Open AccessSELMA: Selection with Modified Aptamers
Author(s) -
Temme J. Sebastian,
Krauss Isaac J.
Publication year - 2015
Publication title -
current protocols in chemical biology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.503
H-Index - 14
ISSN - 2160-4762
DOI - 10.1002/9780470559277.ch140233
Subject(s) - aptamer , systematic evolution of ligands by exponential enrichment , glycan , computational biology , nucleic acid , chemistry , dna , selection (genetic algorithm) , selex aptamer technique , biology , biochemistry , rna , computer science , microbiology and biotechnology , gene , glycoprotein , artificial intelligence
In vitro selection of nucleic acid aptamers, coined SELEX, has led to the discovery of novel therapeutics and aided in the structural and mechanistic understanding of many ligand‐biomolecule interactions. A related method, selection with modified aptamers (SELMA), enables selection of DNA aptamers containing bases with a large modification that cannot undergo PCR. A key application of this method is the evolution of aptamers containing carbohydrate modifications. Carbohydrate‐binding proteins normally require several copies of the carbohydrate moiety for strong recognition. Whereas it may be difficult to rationally design synthetic scaffolds that cluster glycans in the optimal spacing and orientation for target recognition, SELMA furnishes glycoaptamers with highly optimized glycan clustering, achieving low‐nanomolar recognition. Although numerous applications can be envisioned, the protocols and discussions in this article describe procedures involved in applying SELMA to the discovery glycoDNAs that bind to the HIV broadly neutralizing antibody 2G12. © 2015 by John Wiley & Sons, Inc.