SELMA: Selection with Modified Aptamers

Current Protocols in Chemical Biology
J Sebastian Temme, Isaac J Krauss

Abstract

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.

References

Jun 26, 2003·Nucleic Acids Research·Michael Zuker
Mar 3, 2005·Journal of the American Chemical Society·Justin K IchidaJack W Szostak
Aug 25, 2007·Chemical Reviews·Michael FamulokGünter Mayer
Sep 18, 2007·Chemistry : a European Journal·Johannes GierlichThomas Carell
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Feb 12, 2010·Cold Spring Harbor Protocols·Arun Apte, Saurabha Daniel
Dec 23, 2011·Angewandte Chemie·Iain S MacPhersonIsaac J Krauss
Nov 15, 2013·Chemistry : a European Journal·J Sebastian TemmeIsaac J Krauss
Jan 23, 2014·Journal of the American Chemical Society·J Sebastian TemmeIsaac J Krauss
Jan 28, 2014·Current Opinion in Chemical Biology·Lai-Xi Wang

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Citations

Feb 9, 2016·Journal of the American Chemical Society·Cong ZhouScott K Silverman
Feb 2, 2017·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Prabodhika Mallikaratchy
Feb 22, 2017·Chemical Communications : Chem Comm·I S MacPhersonI J Krauss
Feb 7, 2018·International Journal of Molecular Sciences·Maria A VorobyevaAlya G Venyaminova
May 24, 2018·Journal of Molecular Endocrinology·Pierre PoinsotFrançois Leulier
Oct 14, 2016·Journal of the Royal Society, Interface·Teresa K YamanaJeffrey Shaman
Oct 18, 2020·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Steven Ochoa, Valeria T Milam
Jun 8, 2021·Journal of the American Chemical Society·Richard L Redman, Isaac J Krauss
Feb 29, 2020·ACS Chemical Biology·Dung N NguyenIsaac J Krauss

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