A new generation of protein display scaffolds for molecular recognition

Engineered antibodies and their fragments are invaluable tools for a vast range of biotechnological and pharmaceutical applications. However, they are facing increasing competition from a new generation of protein display scaffolds, specifically selected for binding virtually any target. Some of them have already entered clinical trials. Most of these nonimmunoglobulin proteins are involved in natural binding events and have amazingly diverse origins, frameworks, and functions, including even intrinsic enzyme activity. In many respects, they are superior over antibody-derived affinity molecules and offer an ever-extending arsenal of tools for, e.g., affinity purification, protein microarray technology, bioimaging, enzyme inhibition, and potential drug delivery. As excellent supporting frameworks for the presentation of polypeptide libraries, they can be subjected to powerful in vitro or in vivo selection and evolution strategies, enabling the isolation of high-affinity binding reagents. This article reviews the generation of these novel binding reagents, describing validated and advanced alternative scaffolds as well as the most recent nonimmunoglobulin libraries. Characteristics of these protein scaffolds in terms of structural stability, tolerance to multiple substitutions, ease of expression, and subsequent applications as specific targeting molecules are discussed. Furthermore, this review shows the close linkage between these novel protein tools and the constantly developing display, selection, and evolution strategies using phage display, ribosome display, mRNA display, cell surface display, or IVC (in vitro compartmentalization). Here, we predict the important role of these novel binding reagents as a toolkit for biotechnological and biomedical applications.     

Recent developments in yeast cell surface display toward extended applications in biotechnology

Yeasts are promising hosts for industrial bio-refinery applications. In yeast cell surface displays, functional proteins, such as cellulases or lipases, are genetically fused to an anchor protein and expressed on the cell surface. Saccharomyces cerevisiae is the most commonly used yeast for cell surface display. Engineered yeasts have been utilized for a variety of applications, such as bioethanol production, chemicals synthesis, adsorption of environmental pollutants, and protein evolution. Here, we summarize recent developments in yeast cell surface display techniques for bio-refinery applications, including methods using hosts such as Pichia pastoris, Yarrowia lipolytica, and S. cerevisiae, focusing on the characteristics of anchor proteins and applications.     

杆状病毒表面展示系统的研究进展

杆状病毒表面展示系统是近几年发展起来的一种新的真核展示系统 ,通过在病毒衣壳蛋白gp6 4插入外源肽、二者融合表达或与特异性的锚定部位结合 ,在病毒表面进行融合表达而筛选出目的活性肽或蛋白。可用来展示需糖基化、二硫键异构化等翻译后修饰才表现功能活性的复杂真核蛋白及构建多肽文库、抗体库等。本文简述了该技术的原理、研究进展、应用及发展前景等。可以预见 ,杆状病毒表面展示技术的发展必将对生命科学及相关领域的发展产生深远的影响     

Bilayer fibril formation by genetically engineered polypeptides: preparation and characterization

A de novo, genetically engineered 687 residue polypeptide expressed in E. coli has been found to form highly rectilinear, beta-sheet containing fibrillar structures. Tapping-mode atomic force microscopy, deep-UV Raman spectroscopy, and transmission electron microscopy definitively established the tendency of the fibrils to predominantly display an apparently planar bilayer or ribbon assemblage. The ordered self-assembly of designed, extremely repetitive, high molecular weight peptides is a harbinger of the utility of similar materials in nanoscience and engineering applications.     

Advantages of mRNA display selections over other selection techniques for investigation of protein–protein interactions

mRNA display is a genotype–phenotype conjugation method that allows for amplification-based, iterative rounds of in vitro selection to be applied to peptides and proteins. mRNA display can be used to display both long natural protein and short synthetic peptide libraries with unusually high diversities for the investigation of protein–protein interactions. Here, we summarize the advantages of mRNA display by comparing it with other widely used peptide or protein-selection techniques, and discuss various applications of this technique in studying protein–protein interactions.     

几种差别表达基因显示技术及其在植物方面的应用

９０年代以来,先后出现了ＤＤ,ＲＤＡ,ｃＤＮＡ－ＲＤＡ,ＳＡＧＥ,ＧＥＦ,ＲＦＤ,ＳＳＨ以及ＡＴＡＣ－ＰＣＲ等数种未知产物的差别表达基因显示技术,本文对这些技术的异同。各自的优缺点以及它们在植物方面的应用现状和前景作了简单综述。     

体内筛选技术在靶向治疗中的新进展

用噬菌体展示技术进行体内筛选可以更好地模拟靶抗原的天然环境 ,以筛选到与活体内某些器官或组织有特异结合活性的肽或抗体。近年来利用该技术在动物体内的研究已取得了可喜的进展。综述了体内筛选技术在器官和组织血管靶向载体的筛选、基因治疗及绘制人类血管分子图谱方面的应用 ,并对其今后的研究发展方向进行了阐述。     

单链抗体的研究进展

单链抗体即单链抗体可变区片段（single-chain antibody variable fragment,or ScFv）是由抗体重链可变区和轻链可变区通过一段10-25个氨基酸的连接肽连接而成,其分子质量小,穿透力强,特异性好,免疫原性低,在免疫学和医学方面得到了广泛应用。本文就单链抗体的结构设计、展示系统、表达和应用方面做一综述。     

Applications of three-dimensional display techniques in medical imaging

This paper outlines some of the current uses of three-dimensional techniques in medical imaging applications and their potential for the future. As an example, three-dimensional imaging is described using a CT scanner, as it applies to a case involving craniofacial surgery. This includes defining the relationship between the requirements on the data acquisition system, as well as the specification of the hardware and software for the display. A currently used algorithm is described for the display of surfaces as a function of local position, orientation of the surface and the position of a virtual light source. This includes the use of transparency and cut plane greyscale techniques, in addition to the display of the surfaces. A speculation is made regarding the use of a three-dimensional display as the standard viewing mode in CT, with slice and multiplanar imaging as submodes.     

生物大分子分离技术:过去、现状和未来

生物大分子包括多肽、酶、蛋白质、核酸(DNA和RNA)以及多糖等。生物大分子分离技术是生命科学研究中的关键技术之一。当前,各学科之间的交叉渗透为生物大分子分离技术的发展提供了更多的契机。对以沉淀、透析、超滤和溶剂萃取为代表的传统分离技术,以及色谱,电泳等现代分离技术的发展概况、原理、特点及应用进行了综述。并结合生命科学的发展现状,展望了生物大分子分离技术的发展前景。     

The outer membrane of yeast mitochondria: isolation of outside-out sealed vesicles

The yeast mitochondrial outer membrane was isolated and 10 of its major polypeptides were identified (mol. wts. 109, 70, 57, 45, 45, 42, 33, 29, 25 and 14 kd). The membrane has no major polypeptide in common with either mitochondrial inner membrane or rough microsomes. Protease treatment and immunochemical techniques showed that virtually all of the isolated outer membrane vesicles are sealed and display the same surface orientation as in the intact mitochondrion.     

Development of yeast molecular display systems focused on therapeutic proteins, enzymes, and foods: functional analysis of proteins and its application to bioconversion

Molecular display systems using yeast have been developed for industrial, medical, pharmaceutical, and biological studies. Although several host cells are available to construct a molecular display system, the yeast Saccharomyces cerevisiae is a well-established and convenient organism in eukaryotes. A wide variety of prokaryotic and eukaryotic proteins have been displayed on yeast cell surfaces. In addition, functional analyses and applications to bioconversion have been performed on the cell surface, and cells are conveniently engineered by molecular display systems. In this review, we focus on the yeast molecular display system with regard to therapeutic proteins, several enzymes, and food ingredients. In addition, recent patents on molecular display using yeast cell for production of those compounds, screening technology and related techniques are introduced. Development of devices for functional analysis of created and modified proteins in the yeast display system is also described.     

Immunohistochemical identification of Purkinje fibers and transitional cells in a terminal portion of the impulse-conducting system of porcine heart

Summary The ultrastructure of porcine ventricular tissue was studied by electron microscopy and immunocytochemical techniques. Electron-dense specific granules were found in both Purkinje fibers and transitional cells in the ventricular walls, and were positively stained by the immunogold staining method using an antiserum against atrial natriuretic polypeptide (ANP). This suggests that both the Purkinje fibers and transitional cells display the same specific granules as atrial cardiocytes containing ANP. These results demonstrate that Purkinje fibers and two types of transitional cells, in addition to the ordinary ventricular cardiocytes, can be identified in porcine ventricular wall tissue.     

Engineering M13 for phage display

Phage display is achieved by fusing polypeptide libraries to phage coat proteins. The resulting phage particles display the polypeptides on their surfaces and they also contain the encoding DNA. Library members with particular functions can be isolated with simple selections and polypeptide sequences can be decoded from the encapsulated DNA. The technology's success depends on the efficiency with which polypeptides can be displayed on the phage surface, and significant progress has been made in engineering M13 bacteriophage coat proteins as improved phage display platforms. Functional display has been achieved with all five M13 coat proteins, with both N- and C-terminal fusions. Also, coat protein mutants have been designed and selected to improve the efficiency of heterologous protein display, and in the extreme case, completely artificial coat proteins have been evolved specifically as display platforms. These studies demonstrate that the M13 phage coat is extremely malleable, and this property can be used to engineer the phage particle specifically for phage display. These improvements expand the utility of phage display as a powerful tool in modern biotechnology.     

An exercise on the determination of the primary structure of proteins

An exercise is described which illustrates how a simple laboratory investigation may be complemented with suitable related logical and numerical problems to increase its educational scope. The exercise extends the students' analysis of an unknown dipeptide to the larger problem of the primary structure of a polypeptide. As far as possible it reiterates techniques already used in the laboratory and involves photographs and facsimilies of actual data mounted on large display cards. Thus it is an integral part of the laboratory work, rather than being a mere appendix to it.     

Identification of immunogenic polypeptides from a <Emphasis Type="Italic">Mycoplasma hyopneumoniae</Emphasis> genome library by phage display

The identification of immunogenic polypeptides of pathogens is helpful for the development of diagnostic assays and therapeutic applications like vaccines. Routinely, these proteins are identified by two-dimensional polyacrylamide gel electrophoresis and Western blot using convalescent serum, followed by mass spectrometry. This technology, however, is limited, because low or differentially expressed proteins, e.g. dependent on pathogen-host interaction, cannot be identified. In this work, we developed and improved a M13 genomic phage display-based method for the selection of immunogenic polypeptides of Mycoplasma hyopneumoniae, a pathogen causing porcine enzootic pneumonia. The fragmented genome of M. hyopneumoniae was cloned into a phage display vector, and the genomic library was packaged using the helperphage Hyperphage to enrich open reading frames (ORFs). Afterwards, the phage display library was screened by panning using convalescent serum. The analysis of individual phage clones resulted in the identification of five genes encoding immunogenic proteins, only two of which had been previously identified and described as immunogenic. This M13 genomic phage display, directly combining ORF enrichment and the presentation of the corresponding polypeptide on the phage surface, complements proteome-based methods for the identification of immunogenic polypeptides and is particularly well suited for the use in mycoplasma species.     

Assembly and characterisation of a multi-component cytoskeletal gel from adrenal medulla

Incubation of bovine adrenal medullary cytoplasmic extracts results in the formation of three-dimensional supramolecular gels. Ultrastructurally, the gels display a network of fibres similar in appearance to the cytoskeleton within intact chromaffin cells. Analysis of the protein composition using both electrophoretic and immunoblotting techniques indicates that the gels are composed exclusively of cytoskeletal elements; microfilaments, microtubules and intermediate filament proteins have been identified as having a number of actin-associated proteins. Among the latter class of components the following polypeptides have been identified: filamin (300 kDa), fodrin (240 kDa), a 235 kDa polypeptide, myosin (200 kDa), caldesmon (70 kDa) and tropomyosins (39 kDa). All of these polypeptides co-sedimented with F-actin when gels were assembled in the absence of Ca2+. When gelation was performed in the presence of 10 microM Ca2+ actin, the 235 kDa polypeptide, 70 kDa caldesmon and tropomyosin were all absent from the gels. These results may suggest that the 235 kDa polypeptide, 70 kDa caldesmon and tropomyosins could act either individually or as a functional regulatory unit in controlling the Ca2+-activated reorganisation of the actin network in the cytoplasmic gels.     

Interactive map projection algorithm for illustrating protein surfaces

An interactive map projection algorithm and cluster analysis program are described which can be used in the display and analysis of protein surfaces. The application of the techniques to the analysis of protein charge distributions is described, and a brief discussion presented on various other applications.     

文库筛选与分子进化的核糖体展示新方法

利用适当的文库筛选技术快速、简便地从DNA文库、随机肽库、抗体库或其它蛋白文库中筛选生物活性物质是目前分子生物学研究的一个热点.核糖体展示是一种完全离体进行的功能蛋白筛选和进化鉴定的新技术,避免了传统的活体筛选技术的缺陷,使得文库容量增大、分子多样性加强.本文系统地评述了核糖体展示技术在制备ScFv单链抗体方面的应用,包括ScFv单链抗体模板的构建、体外转录与体外翻译、亲和筛选及筛选效率的测定以及分子多样性和体外进化研究,讨论了核糖体展示技术目前的发展动态、存在问题及发展趋势.