines, such as microbiology, biochemistry and immunology, which historically have been intermingled with the practice of clinical medicine. For centuries, the pre-eminent pathological tool, at least in the context of patients, was a post-mortem examination. With the advent of optical microscopes, morphology became a predominant means of developing tissue classification. A further paradigm shift occurred in the attempt to understand the nature and origin of disease; the recognition that, ultimately, it is the derangement in the structure and function of genes and proteins that causes human disease. More recent progress in pathology has led to the use of genomics and molecular technologies, including DNA sequencing, microarray analysis, PCR, in situ hybridization and proteomics. Today, the newest frontier appears to be histopathology proteomics, which adds the mass spectrometer to the arsenal of tools for the direct analysis of tissue biopsies and molecular diagnosis. Typically called MALDI imaging, this technique takes mass spectral snapshots of intact tissue slices, revealing how proteins and peptides are spatially distributed within a given sample. In this review, MALDI imaging technology is presented as well as applications of such technology in cancer or neurodegenerative diseases.
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Affiliation(s)
- Isabelle Fournier
- Laboratoire de Neurobiologie des Annélides, FRE CNRS 2933, MALDI Imaging Team, University of Lille 1, F-59655 Villeneuve d'Ascq Cedex, France.
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58
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Wisztorski M, Croix D, Macagno E, Fournier I, Salzet M. Molecular MALDI imaging: an emerging technology for neuroscience studies. Dev Neurobiol 2008; 68:845-58. [PMID: 18383549 DOI: 10.1002/dneu.20623] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Mass spectrometry (MS) has become an essential tool for the detection, identification, and characterization of the molecular components of biological processes, such as those responsible for the dynamic properties of the nervous system. Generally, the application of these powerful techniques requires the destruction of the specimen under study, but recent technological advances have made it possible to apply the matrix-assisted laser desorption/ionization (MALDI) MS technique directly to tissue sections. The major advantage of direct MALDI analysis is that it enables the acquisition of local molecular expression profiles, while maintaining the topographic integrity of the tissue and avoiding time-consuming extraction, purification, and separation steps, which have the potential for introducing artifacts. With automation and the ability to display complex spectral data using imaging software, it is now possible to create multiple 2D maps of selected biomolecules in register with tissue sections, a method now known as MALDI Imaging, or MSI (for Mass Spectrometry Imaging). This creates, for example, an opportunity to correlate functional states, determined a priori with live recording or imaging, with the corresponding molecular maps obtained at the time the tissue is frozen and analyzed with MSI. We review the increasing application of MALDI Imaging to the analysis of molecular distributions of proteins and peptides in nervous tissues of both vertebrates and invertebrates, focusing in particular on recent studies of neurodegenerative diseases and early efforts to implement assays of neuronal development.
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Affiliation(s)
- Maxence Wisztorski
- Equipe Imagerie MALDI, Cité Scientifique, Université des Sciences et Technologies de Lille, 59650 Villeneuve d'Ascq, France
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59
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Cornett DS, Reyzer ML, Chaurand P, Caprioli RM. MALDI imaging mass spectrometry: molecular snapshots of biochemical systems. Nat Methods 2007; 4:828-33. [PMID: 17901873 DOI: 10.1038/nmeth1094] [Citation(s) in RCA: 635] [Impact Index Per Article: 37.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) is emerging as a powerful tool for investigating the distribution of molecules within biological systems through the direct analysis of thin tissue sections. Unique among imaging methods, MALDI-IMS can determine the distribution of hundreds of unknown compounds in a single measurement. We discuss the current state of the art of MALDI-IMS along with some recent applications and technological developments that illustrate not only its current capabilities but also the future potential of the technique to provide a better understanding of the underlying molecular mechanisms of biological processes.
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Affiliation(s)
- Dale S Cornett
- Mass Spectrometry Research Center, 465 21st Avenue, Vanderbilt University Medical Center, Nashville, Tennessee 37232, USA
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Lemaire R, Menguellet SA, Stauber J, Marchaudon V, Lucot JP, Collinet P, Farine MO, Vinatier D, Day R, Ducoroy P, Salzet M, Fournier I. Specific MALDI imaging and profiling for biomarker hunting and validation: fragment of the 11S proteasome activator complex, Reg alpha fragment, is a new potential ovary cancer biomarker. J Proteome Res 2007; 6:4127-34. [PMID: 17939699 DOI: 10.1021/pr0702722] [Citation(s) in RCA: 171] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
MALDI imaging mass spectrometry represents a new analytical tool to directly provide the spatial distribution and relative abundance of proteins in tissue. Twenty-five ovary carcinomas (stages III and IV) and 23 benign ovaries were directly analyzed using MALDI-TOF MS. The biomarker with the major prevalence (80%) has been fully identified using MALDI MS and nanoESI MS and MS/MS after separation by RP-HPLC and trypsin enzymatic digestion. This marker with an m/z of 9744 corresponds to 84 amino acid residues from the 11S proteasome activator complex, named PA28 or Reg-alpha. Validation of this marker has been performed using MALDI imaging, classical immunocytochemistry with an antibody raised against the C-terminal part of the protein, specific MALDI imaging, and Western blot analysis. The validation, using immunocytochemistry, confirmed the epithelial localization of this fragment with nucleus localization in benign epithelial cells and a cytoplasmic localization in carcinoma cells. This indicates that this antibody could be used to discriminate the borderline tumor cases. At this point, a multicentric study needs to be conducted in order to clearly establish the potential of this biomarker. Taken together these studies reflect that direct tissue analysis and specific MALDI imaging strategies facilitate biomarker hunting and validation which can be named pathological proteomics.
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Affiliation(s)
- Remi Lemaire
- Laboratoire de Neuroimmunologie des Annélides, FRE-CNRS 2933, MALDI Imaging Team, Cité Scientifique, Université des Sciences et Technologies de Lille, 59650 Villeneuve d'Ascq, France
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