title: Applications of High-Throughput Sequencing for In Vitro Selection and Characterization of Aptamers.
abstract: Aptamers are identified through an iterative process of evolutionary selection starting from a random pool containing billions of sequences. Simultaneously to the amplification of high-affinity candidates, the diversity in the pool is exponentially reduced after several rounds of in vitro selection. Until now, cloning and Sanger sequencing of about 100 sequences was usually used to identify the enriched candidates. However, High-Throughput Sequencing (HTS) is now extensively used to replace such low throughput sequencing approaches. Providing a deeper analysis of the library, HTS is expected to accelerate the identification of aptamers as well as to identify aptamers with higher affinity. It is also expected that it can provide important information on the binding site of the aptamers. Nevertheless, HTS requires handling a large amount of data that is only possible through the development of new in silico methods. Here, this review presents these different strategies that have been recently developed to improve the identification and characterization of aptamers using HTS.
authors.affiliation: CEA, DSV, I²BM, Molecular Imaging Research Center (MIRCen), 18 route du panorama, 92260 Fontenay-aux-Roses, France. nam.nguyenquang@cea.fr.|Neurodegenerative Diseases Laboratory, Centre National de la Recherche Scientifique (CNRS), Université Paris-Saclay, Université Paris-Sud, UMR 9199, 92260 Fontenay-aux-Roses, France. nam.nguyenquang@cea.fr.
authors.forename: Nam
authors.initials: N
authors.lastname: Nguyen Quang
authors.affiliation: LFB Biotechnologies, 3 avenue des Tropiques, 91958 Courtaboeuf CEDEX, France. perretg@lfb.fr.
authors.forename: Gérald
authors.initials: G
authors.lastname: Perret
authors.affiliation: CEA, DSV, I²BM, Molecular Imaging Research Center (MIRCen), 18 route du panorama, 92260 Fontenay-aux-Roses, France. frederic.duconge@cea.fr.|Neurodegenerative Diseases Laboratory, Centre National de la Recherche Scientifique (CNRS), Université Paris-Saclay, Université Paris-Sud, UMR 9199, 92260 Fontenay-aux-Roses, France. frederic.duconge@cea.fr.
authors.forename: Frédéric
authors.initials: F
authors.lastname: Ducongé
keywords: SELEX; aptamers; evolution; fitness landscape; high-throughput sequencing