title: Phage display biopanning and isolation of target-unrelated peptides: in search of nonspecific binders hidden in a combinatorial library.
abstract: Phage display is known as a powerful methodology for the identification of targeting ligands that specifically bind to a variety of targets. The high-throughput screening of phage display combinatorial peptide libraries is performed through the affinity selection method of biopanning. Although phage display selection has proven very successful in the discovery of numerous high-affinity target-binding peptides with potential application in drug discovery and delivery, the enrichment of false-positive target-unrelated peptides (TUPs) without any actual affinity towards the target remains a major problem of library screening. Selection-related TUPs may emerge because of binding to the components of the screening system rather than the target. Propagation-related TUPs may arise as a result of faster growth rate of some phage clones enabling them to outcompete slow-propagating clones. Amplification of the library between rounds of biopanning makes a significant contribution to the selection of phage clones with propagation advantage. Distinguishing nonspecific TUPs from true target binders is of particular importance for the translation of biopanning findings from basic research to clinical applications. Different experimental and in silico approaches are applied to assess the specificity of phage display-derived peptides towards the target. Bioinformatic tools are playing a rapidly growing role in the analysis of biopanning data and identification of target-irrelevant TUPs. Recent progress in the introduction of efficient strategies for TUP detection holds enormous promise for the discovery of clinically relevant cell- and tissue-homing peptides and paves the way for the development of novel targeted diagnostic and therapeutic platforms in pharmaceutical areas.
authors.affiliation: Department of Genetics, Faculty of Biological Sciences, Tarbiat Modares University, P.O. Box: 14115-154, Tehran, Iran. Babak.bakhshinejad@modares.ac.ir.
authors.forename: Babak
authors.initials: B
authors.lastname: Bakhshinejad
authors.affiliation: Department of Genetics, Faculty of Basic Sciences, Science and Research Branch, Islamic Azad University, Tehran, Iran.
authors.forename: Hesam Motaleb
authors.initials: HM
authors.lastname: Zade
authors.affiliation: Department of Genetics, Faculty of Basic Sciences, Science and Research Branch, Islamic Azad University, Tehran, Iran.
authors.forename: Hosna Sadat Zahed
authors.initials: HS
authors.lastname: Shekarabi
authors.affiliation: Department of Genetics, Faculty of Basic Sciences, Science and Research Branch, Islamic Azad University, Zanjan, Iran.
authors.forename: Sara
authors.initials: S
authors.lastname: Neman
mesh_terms: D003198:Computer Simulation; D055808:Drug Discovery; D057166:High-Throughput Screening Assays; D006801:Humans; D008024:Ligands; D019151:Peptide Library; D010455:Peptides / Q000737:chemistry*; D011485:Protein Binding
chemical_list: D008024:Ligands; D019151:Peptide Library; D010455:Peptides
keywords: Bioinformatics; Biopanning; Peptide library; Phage display; Target-unrelated peptide