Peptide−Protein Microarrays for the Simultaneous Detection of Pathogen Infections

Duburcq, Xavier; Olivier, Christophe; Malingue, Frédéric; Desmet, Rémi; Bouzidi, Ahmed; Zhou, Fenhling; Auriault, Claude; Gras‐Masse, Hélène; Melnyk, Oleg

doi:10.1021/bc034226d

Cited by 93 publications

(70 citation statements)

References 22 publications

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“…Protein microarray is used for profiling complex samples in large quantities at a time and provides platform for both the classical and functional proteome analysis [56][57][58][59][60]. The first antibody microarray used for protein-protein interaction and post translational modification analysis in mammalian cells was reported in 2004 by Ivanov et al [61].…”

Section: Protein Microarraymentioning

confidence: 99%

Proteomics: A Successful Approach to Understand the Molecular Mechanism of Plant-Pathogen Interaction

Lodha¹,

Hembram²,

Tep³

2013

AJPS

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In recent years, proteomics has played a key role in identifying changes in protein levels in plant hosts upon infection by pathogenic organisms and in characterizing cellular and extracellular virulence and pathogenicity factors produced by pathogens. Proteomics offers a constantly evolving set of novel techniques to study all aspects of protein structure and function. Proteomics aims to find out the identity and amount of each and every protein present in a cell and actual function mediating specific cellular processes. Structural proteomics elucidates the development and application of experimental approaches to define the primary, secondary and tertiary structures of proteins, while functional proteomics refers to the development and application of global (proteome wide or system-wide) experimental approaches to assess protein function. A detail understanding of plant defense response using successful combination of proteomic techniques and other high throughput techniques of cell biology, biochemistry as well as genomics is needed for practical application to secure and stabilize yield of many crop plants. This review starts with a brief introduction to gel-and non gel-based proteomic techniques followed by the basics of plant-pathogen interaction, the use of proteomics in recent pasts to decipher the mysteries of plant-pathogen interaction, and ends with the future prospects of this technology.

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Section: Protein Microarraymentioning

confidence: 99%

Proteomics: A Successful Approach to Understand the Molecular Mechanism of Plant-Pathogen Interaction

Lodha¹,

Hembram²,

Tep³

2013

AJPS

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“…46 Similarly pathogens ͑including many types of viruses and bacteria͒ may be targeted by exploiting the uniqueness of their enzymes and metabolic processes. 14,47 There is hence a pressing need to elucidate the subtle differences that make each enzyme unique. A detailed understanding of the architecture of enzyme active sites facilitates not only the design of potent and selective inhibitors but also the discovery of its biological function and downstream targets.…”

Section: 34mentioning

confidence: 99%

Microarray-based enzyme profiling: Recent advances and applications (Review)

Uttamchandani

Moochhala

2010

Biointerphases

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Enzymes are an integral part of biological systems. They constitute a significant majority of all proteins expressed (an estimated 18%–29%) within eukaryotic genomes. It thus comes as no major surprise that enzymes have been implicated in many diseases and form the second largest group of drug targets, after receptors. Despite their involvement in a multitude of physiological processes, only a limited number of enzymes have thus far been well-characterized. Consequently, little is understood about the physiological roles, substrate specificity, and downstream targets of the vast majority of these important proteins. In order to facilitate the biological characterization of enzymes, as well as their adoption as drug targets, there is a need for global “-omics” solutions that bridge the gap in understanding these proteins and their interactions. Herein the authors showcase how microarray methods can be adopted to facilitate investigations into enzymes and their properties, in a high-throughput manner. They will focus on several major classes of enzymes, including kinases, phosphatases, and proteases. As a result of research efforts over the last decade, these groups of enzymes have become readily amenable to microarray-based profiling methods. The authors will also describe the specific design considerations that are required to develop the appropriate chemical tools and libraries to characterize each enzyme class. These include peptide substrates, activity-based probes, and chemical compound libraries, which may be rapidly assembled using efficient combinatorial synthesis or “click chemistry” strategies. Taken together, microarrays offer a powerful means to study, profile, and also discover potent small molecules with which to modulate enzyme activity.

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“…[55,56] There are some other exciting chemical ligation systems that would be applicable for creating highly engineered solid surfaces, namely, [1,3]-dipolar cycloaddition [57,58] and Staudinger ligation. [59] The exclusive feature of these chemical ligation techniques is the lack of cross-reactivities of functional groups in the reactants with any amino acid side chain at the surfaces of naturally occurring proteins; this feature is of benefit in site-specific immobilization of capture agents onto the substrates.…”

Section: Surface Chemistry For Immobilization Of Capture Agents Onto mentioning

confidence: 99%

“…Very recently, Melnyk and co-workers constructed peptide microarrays, which were stable for a month and in which peptides were immobilized through semicarbazone linkages that are formed by coupling of glyoxylyl peptides and semicarbazide-modified slides. [55,56] The arrays detected specific antibodies by an immunoassay with three model epitopes (HCV core, NS4 capsid, and EBV capsid) [55] and with HCV peptide fragments, HBV (HBc, HBe, and HBs), HIV (gp41, gp120, and gp36), Epstein-Barr virus (VCAp18 153-176 peptide), and syphilis (rTpN47 and rTpN17) antigens. [56] The same group also constructed protein microarrays in which proteins were adsorbed onto the semicarbazide-modified surfaces, and they analyzed interactions with HIV (gp120, gp41), HCV (mix-HCV, core, NS3, and NS4), and HBV (HBs) recombinant antigens.…”

Section: Peptide Microarraysmentioning

confidence: 99%

Protein‐Detecting Microarrays: Current Accomplishments and Requirements

2005

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The sequencing of the human genome has been successfully completed and offers the chance of obtaining a large amount of valuable information for understanding complex cellular events simply and rapidly in a single experiment. Interestingly, in addressing these proteomic studies, the importance of protein-detecting microarray technology is increasing. In the coming few years, microarray technology will become a significantly promising and indispensable research/diagnostic tool from just a speculative technology. It is clear that the protein-detecting microarray is supported by three independent but strongly related technologies (surface chemistry, detection methods, and capture agents). Firstly, a variety of surface-modification methodologies are now widely available and offer site-specific immobilization of capture agents onto surfaces in such a way as to keep the native conformation and activity. Secondly, sensitive and parallel detection apparatuses are being developed to provide highly engineered microarray platforms for simultaneous data acquisition. Lastly, in the development of capture agents, antibodies are now probably the most prominent capture agents for analyzing protein abundances. Alternative scaffolds, such as phage-displayed antibody and protein fragments, which provide the advantage of increasing diversity of proteinic capture agents, however, are under development. An approach involving recombinant proteins fused with affinity tag(s) and coupled with a highly engineered surface chemistry will provide simple production protocols and specific orientations of capture agents on the microarray formats. Peptides and other small molecules can be employed in screening highly potent ligands as well as in measuring enzymatic activities. Protein-detecting microarrays supported by the three key technologies should contribute in accelerating diagnostic/biological research and drug discovery.

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Peptide−Protein Microarrays for the Simultaneous Detection of Pathogen Infections

Cited by 93 publications

References 22 publications

Proteomics: A Successful Approach to Understand the Molecular Mechanism of Plant-Pathogen Interaction

Proteomics: A Successful Approach to Understand the Molecular Mechanism of Plant-Pathogen Interaction

Microarray-based enzyme profiling: Recent advances and applications (Review)

Protein‐Detecting Microarrays: Current Accomplishments and Requirements

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