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Sun M, Song R, Fang Y, Xu J, Yang Z, Zhang H. DNA-Based Complexes and Composites: A Review of Fabrication Methods, Properties, and Applications. ACS APPLIED MATERIALS & INTERFACES 2024; 16:51899-51915. [PMID: 39314016 DOI: 10.1021/acsami.4c13357] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/25/2024]
Abstract
Deoxyribonucleic acid (DNA), a macromolecule that stores genetic information in organisms, has recently been gradually developed into a building block for new materials due to its stable chemical structure and excellent biocompatibility. The efficient preparation and functional integration of various molecular complexes and composite materials based on nucleic acid skeletons have been successfully achieved. These versatile materials possess excellent physical and chemical properties inherent to certain inorganic or organic molecules but are endowed with specific physiological functions by nucleic acids, demonstrating unique advantages and potential applications in materials science, nanotechnology, and biomedical engineering in recent years. However, issues such as the production cost, biological stability, and potential immunogenicity of DNA have presented some unprecedented challenges to the application of these materials in the field. This review summarizes the cutting-edge manufacturing techniques and unique properties of DNA-based complexes and composites and discusses the trends, challenges, and opportunities for the future development of nucleic acid-based materials.
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Affiliation(s)
- Mengqiu Sun
- School of Physical Sciences, Great Bay University, Dongguan 523000, China
- Department of Materials Science and Engineering, Southern University of Science and Technology, Shenzhen 518055, China
| | - Rui Song
- School of Physical Sciences, Great Bay University, Dongguan 523000, China
- Research & Development Institute of Northwestern Polytechnical University in Shenzhen, Shenzhen 518063, China
| | - Yangwu Fang
- School of Physical Sciences, Great Bay University, Dongguan 523000, China
| | - Jiuzhou Xu
- School of Life Sciences, Southern University of Science and Technology, Shenzhen 518055, China
| | - Zhaoqi Yang
- School of Life Sciences and Health Engineering, Jiangnan University, Wuxi 214122, China
| | - Hao Zhang
- School of Physical Sciences, Great Bay University, Dongguan 523000, China
- Research & Development Institute of Northwestern Polytechnical University in Shenzhen, Shenzhen 518063, China
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Sikma RE, Vogel DJ, Reyes RA, Meyerson ML, Kotula PG, Gallis DFS. High-Entropy Metal-Organic Frameworks (HEMOFs): A New Frontier in Materials Design for CO 2 Utilization. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024:e2407435. [PMID: 39246129 DOI: 10.1002/adma.202407435] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2024] [Revised: 08/11/2024] [Indexed: 09/10/2024]
Abstract
High-entropy materials (HEMs) emerged as promising candidates for a diverse array of chemical transformations, including CO2 utilization. However, traditional HEMs catalysts are nonporous, limiting their activity to surface sites. Designing HEMs with intrinsic porosity can open the door toward enhanced reactivity while maintaining the many benefits of high configurational entropy. Here, a synergistic experimental, analytical, and theoretical approach to design the first high-entropy metal-organic frameworks (HEMOFs) derived from polynuclear metal clusters is implemented, a novel class of porous HEMs that is highly active for CO2 fixation under mild conditions and short reaction times, outperforming existing heterogeneous catalysts. HEMOFs with up to 15 distinct metals are synthesized (the highest number of metals ever incorporated into a single MOF) and, for the first time, homogenous metal mixing within individual clusters is directly observed via high-resolution scanning transmission electron microscopy. Importantly, density functional theory studies provide unprecedented insight into the electronic structures of HEMOFs, demonstrating that the density of states in heterometallic clusters is highly sensitive to metal composition. This work dramatically advances HEMOF materials design, paving the way for further exploration of HEMs and offers new avenues for the development of multifunctional materials with tailored properties for a wide range of applications.
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Affiliation(s)
- R Eric Sikma
- Sandia National Laboratories, 1515 Eubank Blvd. SE, Albuquerque, NM, 87123, USA
| | - Dayton J Vogel
- Sandia National Laboratories, 1515 Eubank Blvd. SE, Albuquerque, NM, 87123, USA
| | - Raphael A Reyes
- Sandia National Laboratories, 1515 Eubank Blvd. SE, Albuquerque, NM, 87123, USA
| | - Melissa L Meyerson
- Sandia National Laboratories, 1515 Eubank Blvd. SE, Albuquerque, NM, 87123, USA
| | - Paul G Kotula
- Sandia National Laboratories, 1515 Eubank Blvd. SE, Albuquerque, NM, 87123, USA
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Sikma RE, Butler KS, Vogel DJ, Harvey JA, Sava Gallis DF. Quest for Multifunctionality: Current Progress in the Characterization of Heterometallic Metal-Organic Frameworks. J Am Chem Soc 2024; 146:5715-5734. [PMID: 38364319 DOI: 10.1021/jacs.3c05425] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/18/2024]
Abstract
Metal-organic frameworks (MOFs) are a class of porous, crystalline materials that have been systematically developed for a broad range of applications. Incorporation of two or more metals into a single crystalline phase to generate heterometallic MOFs has been shown to lead to synergistic effects, in which the whole is oftentimes greater than the sum of its parts. Because geometric proximity is typically required for metals to function cooperatively, deciphering and controlling metal distributions in heterometallic MOFs is crucial to establish structure-function relationships. However, determination of short- and long-range metal distributions is nontrivial and requires the use of specialized characterization techniques. Advancements in the characterization of metal distributions and interactions at these length scales is key to rapid advancement and rational design of functional heterometallic MOFs. This perspective summarizes the state-of-the-art in the characterization of heterometallic MOFs, with a focus on techniques that allow metal distributions to be better understood. Using complementary analyses, in conjunction with computational methods, is critical as this field moves toward increasingly complex, multifunctional systems.
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Affiliation(s)
- R Eric Sikma
- Nanoscale Sciences Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Kimberly S Butler
- Molecular and Microbiology Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Dayton J Vogel
- Computational Materials & Data Science Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Jacob A Harvey
- Geochemistry Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - Dorina F Sava Gallis
- Nanoscale Sciences Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
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Mao X, Shi M, Chen C, Guo J, Liu S, Gou H, Zhu X, Li W, Mao D. Metal-organic framework integrated hydrogel bioreactor for smart detection of metal ions. Biosens Bioelectron 2024; 247:115919. [PMID: 38113693 DOI: 10.1016/j.bios.2023.115919] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Revised: 10/24/2023] [Accepted: 12/05/2023] [Indexed: 12/21/2023]
Abstract
Bioreactors with environment responsiveness for smart detection has attracted widespread interest. Bioreactors that operate in liquid have excellent reaction speed and sensitivity, and those that operate at a solid interface have unique portability and stability. However, bioreactors that can simultaneously take advantage of both properties are still limited. Here, we developed a metal-organic framework (MOF) integrated hydrogel bioreactor that can accommodate both solid and liquid properties by using a hydrogel as a quasi-liquid medium. To enhance the stability and intelligence of the hydrogel bioreactor, we have opted for the utilization of europium metal-organic framework (Eu-MOF) as the optical output to withstand long-term storage challenges, and DNA as the highly programmable substance for intelligent target response. On this basis, smart detection of metal ions and biological micro-molecules have been achieved. Notably, this quasi-liquid hydrogel bioreactor has effectively tackled the intrinsic issues of inadequate dispersion stability of Eu-MOF in liquid systems and poor stability of DNA against environmental interference. Moreover, this MOF integrated hydrogel bioreactor has been applied to the construction of a portable hydrogel bioreactor, which enables platform-free and arrayed target detection via a smartphone, providing a new perspective for further promoting the application of quasi-liquid hydrogel bioreactors and intelligent nanobiological sensors.
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Affiliation(s)
- Xiaoxia Mao
- Key Laboratory of Aqueous Environment Protection and Pollution Control of Yangtze River in Anhui of Anhui Provincial Education Department, College of Resources and Environment, Anqing Normal University, Anqing, 246011, PR China
| | - Mengqin Shi
- Key Laboratory of Aqueous Environment Protection and Pollution Control of Yangtze River in Anhui of Anhui Provincial Education Department, College of Resources and Environment, Anqing Normal University, Anqing, 246011, PR China
| | - Chen Chen
- Key Laboratory of Intelligent Perception and Computing of Anhui Province, Anqing Normal University, Anqing, 246011, PR China
| | - Jingkang Guo
- School of Life Sciences, Shanghai University, Shanghai, 200444, PR China
| | - Shaowei Liu
- Key Laboratory of Aqueous Environment Protection and Pollution Control of Yangtze River in Anhui of Anhui Provincial Education Department, College of Resources and Environment, Anqing Normal University, Anqing, 246011, PR China
| | - Hongquan Gou
- Department of Clinical Laboratory Medicine, Shanghai Tenth People's Hospital of Tongji University, Shanghai, 200072, PR China
| | - Xiaoli Zhu
- Department of Clinical Laboratory Medicine, Shanghai Tenth People's Hospital of Tongji University, Shanghai, 200072, PR China; Shaoxing Institute of Shanghai University, 78 Sanjiang Road, Shaoxing, PR China.
| | - Wenxing Li
- Department of Clinical Laboratory Medicine, Shanghai Tenth People's Hospital of Tongji University, Shanghai, 200072, PR China
| | - Dongsheng Mao
- Department of Clinical Laboratory Medicine, Shanghai Tenth People's Hospital of Tongji University, Shanghai, 200072, PR China
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Orthogonal luminescence lifetime encoding by intermetallic energy transfer in heterometallic rare-earth MOFs. Nat Commun 2023; 14:981. [PMID: 36813785 PMCID: PMC9947006 DOI: 10.1038/s41467-023-36576-z] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2022] [Accepted: 02/07/2023] [Indexed: 02/24/2023] Open
Abstract
Lifetime-encoded materials are particularly attractive as optical tags, however examples are rare and hindered in practical application by complex interrogation methods. Here, we demonstrate a design strategy towards multiplexed, lifetime-encoded tags via engineering intermetallic energy transfer in a family of heterometallic rare-earth metal-organic frameworks (MOFs). The MOFs are derived from a combination of a high-energy donor (Eu), a low-energy acceptor (Yb) and an optically inactive ion (Gd) with the 1,2,4,5 tetrakis(4-carboxyphenyl) benzene (TCPB) organic linker. Precise manipulation of the luminescence decay dynamics over a wide microsecond regime is achieved via control over metal distribution in these systems. Demonstration of this platform's relevance as a tag is attained via a dynamic double encoding method that uses the braille alphabet, and by incorporation into photocurable inks patterned on glass and interrogated via digital high-speed imaging. This study reveals true orthogonality in encoding using independently variable lifetime and composition, and highlights the utility of this design strategy, combining facile synthesis and interrogation with complex optical properties.
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Zhao Q, Pan B, Long W, Pan Y, Zhou D, Luan X, He B, Wang Y, Song Y. Metal Organic Framework-Based Bio-Barcode CRISPR/Cas12a Assay for Ultrasensitive Detection of MicroRNAs. NANO LETTERS 2022; 22:9714-9722. [PMID: 36412588 DOI: 10.1021/acs.nanolett.2c04022] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
CRISPR/Cas12a has shown great potential in molecular diagnostics, but its application in sensing of microRNAs (miRNAs) was limited by sensitivity and complexity. Here, we have sensitively and conveniently detected microRNAs by reasonably integrating metal-organic frameworks (MOFs) based biobarcodes with CRISPR/Cas12a assay (designated as MBCA). In this work, DNA-functionalized Zr-MOFs were designed as the converter to convert and amplify each miRNA target into activators that can initiate the trans-cleavage activity of CRISPR/Cas12a to further amplify the signal. Such integration provides a universal strategy for sensitive detection of miRNAs. By tuning the complementary sequences modified on nanoprobes, this assay achieves subattomolar sensitivity for different miRNAs and was selective to single-based mismatches. With the proposed method, the expression of miR-21 in different cancer cells can be assessed, and breast cancer patients and healthy individuals can be differentiated by analyzing the target miRNAs extracted from serum samples, holding great potential in clinical diagnosis.
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Affiliation(s)
- Qiao Zhao
- College of Engineering and Applied Sciences, State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, 210093 Nanjing, China
- Key Laboratory of Flexible Electronics & Institute of Advanced Materials, Nanjing Tech University, 211816 Nanjing, China
| | - Bei Pan
- Department of Laboratory Medicine, Nanjing First Hospital, Nanjing Medical University, 210006 Nanjing, China
| | - Wenxiu Long
- Key Laboratory of Flexible Electronics & Institute of Advanced Materials, Nanjing Tech University, 211816 Nanjing, China
| | - Yongchun Pan
- College of Engineering and Applied Sciences, State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, 210093 Nanjing, China
| | - Dongtao Zhou
- College of Engineering and Applied Sciences, State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, 210093 Nanjing, China
| | - Xiaowei Luan
- College of Engineering and Applied Sciences, State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, 210093 Nanjing, China
| | - Bangshun He
- Department of Laboratory Medicine, Nanjing First Hospital, Nanjing Medical University, 210006 Nanjing, China
| | - Yuzhen Wang
- Key Laboratory of Flexible Electronics & Institute of Advanced Materials, Nanjing Tech University, 211816 Nanjing, China
| | - Yujun Song
- College of Engineering and Applied Sciences, State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, 210093 Nanjing, China
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Yang Y, Ibikunle IA, Sava Gallis DF, Sholl DS. Adapting UFF4MOF for Heterometallic Rare-Earth Metal-Organic Frameworks. ACS APPLIED MATERIALS & INTERFACES 2022; 14:54101-54110. [PMID: 36399402 DOI: 10.1021/acsami.2c16726] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Heterometallic metal-organic frameworks based on rare-earth metals (RE-MOFs) have potential in a number of applications where energy transfer between nearby metal atoms is required. This observation implies that it is important to understand the level of local mixing that is achieved between metals of different types during synthesis of RE-MOFs. Density functional theory calculations can give quantitative information on the relative energy of different configurations of RE-MOFs, but these calculations cannot be applied to the full range of medium- and long-range orderings that are possible in heterometallic materials. This limitation can be overcome using force field (FF)-based calculations if appropriate FFs are available. We show that an existing generic FF for MOFs, UFF4MOF, does not accurately predict energies of mixing in heterometallic Nd/Yb MOFs and introduce a modified FF to address this shortcoming. The resulting FF is used to explore metal orderings in large simulation volumes for a Nd/Yb MOF, illustrating the complexities that can arise in the structure of heterometallic RE-MOFs.
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Affiliation(s)
- Yuhan Yang
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
| | - Ifayoyinsola A Ibikunle
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
| | - Dorina F Sava Gallis
- Nanoscale Sciences Department, Sandia National Laboratories, Albuquerque, New Mexico 87185, United States
| | - David S Sholl
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
- Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
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Gharagheizi F, Yu Z, Sholl DS. Curated Collection of More than 20,000 Experimentally Reported One-Dimensional Metal-Organic Frameworks. ACS APPLIED MATERIALS & INTERFACES 2022; 14:42258-42266. [PMID: 36075067 DOI: 10.1021/acsami.2c12485] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
A collection of more than 20,000 experimentally derived crystal structures for metal-organic frameworks (MOFs) that do not have two- or three-dimensional covalently bonded networks has been developed from the materials available at the Cambridge Crystallographic Data Centre. Of these 20,000 1D MOFs, more than 12,000 structures have been verified to be solvent-free and in exact agreement with the stoichiometry of the synthesized materials. More than 10% of the complete data set comprise materials including two or more distinct metals. The band gaps of more than 12,000 1D MOFs have been computed at the density functional theory-generalized gradient approximation level, finding more than 2000 materials that have a zero band gap. Molecular simulations of CH4 adsorption in a small number of 1D MOFs indicated that adsorbate-induced deformation plays a significant role in determining adsorption isotherms in these materials. As a result, methods that have been used previously for high-throughput predictions of molecular adsorption in 3D MOFs are not suitable for 1D MOFs.
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Affiliation(s)
- Farhad Gharagheizi
- School of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
| | - Zhenzi Yu
- School of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
| | - David S Sholl
- School of Chemical and Biomolecular Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332-0100, United States
- Oak Ridge National Laboratory, Oak Ridge, Tennessee 37830, United States
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