Manipulating DNA probe presentation via enzymatic cleavage of diluent strands

Biomacromolecules
Christopher K Tison, Valeria T Milam

Abstract

We previously reported a system for the controlled redispersion of DNA-linked aggregates using secondary, competitive hybridization events and found that complete redispersion is contingent upon dilution of the active 20 base-long probe strands with 20 base-long nonhybridizing strands. Here, to reduce the steric interference of nonhybridizing or diluent strands on probe activity, we investigate the effect of shorter diluent strands on the hybridization activity of immobilized probes using the following two approaches: (1) simultaneously coupling shorter diluent strands and longer probe strands to microspheres and (2) simultaneously coupling diluent and probe strands of the same base length to microspheres and then clipping diluent strands with the restriction endonuclease AluI. Results indicate that one can reduce the duplex density down by 50-70% of its initial value, depending on the location of the recognition motif along the hybridization segment. In addition, tighter control over the number of probe-target duplexes is achieved with the enzyme-based approach.

References

Nov 17, 1992·Biochemistry·S M DuN C Seeman
Jan 29, 2002·Nucleic Acids Research·A W PetersonR M Georgiadis
Jun 20, 2002·Journal of the American Chemical Society·Sheila R Nicewarner PeñaChristine D Keating
Jun 27, 2002·Journal of the American Chemical Society·C Steven YunGeoffrey F Strouse
Dec 6, 2002·Journal of the American Chemical Society·Alexander W PetersonRosina M Georgiadis
Feb 6, 2003·Journal of the American Chemical Society·Rongchao JinGeorge C Schatz
Jun 26, 2003·Nucleic Acids Research·Michael Zuker
Oct 16, 2004·Angewandte Chemie·Nathaniel L RosiChad A Mirkin
Mar 11, 2005·Proceedings of the National Academy of Sciences of the United States of America·Marie-Pierre ValignatPaul M Chaikin
Jun 1, 2005·Langmuir : the ACS Journal of Surfaces and Colloids·Phillip H RogersPeter V Schwartz
Nov 16, 2005·Langmuir : the ACS Journal of Surfaces and Colloids·Wei Jie Qin, Lin Yue Lanry Yung
Jan 13, 2006·Nano Letters·Lisa M DillenbackChristine D Keating
Feb 24, 2006·Langmuir : the ACS Journal of Surfaces and Colloids·Anthony J KimJohn C Crocker
Mar 15, 2006·Biophysical Journal·Ying ZhangDaniel A Hammer
May 20, 2006·Science·Nathaniel L RosiChad A Mirkin
Jun 28, 2006·The Journal of Physical Chemistry. B·Sung Yong ParkGeorge C Schatz
Oct 26, 2006·Journal of the American Chemical Society·Mathew M MayeOleg Gang
Nov 14, 2006·Biomacromolecules·Wei Jie Qin, Lin Yue Lanry Yung
Feb 21, 2007·Langmuir : the ACS Journal of Surfaces and Colloids·Paul L BiancanielloValeria T Milam
Feb 23, 2007·Small·Antonios G KanarasAndrew D Bates
Apr 24, 2007·Langmuir : the ACS Journal of Surfaces and Colloids·Dmytro NykypanchukOleg Gang
Aug 19, 2007·Langmuir : the ACS Journal of Surfaces and Colloids·Christopher K Tison, Valeria T Milam
Sep 13, 2007·Small·Mathew M MayeOleg Gang
Oct 13, 2007·Langmuir : the ACS Journal of Surfaces and Colloids·Dominic C Chow, Ashutosh Chilkoti
Nov 14, 2007·The Journal of Physical Chemistry. a·Paul A Beales, T Kyle Vanderlick
Dec 8, 2007·Bioconjugate Chemistry·Wei Jie Qin, Lin Yue Lanry Yung
Feb 1, 2008·Nature·Dmytro NykypanchukOleg Gang
Feb 1, 2008·Nature·Sung Yong ParkChad A Mirkin
May 23, 2007·Soft Matter·Tatiana SchmatkoWilson C K Poon

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Citations

Sep 4, 2012·Journal of the American Chemical Society·Hao TangC Grant Willson
Sep 8, 2011·Proceedings of the National Academy of Sciences of the United States of America·W Benjamin Rogers, John C Crocker
Apr 9, 2013·Langmuir : the ACS Journal of Surfaces and Colloids·James O HardinValeria T Milam
Nov 6, 2012·Colloids and Surfaces. B, Biointerfaces·Bryan A BakerValeria T Milam
Mar 31, 2010·Langmuir : the ACS Journal of Surfaces and Colloids·Bryan A Baker, Valeria T Milam

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