One-Step Ligand-Exchange Method to Produce Quantum Dot–DNA Conjugates for DNA-Directed Self-Assembly

Rahmani, Paniz; Goodlad, Melissa; Zhang, Yehan; Li, Yichen; Ye, Tao

doi:10.1021/acsami.2c10580

Title: One-Step Ligand-Exchange Method to Produce Quantum Dot–DNA Conjugates for DNA-Directed Self-Assembly

Journal Article · Tue Oct 11 00:00:00 EDT 2022 · ACS Applied Materials and Interfaces

DOI:https://doi.org/10.1021/acsami.2c10580· OSTI ID:1991399

Rahmani, Paniz ^[1]; Goodlad, Melissa ^[1]; Zhang, Yehan ^[1]; Li, Yichen ^[1];

^[1]

University of California, Merced, CA (United States)

To address the current challenges in making bright, stable, and small DNA-functionalized quantum dots (QDs), we have developed a one-step ligand-exchange method to produce QD–DNA conjugates from commonly available hydrophobic QDs. We show that by systematically adjusting the reaction conditions such as ligand-to-nanoparticle molar ratio, pH, and solvent composition, stable and highly photoluminescent water-soluble QD–DNA conjugates with relatively high ligand loadings can be produced. Moreover, by site specifically binding these QD–DNA conjugates to a DNA origami template, we demonstrate that these bioconjugates have sufficient colloidal stability for DNA-directed self-assembly. Fluorescence quenching by an adjacent gold nanoparticle (AuNP) was demonstrated. Such QD–AuNP dimers may serve as biosensors with improved sensitivity and reproducibility. Furthermore, our simple method can facilitate the assembly of QDs into more complex superlattices and discrete clusters that may enable novel photophysical properties.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: University of California, Merced, CA (United States)

Sponsoring Organization:: USDOE

Grant/Contract Number:: SC0020961

OSTI ID:: 1991399

Journal Information:: ACS Applied Materials and Interfaces, Vol. 14, Issue 42; ISSN 1944-8244

Publisher:: American Chemical Society (ACS)Copyright Statement

Country of Publication:: United States

Language:: English

References (63)

Superfluorescence from lead halide perovskite quantum dot superlattices Rainò, Gabriele; Becker, Michael A.; Bodnarchuk, Maryna I. Nature, Vol. 563, Issue 7733 https://doi.org/10.1038/s41586-018-0683-0	journal	November 2018
Use of Semiconductor Nanocrystals for Spectrally Encoded High-Density Optical Data Storage Chon, James W.; Moser, Judith; Gu, Min International Symposium on Optical Memory and Optical Data Storage https://doi.org/10.1364/ISOM_ODS.2005.MP13	conference	January 2005
Charge-extraction strategies for colloidal quantum dot photovoltaics Lan, Xinzheng; Masala, Silvia; Sargent, Edward H. Nature Materials, Vol. 13, Issue 3 https://doi.org/10.1038/nmat3816	journal	February 2014
Quantum dot-DNA origami binding: a single particle, 3D, real-time tracking study Du, Kan; Ko, Seung Hyeon; Gallatin, Gregg M. Chem. Commun., Vol. 49, Issue 9 https://doi.org/10.1039/c2cc37517f	journal	January 2013
Models of optical quantum computing Krovi, Hari Nanophotonics, Vol. 6, Issue 3 https://doi.org/10.1515/nanoph-2016-0136	journal	March 2017
Programmable Periodicity of Quantum Dot Arrays with DNA Origami Nanotubes Bui, Hieu; Onodera, Craig; Kidwell, Carson Nano Letters, Vol. 10, Issue 9 https://doi.org/10.1021/nl101079u	journal	September 2010
DNA-Mediated Patterning of Single Quantum Dot Nanoarrays: A Reusable Platform for Single-Molecule Control Huang, Da; Freeley, Mark; Palma, Matteo Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/srep45591	journal	March 2017
Quantum Dot Encapsulation Using a Peptide-Modified Tetrahedral DNA Cage Mathur, Divita; Samanta, Anirban; Oh, Eunkeu Chemistry of Materials, Vol. 29, Issue 14 https://doi.org/10.1021/acs.chemmater.7b00108	journal	July 2017
Quantum Dot-Based Nanotools for Bioimaging, Diagnostics, and Drug Delivery Bilan, Regina; Nabiev, Igor; Sukhanova, Alyona ChemBioChem, Vol. 17, Issue 22 https://doi.org/10.1002/cbic.201600357	journal	September 2016
Quantum dot bioconjugates for imaging, labelling and sensing Medintz, Igor L.; Uyeda, H. Tetsuo; Goldman, Ellen R. Nature Materials, Vol. 4, Issue 6, p. 435-446 https://doi.org/10.1038/nmat1390	journal	June 2005
Microfluidic synthesis of quantum dots and their applications in bio-sensing and bio-imaging Cheng, Yu; Ling, Si Da; Geng, Yuhao Nanoscale Advances, Vol. 3, Issue 8 https://doi.org/10.1039/d0na00933d	journal	January 2021
Synthesis and Characterization of Strongly Luminescing ZnS-Capped CdSe Nanocrystals Hines, Margaret A.; Guyot-Sionnest, Philippe The Journal of Physical Chemistry, Vol. 100, Issue 2, p. 468-471 https://doi.org/10.1021/jp9530562	journal	January 1996
Mechanistic Study of Precursor Evolution in Colloidal Group II−VI Semiconductor Nanocrystal Synthesis Liu, Haitao; Owen, Jonathan S.; Alivisatos, A. Paul Journal of the American Chemical Society, Vol. 129, Issue 2 https://doi.org/10.1021/ja0656696	journal	January 2007
Colloidal nanocrystal synthesis and the organic–inorganic interface Yin, Yadong; Alivisatos, A. Paul Nature, Vol. 437, Issue 7059, p. 664-670 https://doi.org/10.1038/nature04165	journal	September 2005
Synthesis and characterization of nearly monodisperse CdE (E = sulfur, selenium, tellurium) semiconductor nanocrystallites Murray, C. B.; Norris, D. J.; Bawendi, M. G. Journal of the American Chemical Society, Vol. 115, Issue 19, p. 8706-8715 https://doi.org/10.1021/ja00072a025	journal	September 1993
The Preparation of Colloidally Stable, Water-Soluble, Biocompatible, Semiconductor Nanocrystals with a Small Hydrodynamic Diameter Lees, Emma E.; Nguyen, Tich-Lam; Clayton, Andrew H. A. ACS Nano, Vol. 3, Issue 5 https://doi.org/10.1021/nn900144n	journal	April 2009
Synthesis of Compact Multidentate Ligands to Prepare Stable Hydrophilic Quantum Dot Fluorophores Uyeda, H. Tetsuo; Medintz, Igor L.; Jaiswal, Jyoti K. Journal of the American Chemical Society, Vol. 127, Issue 11 https://doi.org/10.1021/ja044031w	journal	March 2005
Design of an Amphiphilic Polymer for Nanoparticle Coating and Functionalization Lin, Cheng-An J.; Sperling, Ralph A.; Li, Jimmy K. Small, Vol. 4, Issue 3 https://doi.org/10.1002/smll.200700654	journal	March 2008
Förster Resonance Energy Transfer Investigations Using Quantum-Dot Fluorophores Clapp, Aaron R.; Medintz, Igor L.; Mattoussi, Hedi ChemPhysChem, Vol. 7, Issue 1 https://doi.org/10.1002/cphc.200500217	journal	January 2006
Fluorescence Resonance Energy Transfer Between Quantum Dot Donors and Dye-Labeled Protein Acceptors Clapp, Aaron R.; Medintz, Igor L.; Mauro, J. Matthew Journal of the American Chemical Society, Vol. 126, Issue 1 https://doi.org/10.1021/ja037088b	journal	January 2004
Programmed Assembly of DNA Functionalized Quantum Dots Mitchell, Gregory P.; Mirkin, Chad A.; Letsinger, Robert L. Journal of the American Chemical Society, Vol. 121, Issue 35 https://doi.org/10.1021/ja991662v	journal	September 1999
DNA-Conjugated Quantum Dot Nanoprobe for High-Sensitivity Fluorescent Detection of DNA and micro-RNA Su, Shao; Fan, Jinwei; Xue, Bing ACS Applied Materials & Interfaces, Vol. 6, Issue 2 https://doi.org/10.1021/am404811j	journal	December 2013
Poly(ethylene glycol) Carbodiimide Coupling Reagents for the Biological and Chemical Functionalization of Water-Soluble Nanoparticles Shen, Hongyan; Jawaid, Ali M.; Snee, Preston T. ACS Nano, Vol. 3, Issue 4 https://doi.org/10.1021/nn800870r	journal	March 2009
Photoswitchable semiconductor nanocrystals with self-regulating photochromic Förster resonance energy transfer acceptors Díaz, Sebastián A.; Gillanders, Florencia; Jares-Erijman, Elizabeth A. Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms7036	journal	January 2015
Functionalizing Nanoparticles with Biological Molecules: Developing Chemistries that Facilitate Nanotechnology Sapsford, Kim E.; Algar, W. Russ; Berti, Lorenzo Chemical Reviews, Vol. 113, Issue 3 https://doi.org/10.1021/cr300143v	journal	February 2013
Aqueous synthesis of glutathione capped ZnSe nanocrystals: synthesis and optical properties Ding, Y. L.; Bi, J. X.; Du, B. Materials Research Innovations, Vol. 17, Issue 3 https://doi.org/10.1179/1433075x12y.0000000040	journal	April 2013
Direct Attachment of Oligonucleotides to Quantum Dot Interfaces Han, Hyunjoo; Zylstra, Joshua; Maye, Mathew M. Chemistry of Materials, Vol. 23, Issue 22 https://doi.org/10.1021/cm2021593	journal	October 2011
Direct and Efficient Conjugation of Quantum Dots to DNA Nanostructures with Peptide-PNA Green, Christopher M.; Hastman, David A.; Mathur, Divita ACS Nano, Vol. 15, Issue 5 https://doi.org/10.1021/acsnano.1c02296	journal	May 2021
Nanoparticle Superlattice Engineering with DNA Macfarlane, R. J.; Lee, B.; Jones, M. R. Science, Vol. 334, Issue 6053, p. 204-208 https://doi.org/10.1126/science.1210493	journal	October 2011
Valence-Engineering of Quantum Dots Using Programmable DNA Scaffolds Shen, Jianlei; Tang, Qian; Li, Li Angewandte Chemie International Edition, Vol. 56, Issue 50 https://doi.org/10.1002/anie.201710309	journal	November 2017
Formation of targeted monovalent quantum dots by steric exclusion Farlow, Justin; Seo, Daeha; Broaders, Kyle E. Nature Methods, Vol. 10, Issue 12 https://doi.org/10.1038/nmeth.2682	journal	October 2013
Fluorescence Quenching of Quantum Dots by Gold Nanoparticles: A Potential Long Range Spectroscopic Ruler Samanta, Anirban; Zhou, Yadong; Zou, Shengli Nano Letters, Vol. 14, Issue 9 https://doi.org/10.1021/nl501709s	journal	August 2014
DNA-Based Assembly of Quantum Dots into Dimers and Helices Zhang, Tao; Liedl, Tim Nanomaterials, Vol. 9, Issue 3 https://doi.org/10.3390/nano9030339	journal	March 2019
Robust DNA-Functionalized Core/Shell Quantum Dots with Fluorescent Emission Spanning from UV–vis to Near-IR and Compatible with DNA-Directed Self-Assembly Deng, Zhengtao; Samanta, Anirban; Nangreave, Jeanette Journal of the American Chemical Society, Vol. 134, Issue 42 https://doi.org/10.1021/ja3081023	journal	October 2012
Infrared emitting quantum dots: DNA conjugation and DNA origami directed self-assembly Samanta, Anirban; Deng, Zhengtao; Liu, Yan Nanoscale, Vol. 6, Issue 9 https://doi.org/10.1039/c3nr06578b	journal	January 2014
DNA-based programming of quantum dot valency, self-assembly and luminescence Tikhomirov, Grigory; Hoogland, Sjoerd; Lee, P. E. Nature Nanotechnology, Vol. 6, Issue 8 https://doi.org/10.1038/nnano.2011.100	journal	July 2011
Two-Dimensional Nanoparticle Arrays Show the Organizational Power of Robust DNA Motifs Zheng, Jiwen; Constantinou, Pamela E.; Micheel, Christine Nano Letters, Vol. 6, Issue 7 https://doi.org/10.1021/nl060994c	journal	July 2006
DNA-based self-assembly of chiral plasmonic nanostructures with tailored optical response Kuzyk, Anton; Schreiber, Robert; Fan, Zhiyuan Nature, Vol. 483, Issue 7389 https://doi.org/10.1038/nature10889	journal	March 2012
DNA brick crystals with prescribed depths Ke, Yonggang; Ong, Luvena L.; Sun, Wei Nature Chemistry, Vol. 6, Issue 11 https://doi.org/10.1038/nchem.2083	journal	October 2014
Control of Self-Assembly of DNA Tubules Through Integration of Gold Nanoparticles Sharma, J.; Chhabra, R.; Cheng, A. Science, Vol. 323, Issue 5910 https://doi.org/10.1126/science.1165831	journal	January 2009
Using Self-Assembly To Control the Structure of DNA Monolayers on Gold: A Neutron Reflectivity Study Levicky, Rastislav; Herne, Tonya M.; Tarlov, Michael J. Journal of the American Chemical Society, Vol. 120, Issue 38 https://doi.org/10.1021/ja981897r	journal	September 1998
The Structural Characterization of Oligonucleotide-Modified Gold Nanoparticle Networks Formed by DNA Hybridization Park, So-Jung; Lazarides, Anne A.; Storhoff, James J. The Journal of Physical Chemistry B, Vol. 108, Issue 33 https://doi.org/10.1021/jp040242b	journal	August 2004
One-Pot Colorimetric Differentiation of Polynucleotides with Single Base Imperfections Using Gold Nanoparticle Probes Storhoff, James J.; Elghanian, Robert; Mucic, Robert C. Journal of the American Chemical Society, Vol. 120, Issue 9 https://doi.org/10.1021/ja972332i	journal	March 1998
Maximizing DNA Loading on a Range of Gold Nanoparticle Sizes Hurst, Sarah J.; Lytton-Jean, Abigail K. R.; Mirkin, Chad A. Analytical Chemistry, Vol. 78, Issue 24 https://doi.org/10.1021/ac0613582	journal	December 2006
Improving the Yield of Mono-DNA-Functionalized Gold Nanoparticles through Dual Steric Hindrance Li, Zhengtao; Cheng, Enjun; Huang, Wenxiao Journal of the American Chemical Society, Vol. 133, Issue 39 https://doi.org/10.1021/ja205712a	journal	September 2011
Ultraefficient Cap-Exchange Protocol To Compact Biofunctional Quantum Dots for Sensitive Ratiometric Biosensing and Cell Imaging Wang, Weili; Guo, Yuan; Tiede, Christian ACS Applied Materials & Interfaces, Vol. 9, Issue 18 https://doi.org/10.1021/acsami.6b13807	journal	April 2017
Rapid prototyping of 3D DNA-origami shapes with caDNAno Douglas, Shawn M.; Marblestone, Adam H.; Teerapittayanon, Surat Nucleic Acids Research, Vol. 37, Issue 15 https://doi.org/10.1093/nar/gkp436	journal	June 2009
Folding DNA to create nanoscale shapes and patterns Rothemund, Paul W. K. Nature, Vol. 440, Issue 7082, p. 297-302 https://doi.org/10.1038/nature04586	journal	March 2006
Purification of Functionalized DNA Origami Nanostructures Shaw, Alan; Benson, Erik; Högberg, Björn ACS Nano, Vol. 9, Issue 5 https://doi.org/10.1021/nn507035g	journal	May 2015
Elastic Properties of Nucleic Acids by Single-Molecule Force Spectroscopy Camunas-Soler, Joan; Ribezzi-Crivellari, Marco; Ritort, Felix Annual Review of Biophysics, Vol. 45, Issue 1 https://doi.org/10.1146/annurev-biophys-062215-011158	journal	July 2016
Techniques for Accurate Sizing of Gold Nanoparticles Using Dynamic Light Scattering with Particular Application to Chemical and Biological Sensing Based on Aggregate Formation Zheng, Tianyu; Bott, Steven; Huo, Qun ACS Applied Materials & Interfaces, Vol. 8, Issue 33 https://doi.org/10.1021/acsami.6b06903	journal	August 2016
Tutorial: measurement of fluorescence spectra and determination of relative fluorescence quantum yields of transparent samples Levitus, Marcia Methods and Applications in Fluorescence, Vol. 8, Issue 3 https://doi.org/10.1088/2050-6120/ab7e10	journal	April 2020
DNA-Origami-Directed Self-Assembly of Discrete Silver-Nanoparticle Architectures Pal, Suchetan; Deng, Zhengtao; Ding, Baoquan Angewandte Chemie International Edition, Vol. 49, Issue 15 https://doi.org/10.1002/anie.201000330	journal	March 2010
DNA nanostructure-directed assembly of metal nanoparticle superlattices Julin, Sofia; Nummelin, Sami; Kostiainen, Mauri A. Journal of Nanoparticle Research, Vol. 20, Issue 5 https://doi.org/10.1007/s11051-018-4225-3	journal	April 2018
Modular Assembly of Plasmonic Nanoparticles Assisted by DNA Origami Zhu, Chenggan; Wang, Meng; Dong, Jinyi Langmuir, Vol. 34, Issue 49 https://doi.org/10.1021/acs.langmuir.8b01933	journal	June 2018
Nanomanufacturing with DNA Origami: Factors Affecting the Kinetics and Yield of Quantum Dot Binding Ko, Seung Hyeon; Gallatin, Gregg M.; Liddle, J. Alexander Advanced Functional Materials, Vol. 22, Issue 5 https://doi.org/10.1002/adfm.201102077	journal	January 2012
Assembly of Heterogeneous Functional Nanomaterials on DNA Origami Scaffolds Wang, Risheng; Nuckolls, Colin; Wind, Shalom J. Angewandte Chemie International Edition, Vol. 51, Issue 45 https://doi.org/10.1002/anie.201206389	journal	October 2012
DNA‐Tile‐Directed Self‐Assembly of Quantum Dots into Two‐Dimensional Nanopatterns Sharma, Jaswinder; Ke, Yonggang; Lin, Chenxiang Angewandte Chemie International Edition, Vol. 47, Issue 28 https://doi.org/10.1002/anie.200801485	journal	June 2008
Principles of Fluorescence Spectroscopy Lakowicz, Joseph R. Springer New York, NY https://doi.org/10.1007/978-0-387-46312-4	book	January 2006
Thermal Stability of DNA Functionalized Gold Nanoparticles Li, Feng; Zhang, Hongquan; Dever, Brittany Bioconjugate Chemistry, Vol. 24, Issue 11 https://doi.org/10.1021/bc300687z	journal	November 2013
Stable water-soluble quantum dots capped by poly(ethylene glycol) modified dithiocarbamate Li, Yan; Shen, Bing; Liu, Lu Colloids and Surfaces A: Physicochemical and Engineering Aspects, Vol. 410 https://doi.org/10.1016/j.colsurfa.2012.06.034	journal	September 2012
Energy Transfer with Semiconductor Quantum Dot Bioconjugates: A Versatile Platform for Biosensing, Energy Harvesting, and Other Developing Applications Hildebrandt, Niko; Spillmann, Christopher M.; Algar, W. Russ Chemical Reviews, Vol. 117, Issue 2 https://doi.org/10.1021/acs.chemrev.6b00030	journal	March 2016
On the biophysics and kinetics of toehold-mediated DNA strand displacement Srinivas, Niranjan; Ouldridge, Thomas E.; Šulc, Petr Nucleic Acids Research, Vol. 41, Issue 22 https://doi.org/10.1093/nar/gkt801	journal	September 2013

Similar Records

Compact quantum dot surface modification to enable emergent behaviors in quantum dot-DNA composites

Journal Article · Thu Oct 10 00:00:00 EDT 2019 · Journal of Chemical Physics · OSTI ID:1991399

Dehankar, Abhilasha; Porter, Thomas; Johnson, Joshua A.; +2 more

Binary Heterogeneous Superlattices Assembled from Quantum Dots and Gold Nanoparticles with DNA

Journal Article · Sat Dec 31 00:00:00 EST 2011 · Journal of the American Chemical Society · OSTI ID:1991399

Sun, D; Gang, O

An improved DNA force field for ssDNA interactions with gold nanoparticles

Journal Article · Sat Jun 21 00:00:00 EDT 2014 · Journal of Chemical Physics · OSTI ID:1991399

Jiang, Xiankai; Huai, Ping; Fan, Chunhai; +4 more

Related Subjects

77 NANOSCIENCE AND NANOTECHNOLOGY
quantum dots
DNA
bioconjugation
fluorescence
ligand
exchange
DNA self-assembly
phase transfer
conjugate acid-base pairs
genetics
metal nanoparticles

Title: One-Step Ligand-Exchange Method to Produce Quantum Dot–DNA Conjugates for DNA-Directed Self-Assembly

Citation Formats

References (63)

Similar Records

Related Subjects