Product Code Database
Phage display is a laboratory technique for the study of protein interactions that uses (viruses that infect bacteria) to produce and "display" the proteins on their surfaces. Since the proteins remain attached to the surface of the phage, it is possible to isolate the phages displaying desirable proteins from among very large collections (libraries) of phages, using e.g. other protein or DNA molecules as baits. The DNA of the selected phages can then be Sequencing to establish the identity of selected proteins. The phages themselves can be further propagated in bacteria to amplify or diversify the selected protein library, with potential for conducting directed evolution experiments with multiple rounds of selection and diversification.
Specifically, a gene encoding a protein of interest is inserted into a phage coat protein gene, causing the phage to "display" the protein on its outside while containing the gene for the protein on its inside. This couples the genotype (gene), phenotype (protein) in the context of an organism (phage) capable of replication. The phages displaying proteins of interest can then be selected using other proteins or DNA sequences in order to e.g., identify natural protein binding partners or antibodies with a high binding affinity.
The most common bacteriophages used in phage display are M13 and fd filamentous phage, though T4, T7, and Lambda phage phage have also been used.
In 1988, Stephen Parmley and George Smith described biopanning for affinity selection and demonstrated that recursive rounds of selection could enrich for clones present at 1 in a billion or less. In 1990, Jamie Scott and George Smith described creation of large random peptide libraries displayed on filamentous phage.
Phage display technology was further developed and improved by groups at the Laboratory of Molecular Biology with Greg Winter and John McCafferty, The Scripps Research Institute with Richard Lerner and Carlos Barbas and the German Cancer Research Center with Frank Breitling and Stefan Dübel for display of proteins such as antibodies for therapeutic protein engineering.
Smith and Winter were awarded a half share of the 2018 Nobel Prize in chemistry for their contribution to developing phage display. A patent by George Pieczenik claiming priority from 1985 also describes the generation of peptide libraries.
The phages can then be selected using e.g. DNA or protein molecules immobilized on the surface of a microtiter plate. Specifically, phages that display proteins that binds to those targets will remain attached, while others will be removed by washing. Those that remain can be elution and amplified by infection. The repeated cycling of selection, elution and amplification is sometimes referred to as Biopanning, in reference to the enrichment of a sample of gold by removing undesirable materials. Phage eluted in the final step can be DNA sequencing to identify the selected proteins.
During amplification step, additional mutations may be introduced into the genes encoding the proteins of interest, enabling a directed evolution protocol.
Elution can be done combining low-pH elution buffering agent with sonification, which, in addition to loosening the peptide-target interaction, also serves to detach the target molecule from the immobilization surface. This ultrasound-based method enables single-step selection of a high-affinity peptide.
The DNA encoding a fusion of coat protein and protein of interest is often encoded on a phagemid - a plasmid containing both a bacterial origin of replication and phage attachment sequence. This allows it to be maintained and amplified in bacteria without producing phage virons. When bacterial colony reaches a desired size, a helper plasmid is transformed into the bacteria to supply them with the rest of the phage genome, enabling viron production. Alternatively, these phage genes can maintained within bacteria under inducible promoters, obviating the need for separate helper plasmid introduction.
Competing methods for in vitro protein evolution include yeast display, bacterial display, ribosome display, and mRNA display.
Phage display of antibody libraries has become a powerful method for both studying the immune response as well as a method to rapidly select and evolve human antibodies for therapy. Antibody phage display was later used by Carlos F. Barbas at The Scripps Research Institute to create synthetic human antibody libraries, a principle first patented in 1990 by Breitling and coworkers (Patent CA 2035384), thereby allowing human antibodies to be created in vitro from synthetic diversity elements.
Antibody libraries displaying millions of different antibodies on phage are often used in the pharmaceutical industry to isolate highly specific therapeutic antibody leads, for development into antibody drugs primarily as anti-cancer or anti-inflammatory therapeutics. One of the most successful was adalimumab, discovered by Cambridge Antibody Technology as D2E7 and developed and marketed by Abbott Laboratories. Adalimumab, an antibody to TNF alpha, was the world's first fully human antibody to achieve annual sales exceeding $1bn. Cambridge Antibody: Sales update | Company Announcements | Telegraph
An advantage of using pIII rather than pVIII is that pIII allows for monovalent display when using a phagemid (plasmid derived from Ff phages) combined with a helper phage. Moreover, pIII allows for the insertion of larger protein sequences (>100 amino acids) and is more tolerant to it than pVIII. However, using pIII as the fusion partner can lead to a decrease in phage infectivity leading to problems such as selection bias caused by difference in phage growth rate or even worse, the phage's inability to infect its host. Loss of phage infectivity can be avoided by using a phagemid plasmid and a helper phage so that the resultant phage contains both wild type and fusion pIII.
cDNA has also been analyzed using pIII via a two complementary leucine zippers system, Direct Interaction Rescue or by adding an 8-10 amino acid linker between the cDNA and pIII at the C-terminus.
To overcome the size problem of pVIII, artificial coat proteins have been designed. An example is Weiss and Sidhu's inverted artificial coat protein (ACP) which allows the display of large proteins at the C-terminus. The ACP's could display a protein of 20kDa, however, only at low levels (mostly only monovalently).
While pVI has been useful for the analysis of cDNA libraries, pIII and pVIII remain the most utilized coat proteins for phage display.
PelB (an amino acid signal sequence that targets the protein to the periplasm where a signal peptidase then cleaves off PelB) improved the phage display level when compared to pVII and pIX fusions without the signal sequence. However, this led to the incorporation of more helper phage genomes rather than phagemid genomes. In all cases, phage display levels were lower than using pIII fusion. However, lower display might be more favorable for the selection of binders due to lower display being closer to true monovalent display. In five out of six occasions, pVII and pIX fusions without pelB was more efficient than pIII fusions in affinity selection assays. The paper even goes on to state that pVII and pIX display platforms may outperform pIII in the long run.
The use of pVII and pIX instead of pIII might also be an advantage because virion rescue may be undertaken without breaking the virion-antigen bond if the pIII used is wild type. Instead, one could cleave in a section between the bead and the antigen to elute. Since the pIII is intact it does not matter whether the antigen remains bound to the phage.
The disadvantage of using T7 is that the size of the protein that can be expressed on the surface is limited to shorter peptides because large changes to the T7 genome cannot be accommodated like it is in M13 where the phage just makes its coat longer to fit the larger genome within it. However, it can be useful for the production of a large protein library for scFV selection where the scFV is expressed on an M13 phage and the antigens are expressed on the surface of the T7 phage.
|
|
