1
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Sun Y, Zhao Y, Xie X, Li H, Feng W. Printed polymer platform empowering machine-assisted chemical synthesis in stacked droplets. Nat Commun 2024; 15:6759. [PMID: 39117641 PMCID: PMC11310347 DOI: 10.1038/s41467-024-50768-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Accepted: 07/19/2024] [Indexed: 08/10/2024] Open
Abstract
Efficiently exploring organic molecules through multi-step processes demands a transition from conventional laboratory synthesis to automated systems. Existing platforms for machine-assistant synthetic workflows compatible with multiple liquid-phases require substantial engineering investments for setup, thereby hindering quick customization and throughput increasement. Here we present a droplet-based chip that facilitates the self-organization of various liquid phases into stacked layers for conducting chemical transformations. The chip's precision polymer printing capability, enabled by digital micromirror device (DMD)-maskless photolithography and dual post-chemical modifications, allows it to create customized, sub-10 µm featured patterns to confine diverse liquids, regardless of density, within each droplet. The robustness and open design of surface-templated liquid layers actualize machine-assistant droplet manipulation, synchronous reaction triggering, local oscillation, and real-time monitoring of individual layers into a reality. We propose that, with further integration of machine operation line and self-learning, this droplet-based platform holds the potential to become a valuable addition to the toolkit of chemistry process, operating autonomously and with high-throughput.
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Affiliation(s)
- Yingxue Sun
- College of Polymer Science and Engineering, Sichuan University, Chengdu, China
| | - Yuanyi Zhao
- College of Polymer Science and Engineering, Sichuan University, Chengdu, China
| | - Xinjian Xie
- College of Polymer Science and Engineering, Sichuan University, Chengdu, China
| | - Hongjiao Li
- College of Chemical Engineering, Sichuan University, Chengdu, China
| | - Wenqian Feng
- College of Polymer Science and Engineering, Sichuan University, Chengdu, China.
- Department State Key Laboratory of Polymer Materials Engineering, Sichuan University, Chengdu, China.
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2
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Riester O, Kaiser L, Laufer S, Deigner HP. Rapid Phenotypic Antibiotics Susceptibility Analysis by a 3D Printed Prototype. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2308806. [PMID: 38528800 DOI: 10.1002/advs.202308806] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2023] [Revised: 01/31/2024] [Indexed: 03/27/2024]
Abstract
One of the most important public health concerns is the increase in antibiotic-resistant pathogens and corresponding treatment of associated infections. Addressing this challenge requires more efficient use of antibiotics, achievable by the use of evidence-based, effective antibiotics identified by antibiotic susceptibility testing (AST). However, the current standard method of phenotypic AST used for this purpose requires 48 h or more from sample collection to result. Until results are available, broad-spectrum antibiotics are used to avoid delaying treatment. The turnaround time must therefore be shortened in order for the results to be available before the second administration of antibiotics. The phenotypic electrochemical AST method presented here identifies effective antibiotics within 5-10 h after sampling. Spiked serum samples, including polymicrobial samples, with clinically relevant pathogens and respective concentrations commonly found in bloodstream infections (Escherichia coli, Staphylococcus aureus, Klebsiella pneumoniae, and Pseudomonas aeruginosa) are used. Direct loading of the test with diluted serum eliminates the need for a pre-culture, as required by existing methods. Furthermore, by combining several electrochemical measurement procedures with computational analysis, allowing the method to be used both online and offline, the AST achieves a sensitivity of 94.44% and a specificity of 95.83% considering each replicate individually.
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Affiliation(s)
- Oliver Riester
- Institute of Precision Medicine, Furtwangen University, Jakob-Kienzle-Strasse 17, 78054, Villingen-Schwenningen, Germany
- Institute of Pharmaceutical Sciences, Department of Pharmacy and Biochemistry, Eberhard-Karls-University Tuebingen, Auf der Morgenstelle 8, 72076, Tuebingen, Germany
| | - Lars Kaiser
- Institute of Precision Medicine, Furtwangen University, Jakob-Kienzle-Strasse 17, 78054, Villingen-Schwenningen, Germany
| | - Stefan Laufer
- Institute of Pharmaceutical Sciences, Department of Pharmacy and Biochemistry, Eberhard-Karls-University Tuebingen, Auf der Morgenstelle 8, 72076, Tuebingen, Germany
- Tuebingen Center for Academic Drug Discovery & Development (TüCAD2), 72076, Tuebingen, Germany
- IFIT Cluster of Excellence EXC 2180 'Image-Guided and Functionally Instructed Tumor Therapies', University of Tuebingen, 72076, Tuebingen, Germany
| | - Hans-Peter Deigner
- Institute of Precision Medicine, Furtwangen University, Jakob-Kienzle-Strasse 17, 78054, Villingen-Schwenningen, Germany
- Faculty of Science, Eberhard-Karls-University Tuebingen, Auf der Morgenstelle 8, 72076, Tuebingen, Germany
- EXIM Department, Fraunhofer Institute IZI (Leipzig), Schillingallee 68, 18057, Rostock, Germany
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3
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Yang J, Ran Y, Liu S, Ren C, Lou Y, Ju P, Li G, Li X, Zhang D. Synergistic D-Amino Acids Based Antimicrobial Cocktails Formulated via High-Throughput Screening and Machine Learning. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2307173. [PMID: 38126652 PMCID: PMC10916672 DOI: 10.1002/advs.202307173] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 11/29/2023] [Indexed: 12/23/2023]
Abstract
Antimicrobial resistance (AMR) from pathogenic bacterial biofilms has become a global health issue while developing novel antimicrobials is inefficient and costly. Combining existing multiple drugs with enhanced efficacy and/or reduced toxicity may be a promising approach to treat AMR. D-amino acids mixtures coupled with antibiotics can provide new therapies for drug-resistance infection with reduced toxicity by lower drug dosage requirements. However, iterative trial-and-error experiments are not tenable to prioritize credible drug formulations, owing to the extremely large number of possible combinations. Herein, a new avenue is provide to accelerate the exploration of desirable antimicrobial formulations via high-throughput screening and machine learning optimization. Such an intelligent method can navigate the large search space and rapidly identify the D-amino acid mixtures with the highest anti-biofilm efficiency and also the synergisms between D-amino acid mixtures and antibiotics. The optimized drug cocktails exhibit high antimicrobial efficacy while remaining non-toxic, which is demonstrated not only from in vitro assessments but also the first in vivo study using a lung infection mouse model.
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Affiliation(s)
- Jingzhi Yang
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
| | - Yami Ran
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
- BRI Southeast Asia Network for Corrosion and ProtectionShunde Graduate School of University of Science and Technology BeijingFoshan528000China
| | - Shaopeng Liu
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
| | - Chenhao Ren
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
| | - Yuntian Lou
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
- BRI Southeast Asia Network for Corrosion and ProtectionShunde Graduate School of University of Science and Technology BeijingFoshan528000China
| | - Pengfei Ju
- Shanghai Aerospace Equipment ManufacturerShanghai200245China
| | - Guoliang Li
- College of Materials Science and EngineeringBeijing University of Chemical TechnologyBeijing100029China
| | - Xiaogang Li
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
- BRI Southeast Asia Network for Corrosion and ProtectionShunde Graduate School of University of Science and Technology BeijingFoshan528000China
| | - Dawei Zhang
- Beijing Advanced Innovation Center for Materials Genome EngineeringInstitute for Advanced Materials and TechnologyUniversity of Science and Technology BeijingBeijing100083China
- National Materials Corrosion and Protection Data CenterUniversity of Science and Technology BeijingBeijing100083China
- BRI Southeast Asia Network for Corrosion and ProtectionShunde Graduate School of University of Science and Technology BeijingFoshan528000China
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4
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Strutt R, Xiong B, Abegg VF, Dittrich PS. Open microfluidics: droplet microarrays as next generation multiwell plates for high throughput screening. LAB ON A CHIP 2024; 24:1064-1075. [PMID: 38356285 PMCID: PMC10898417 DOI: 10.1039/d3lc01024d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 02/04/2024] [Indexed: 02/16/2024]
Abstract
Multiwell plates are prominent in the biological and chemical sciences; however, they face limitations in terms of throughput and deployment in emerging bioengineering fields. Droplet microarrays, as an open microfluidic technology, organise tiny droplets typically in the order of thousands, on an accessible plate. In this perspective, we summarise current approaches for generating droplets, fluid handling on them, and analysis within droplet microarrays. By enabling unique plate engineering opportunities, demonstrating the necessary experimental procedures required for manipulating and interacting with biological cells, and integrating with label-free analytical techniques, droplet microarrays can be deployed across a more extensive experimental domain than what is currently covered by multiwell plates. Droplet microarrays thus offer a solution to the bottlenecks associated with multiwell plates, particularly in the areas of biological cultivation and high-throughput compound screening.
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Affiliation(s)
- Robert Strutt
- Department of Biosystems Science and Engineering, ETH Zürich, Schanzenstrasse 44, 4056 Basel, Switzerland.
| | - Bijing Xiong
- Department of Biosystems Science and Engineering, ETH Zürich, Schanzenstrasse 44, 4056 Basel, Switzerland.
| | - Vanessa Fabienne Abegg
- Department of Biosystems Science and Engineering, ETH Zürich, Schanzenstrasse 44, 4056 Basel, Switzerland.
| | - Petra S Dittrich
- Department of Biosystems Science and Engineering, ETH Zürich, Schanzenstrasse 44, 4056 Basel, Switzerland.
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5
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Gómez JEU, Faraj REKE, Braun M, Levkin PA, Popova AA. ANDeS: An automated nanoliter droplet selection and collection device. SLAS Technol 2024; 29:100118. [PMID: 37981010 DOI: 10.1016/j.slast.2023.11.002] [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: 08/18/2023] [Revised: 10/04/2023] [Accepted: 11/14/2023] [Indexed: 11/21/2023]
Abstract
The Droplet Microarray (DMA) has emerged as a tool for high-throughput biological and chemical applications by enabling miniaturization and parallelization of experimental processes. Due to its ability to hold hundreds of nanoliter droplets, the DMA enables simple screening and analysis of samples such as cells and biomolecules. However, handling of nanoliter volumes poses a challenge, as manual recovery of nanoliter volumes is not feasible, and traditional laboratory equipment is not suited to work with such low volumes, and small array formats. To tackle this challenge, we developed the Automated Nanoliter Droplet Selection device (ANDeS), a robotic system for automated collection and transfer of nanoliter samples from DMA. ANDeS can automatically collect volumes from 50 to 350 nL from the flat surface of DMA with a movement accuracy of ±30 µm using fused silica capillaries. The system can automatically collect and transfer the droplets from DMA chip into other platforms, such as microtiter plates, conical tubes or another DMA. In addition, to ensure high throughput and multiple droplet collection, the uptake of multiple droplets within a single capillary, separated by air gaps to avoid mixing of the samples within the capillary, was optimized and demonstrated. This study shows the potential of ANDeS in laboratory applications by using it for the collection and transfer of biological samples, contained in nanoliter droplets, for subsequent analysis. The experimental results demonstrate the ability of ANDeS to increase the versatility of the DMA platform by allowing for automated retrieval of nanoliter samples from DMA, which was not possible manually on the level of individual droplets. Therefore, it widens the variety of analytical techniques that can be used for the analysis of content of individual droplets and experiments performed using DMA. Thus, ANDeS opens up opportunities to expand the development of miniaturized assays in such fields as cell screening, omics analysis and combinatorial chemistry.
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Affiliation(s)
- Joaquín E Urrutia Gómez
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology, Hermann-von-Helmholtz Pl. 1, Eggenstein-Leopoldshafen 76344, Germany
| | - Razan El Khaled El Faraj
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology, Hermann-von-Helmholtz Pl. 1, Eggenstein-Leopoldshafen 76344, Germany
| | - Moritz Braun
- Institute for Applied Materials - Ceramic Materials and Technologies, Karlsruhe Institute of Technology (KIT), Haid-und-Neu straße 7, Karlsruhe 76131, Germany
| | - Pavel A Levkin
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology, Hermann-von-Helmholtz Pl. 1, Eggenstein-Leopoldshafen 76344, Germany; Institute of Organic Chemistry, Karlsruhe Institute of Technology, Kaiserstraße 12, Karlsruhe 76131, Germany.
| | - Anna A Popova
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology, Hermann-von-Helmholtz Pl. 1, Eggenstein-Leopoldshafen 76344, Germany.
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6
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Höpfner J, Brehm M, Levkin PA. Palladium-Catalyzed Combinatorial Synthesis of Biphenyls on Droplet Microarrays at Nanoliter Scale. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024; 20:e2304325. [PMID: 37726239 DOI: 10.1002/smll.202304325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 08/15/2023] [Indexed: 09/21/2023]
Abstract
The rising costs of pharmaceutical research are currently limiting the productivity of drug discovery and development, but can potentially be diminished via miniaturization of the synthesis and screening of new compounds. As droplet microarrays already present themselves as a versatile tool for highly miniaturized biological screening of various targets, their use for chemical synthesis is still limited. In this study, the influential palladium-catalyzed Suzuki-Miyaura reaction is successfully implemented at the nanoliter scale on droplet microarrays for the synthesis of an 800-compound library of biphenyls. Each reaction is carried out in individual 150 nL droplets. Remarkably, the synthesis of these 800 compounds requires a minimal amount of reagents, totaling 80 µmol, and a solvent volume of 400 µL. Furthermore, the cleavage kinetics and purity of the obtained biphenylic compounds are investigated. Via the solid-phase synthesis approach, the compounds could be purified from excess reactants and catalyst prior to the analysis and a UV-cleavable linker allows for fast and additive-free cleavage of each compound into the individual 100 nL droplet. This novel approach expands the toolbox of the droplet microarray for miniaturized high-throughput chemical synthesis and paves the way for future synthesis and screening of chemical compounds in a single platform.
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Affiliation(s)
- Julius Höpfner
- Karlsruhe Institute of Technology (KIT), Institute of Biological and Chemical Systems (IBCS), Hermann-von Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Marius Brehm
- Karlsruhe Institute of Technology (KIT), Institute of Biological and Chemical Systems (IBCS), Hermann-von Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Pavel A Levkin
- Karlsruhe Institute of Technology (KIT), Institute of Biological and Chemical Systems (IBCS), Hermann-von Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
- Karlsruhe Institute of Technology (KIT), Institute of Organic Chemistry (IOC), Fritz-Haber-Weg 6, 76131, Karlsruhe, Germany
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7
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Shi L, Liu S, Li X, Huang X, Luo H, Bai Q, Li Z, Wang L, Du X, Jiang C, Liu S, Li C. Droplet microarray platforms for high-throughput drug screening. Mikrochim Acta 2023; 190:260. [PMID: 37318602 DOI: 10.1007/s00604-023-05833-9] [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: 03/18/2023] [Accepted: 05/15/2023] [Indexed: 06/16/2023]
Abstract
High-throughput screening platforms are fundamental for the rapid and efficient processing of large amounts of experimental data. Parallelization and miniaturization of experiments are important for improving their cost-effectiveness. The development of miniaturized high-throughput screening platforms is essential in the fields of biotechnology, medicine, and pharmacology. Currently, most laboratories use 96- or 384-well microtiter plates for screening; however, they have disadvantages, such as high reagent and cell consumption, low throughput, and inability to avoid cross-contamination, which need to be further optimized. Droplet microarrays, as novel screening platforms, can effectively avoid these shortcomings. Here, the preparation method of the droplet microarray, method of adding compounds in parallel, and means to read the results are briefly described. Next, the latest research on droplet microarray platforms in biomedicine is presented, including their application in high-throughput culture, cell screening, high-throughput nucleic acid screening, drug development, and individualized medicine. Finally, the challenges and future trends in droplet microarray technology are summarized.
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Affiliation(s)
- Lina Shi
- School of Medicine, University of Electronic Science and Technology of China, Chengdu, 610054, China
| | - Sutong Liu
- Juxing College of Digital Economics, Haikou University of Economics, Haikou, 570100, China
| | - Xue Li
- Sichuan Hanyuan County People's Hospital, Hanyuan, 625300, China
| | - Xiwei Huang
- Ministry of Education Key Lab of RFCircuits and Systems, Hangzhou Dianzi University, Hangzhou, 310038, China
| | - Hongzhi Luo
- Department of Laboratory Medicine, The Third Affiliated Hospital of Zunyi Medical University (The First People's Hospital of Zunyi), Zunyi, 563002, China
| | - Qianwen Bai
- Department of Laboratory Medicine, The Third Affiliated Hospital of Zunyi Medical University (The First People's Hospital of Zunyi), Zunyi, 563002, China
| | - Zhu Li
- College of Medical Technology, Chengdu University of Traditional Chinese Medicine, Chengdu, 610075, China
| | - Lijun Wang
- Department of Ophthalmology, The Third People's Hospital of Chengdu, The Affiliated Hospital of Southwest Jiaotong University, Chengdu, 610031, China
| | - Xiaoxin Du
- Office of Scientific Research & Development, University of Electronic Science and Technology, Chengdu, 610054, China
| | - Cheng Jiang
- Biomedical Engineering, School of Medicine, The Chinese University of Hong Kong, Shenzhen, 518172, China
| | - Shan Liu
- Sichuan Provincial Key Laboratory for Human Disease Gene Study, Department of Medical Genetics, Sichuan Academy of Medical Sciences & Sichuan Provincial People's Hospital, University of Electronic Science and Technology of China, Chengdu, 610072, China.
| | - Chenzhong Li
- Biomedical Engineering, School of Medicine, The Chinese University of Hong Kong, Shenzhen, 518172, China
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8
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Ayon NJ. High-Throughput Screening of Natural Product and Synthetic Molecule Libraries for Antibacterial Drug Discovery. Metabolites 2023; 13:625. [PMID: 37233666 PMCID: PMC10220967 DOI: 10.3390/metabo13050625] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 04/29/2023] [Accepted: 05/01/2023] [Indexed: 05/27/2023] Open
Abstract
Due to the continued emergence of resistance and a lack of new and promising antibiotics, bacterial infection has become a major public threat. High-throughput screening (HTS) allows rapid screening of a large collection of molecules for bioactivity testing and holds promise in antibacterial drug discovery. More than 50% of the antibiotics that are currently available on the market are derived from natural products. However, with the easily discoverable antibiotics being found, finding new antibiotics from natural sources has seen limited success. Finding new natural sources for antibacterial activity testing has also proven to be challenging. In addition to exploring new sources of natural products and synthetic biology, omics technology helped to study the biosynthetic machinery of existing natural sources enabling the construction of unnatural synthesizers of bioactive molecules and the identification of molecular targets of antibacterial agents. On the other hand, newer and smarter strategies have been continuously pursued to screen synthetic molecule libraries for new antibiotics and new druggable targets. Biomimetic conditions are explored to mimic the real infection model to better study the ligand-target interaction to enable the designing of more effective antibacterial drugs. This narrative review describes various traditional and contemporaneous approaches of high-throughput screening of natural products and synthetic molecule libraries for antibacterial drug discovery. It further discusses critical factors for HTS assay design, makes a general recommendation, and discusses possible alternatives to traditional HTS of natural products and synthetic molecule libraries for antibacterial drug discovery.
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Affiliation(s)
- Navid J Ayon
- Chemistry of Life Processes Institute, Northwestern University, Evanston, IL 60208, USA
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9
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Schilling MP, El Khaled El Faraj R, Urrutia Gómez JE, Sonnentag SJ, Wang F, Nestler B, Orian-Rousseau V, Popova AA, Levkin PA, Reischl M. Automated high-throughput image processing as part of the screening platform for personalized oncology. Sci Rep 2023; 13:5107. [PMID: 36991084 PMCID: PMC10060403 DOI: 10.1038/s41598-023-32144-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Accepted: 03/23/2023] [Indexed: 03/31/2023] Open
Abstract
Cancer is a devastating disease and the second leading cause of death worldwide. However, the development of resistance to current therapies is making cancer treatment more difficult. Combining the multi-omics data of individual tumors with information on their in-vitro Drug Sensitivity and Resistance Test (DSRT) can help to determine the appropriate therapy for each patient. Miniaturized high-throughput technologies, such as the droplet microarray, enable personalized oncology. We are developing a platform that incorporates DSRT profiling workflows from minute amounts of cellular material and reagents. Experimental results often rely on image-based readout techniques, where images are often constructed in grid-like structures with heterogeneous image processing targets. However, manual image analysis is time-consuming, not reproducible, and impossible for high-throughput experiments due to the amount of data generated. Therefore, automated image processing solutions are an essential component of a screening platform for personalized oncology. We present our comprehensive concept that considers assisted image annotation, algorithms for image processing of grid-like high-throughput experiments, and enhanced learning processes. In addition, the concept includes the deployment of processing pipelines. Details of the computation and implementation are presented. In particular, we outline solutions for linking automated image processing for personalized oncology with high-performance computing. Finally, we demonstrate the advantages of our proposal, using image data from heterogeneous practical experiments and challenges.
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Affiliation(s)
- Marcel P Schilling
- Institute for Automation and Applied Informatics, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany.
| | - Razan El Khaled El Faraj
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Joaquín Eduardo Urrutia Gómez
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Steffen J Sonnentag
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Fei Wang
- Institute for Applied Materials, Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany
| | - Britta Nestler
- Institute for Applied Materials, Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany
| | - Véronique Orian-Rousseau
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Anna A Popova
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Pavel A Levkin
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
| | - Markus Reischl
- Institute for Automation and Applied Informatics, Karlsruhe Institute of Technology, 76344, Eggenstein-Leopoldshafen, Germany
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10
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Wiedmann JJ, Demirdögen YN, Schmidt S, Kuzina MA, Wu Y, Wang F, Nestler B, Hopf C, Levkin PA. Nanoliter Scale Parallel Liquid-Liquid Extraction for High-Throughput Purification on a Droplet Microarray. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2023; 19:e2204512. [PMID: 36538723 DOI: 10.1002/smll.202204512] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2022] [Revised: 10/28/2022] [Indexed: 06/17/2023]
Abstract
In the current drug discovery process, the synthesis of compound libraries is separated from biological screenings both conceptually and technologically. One of the reasons is that parallel on-chip high-throughput purification of synthesized compounds is still a major challenge. Here, on-chip miniaturized high-throughput liquid-liquid extraction in volumes down to 150 nL with efficiency comparable to or better than large-scale extraction utilizing separation funnels is demonstrated. The method is based on automated and programmable merging of arrays of aqueous nanoliter droplets with organic droplets. Multi-step extraction performed simultaneously or with changing conditions as well as handling of femtomoles of compounds are demonstrated. In addition, the extraction efficiency is analyzed with a fast optical readout as well as matrix-assisted laser desorption ionization-mass spectrometry on-chip detection. The new massively parallel and miniaturized purification method adds another important tool to the chemBIOS concept combining chemical combinatorial synthesis with biological screenings on the same miniaturized droplet microarray platform, which will be essential to accelerate drug discovery.
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Affiliation(s)
- Janne J Wiedmann
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Yelda N Demirdögen
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Stefan Schmidt
- Center for Mass Spectrometry and Optical Spectroscopy (CeMOS), Mannheim University of Applied Sciences, Paul-Wittsack-Straße 10, 68163, Mannheim, Germany
| | - Mariia A Kuzina
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Yanchen Wu
- Institute for Applied Materials - Microstructure Modelling and Simulation, Karlsruhe Institute of Technology (KIT), Strasse am Forum 7, 76131, Karlsruhe, Germany
| | - Fei Wang
- Institute for Applied Materials - Microstructure Modelling and Simulation, Karlsruhe Institute of Technology (KIT), Strasse am Forum 7, 76131, Karlsruhe, Germany
| | - Britta Nestler
- Institute for Applied Materials - Microstructure Modelling and Simulation, Karlsruhe Institute of Technology (KIT), Strasse am Forum 7, 76131, Karlsruhe, Germany
| | - Carsten Hopf
- Center for Mass Spectrometry and Optical Spectroscopy (CeMOS), Mannheim University of Applied Sciences, Paul-Wittsack-Straße 10, 68163, Mannheim, Germany
- Medical Faculty, Mannheim Center for Translational Neuroscience (MCTN), Heidelberg University, Theodor Kutzer-Ufer 1-3, 68167, Mannheim, Germany
| | - Pavel A Levkin
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
- Institute of Organic Chemistry (IOC), Karlsruhe Institute of Technology (KIT), Kaiserstraße 12, 76131, Karlsruhe, Germany
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11
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Lee S, Lee W, Lee AC, Nam J, Lee J, Kim H, Jeong Y, Yeom H, Kim N, Song SW, Kwon S. I-LIFT (image-based laser-induced forward transfer) platform for manipulating encoded microparticles. BIOMICROFLUIDICS 2022; 16:061101. [PMID: 36483021 PMCID: PMC9726220 DOI: 10.1063/5.0131733] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 11/08/2022] [Indexed: 06/17/2023]
Abstract
Encoded microparticles have great potential in small-volume multiplexed assays. It is important to link the micro-level assays to the macro-level by indexing and manipulating the microparticles to enhance their versatility. There are technologies to actively manipulate the encoded microparticles, but none is capable of directly manipulating the encoded microparticles with homogeneous physical properties. Here, we report the image-based laser-induced forward transfer system for active manipulation of the graphically encoded microparticles. By demonstrating the direct retrieval of the microparticles of interest, we show that this system has the potential to expand the usage of encoded microparticles.
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Affiliation(s)
- Sumin Lee
- Department of Electrical and Computer Engineering, Seoul National University, Seoul 08826, Republic of Korea
| | - Wooseok Lee
- Department of Electrical and Computer Engineering, Seoul National University, Seoul 08826, Republic of Korea
| | - Amos Chungwon Lee
- Bio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea
| | - Juhong Nam
- Department of Electrical and Computer Engineering, Seoul National University, Seoul 08826, Republic of Korea
| | - JinYoung Lee
- Division of Engineering Science, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Hamin Kim
- Interdisciplinary Program in Bioengineering, Seoul National University, Seoul 08826, Republic of Korea
| | - Yunjin Jeong
- Bio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea
| | - Huiran Yeom
- Bio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea
| | - Namphil Kim
- Department of Electrical and Computer Engineering, Seoul National University, Seoul 08826, Republic of Korea
| | - Seo Woo Song
- Bio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea
| | - Sunghoon Kwon
- Authors to whom correspondence should be addressed: and
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12
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Lei W, Deckers A, Luchena C, Popova A, Reischl M, Jung N, Bräse S, Schwartz T, Krimmelbein IK, Tietze LF, Levkin PA. Droplet Microarray as a Powerful Platform for Seeking New Antibiotics Against Multidrug-Resistant Bacteria. Adv Biol (Weinh) 2022; 6:e2200166. [PMID: 35843867 DOI: 10.1002/adbi.202200166] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Revised: 07/01/2022] [Indexed: 01/28/2023]
Abstract
Multidrug-resistant (MDR) bacteria is a severe threat to public health. Therefore, it is urgent to establish effective screening systems for identifying novel antibacterial compounds. In this study, a highly miniaturized droplet microarray (DMA) based high-throughput screening system is established to screen over 2000 compounds for their antimicrobial properties against carbapenem-resistant Klebsiella pneumoniae and methicillin resistant Staphylococcus aureus (MRSA). The DMA consists of an array of hydrophilic spots divided by superhydrophobic borders. Due to the differences in the surface wettability between the spots and the borders, arrays of hundreds of nanoliter-sized droplets containing bacteria and different drugs can be generated for screening applications. A simple colorimetric viability readout utilizing a conventional photo scanner is developed for fast single-step detection of the inhibitory effect of the compounds on bacterial growth on the whole array. Six hit compounds, including coumarins and structurally simplified estrogen analogs are identified in the primary screening and validated with minimum inhibition concentration assay for their antibacterial effect. This study demonstrates that the DMA-based high-throughput screening system enables the identification of potential antibiotics from novel synthetic compound libraries, offering opportunities for development of new treatments against multidrug-resistant bacteria.
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Affiliation(s)
- Wenxi Lei
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Anke Deckers
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Charlotte Luchena
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Anna Popova
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Markus Reischl
- Institute for Automation and Applied Informatics, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Nicole Jung
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Stefan Bräse
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany.,Institute of Organic Chemistry, Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany
| | - Thomas Schwartz
- Institute of Functional Interfaces, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany
| | - Ilga K Krimmelbein
- Institute of Organic and Biomolecular Chemistry, Georg-August-Universität, Tammannstr. 2, D-37077, Göttingen, Germany
| | - Lutz F Tietze
- Institute of Organic and Biomolecular Chemistry, Georg-August-Universität, Tammannstr. 2, D-37077, Göttingen, Germany
| | - Pavel A Levkin
- Institute of Biological and Chemical Systems - Functional Molecular Systems, Karlsruhe Institute of Technology, Hermann-von-Helmholtz Platz 1, 76344, Eggenstein-Leopoldshafen, Germany.,Institute of Organic Chemistry, Karlsruhe Institute of Technology, 76131, Karlsruhe, Germany
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13
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Liu X, Li X, Wu N, Luo Y, Zhang J, Yu Z, Shen F. Formation and Parallel Manipulation of Gradient Droplets on a Self-Partitioning SlipChip for Phenotypic Antimicrobial Susceptibility Testing. ACS Sens 2022; 7:1977-1984. [PMID: 35815869 DOI: 10.1021/acssensors.2c00734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Flexible, robust, and user-friendly screening systems with a large dynamic range are highly desired in scientific research, industrial development, and clinical diagnostics. Droplet-based microfluidic systems with gradient concentrations of chemicals have been demonstrated as promising tools to provide confined microenvironments for screening tests with small reaction volumes. However, the generation and manipulation of gradient droplets, such as droplet merging, generally require sophisticated fluidic manipulation systems, potentially limiting their application in decentralized settings. We present a gradient-droplet SlipChip (gd-SlipChip) microfluidic device that enables instrument-free gradient droplet formation and parallel manipulation. The device can establish a gradient profile by free interfacial diffusion in a continuous fluidic channel. With a simple slipping step, gradient droplets can be generated by a surface tension-driven self-partitioning process. Additional reagents can be introduced in parallel to these gradient droplets with further slipping operations to initiate screening tests of the droplets over a large concentration range. To profile the concentration in the gradient droplets, we establish a numerical simulation model and verify it with hydrogen chloride (HCl) diffusion, as tested with a dual-color pH indicator (methyl orange and aniline blue). As a proof of concept, we tested this system with a gradient concentration of nitrofurantoin for the phenotypic antimicrobial susceptibility testing (AST) of Escherichia coli. The results of our gd-SlipChip-based AST on both reference and clinical strains of E. coli can be indicated by the bacterial growth profile within 3 h and are consistent with the clinical culture-based AST.
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Affiliation(s)
- Xu Liu
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
| | - Xiang Li
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
| | - Nannan Wu
- Shanghai Institute of Phage, Shanghai Public Health Clinical Center, Fudan University, Shanghai 200433, China
| | - Yang Luo
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
| | - Jiajie Zhang
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
| | - Ziqing Yu
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
| | - Feng Shen
- School of Biomedical Engineering, Shanghai Jiao Tong University, 1954 Hua Shan Road, Shanghai 200030, China
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14
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Wang Y, Du X, Wang X, Yan T, Yuan M, Yang Y, Jurado-Sánchez B, Escarpa A, Xu LP. Patterned Liquid-Infused Nanocoating Integrating a Sensitive Bacterial Sensing Ability to an Antibacterial Surface. ACS APPLIED MATERIALS & INTERFACES 2022; 14:23129-23138. [PMID: 35537039 DOI: 10.1021/acsami.1c24821] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The slippery liquid-infused surfaces show a great antibacterial property. However, most liquid-infused surfaces cannot detect whether or not the unknown aqueous samples contain microorganisms. Therefore, it is highly necessary but a challenge to integrate bacterial sensing capability into antibacterial surface. In this work, we prepared a slippery patterned liquid-infused nanocoating on the glass substrate for integrating bacterial sensing capability into the bacterial repellence surface. Dendritic mesoporous silica nanoparticles (DMSNs) with a suitable particle size of ca. 128 nm were employed as a building block to fabricate the multifunctional nanocoating with a superhydrophilic microwell and hydrophobic periphery by a dip-coating strategy, hydrophobic treatment, photomask-mediated plasma etching, and liquid infusion. Dendritic porous silica nanoparticles (DPSNs) with a larger particle size of ca. 260 nm were uniformly loaded with Au nanoparticles (NPs), providing large surface area for the modification of Raman reporter (4-mercaptobenzoic acid (4-MBA)) and aptamer. Thus, as a Raman tag, the formed DPSNs-Au-MBA-aptamer could achieve sensitive surface-enhanced Raman spectroscopy (SERS) detection of target bacteria. Combined with the Raman tag, the patterned liquid-infused nanocoating not only completely repelled bacteria on the hydrophobic area but also enabled sensitive SERS detection of Staphylococcus aureus in a very low sample volume (1 μL) with a low detection limit of 2.6 colony formation units (CFU)/mL on the antibody-modified superhydrophilic microwell. This research provided a novel and reliable strategy to construct a multifunctional nanocoating with microbial repellence and sensing capabilities.
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Affiliation(s)
- Yulu Wang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
- Department of Analytical Chemistry, Physical Chemistry and Chemical Engineering, Faculty of Sciences, University of Alcalá, Madrid 28805, Spain
| | - Xin Du
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
| | - Xuan Wang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
| | - Tingxiu Yan
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
| | - Mengqi Yuan
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
| | - Yuemeng Yang
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
| | - Beatriz Jurado-Sánchez
- Department of Analytical Chemistry, Physical Chemistry and Chemical Engineering, Faculty of Sciences, University of Alcalá, Madrid 28805, Spain
| | - Alberto Escarpa
- Department of Analytical Chemistry, Physical Chemistry and Chemical Engineering, Faculty of Sciences, University of Alcalá, Madrid 28805, Spain
| | - Li-Ping Xu
- Beijing Key Laboratory for Bioengineering and Sensing Technology, School of Chemistry and Biological Engineering, University of Science and Technology Beijing, Beijing 100083, P. R. China
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15
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Liu K, Pan Y, Wang X, Ma T, Li B, Chu J. A low-cost self-dispersing method of droplet array generation enabled by a simple reusable mask for bioanalysis and bioassays. Anal Bioanal Chem 2021; 414:1141-1149. [PMID: 34779901 DOI: 10.1007/s00216-021-03739-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2021] [Revised: 10/09/2021] [Accepted: 10/15/2021] [Indexed: 11/27/2022]
Abstract
Discontinuous dewetting is an attractive technique that can produce droplet array of specific volume, geometry and at predefined location on a substrate. Droplet array has great potential in bioanalysis such as high-throughput live cell screening, digital PCR, and drug candidates. Here, we propose a self-dispersing droplet array generation method, which has advantages of low cost, simple operation, and easy large-area production ability. Droplet array of specific volumes was generated on a polymethyl methacrylate (PMMA) substrate using a simple reusable polyimide (PI) adhesive mask. Experiment shows that the generated droplet array can be used to successfully capture single particles which obeys Poisson distribution in a high-throughput manner. Furthermore, a droplet-array sandwiching chip was created based on the self-dispersion method for rapid detection of human serum albumin (HSA) at wide range of 183-11,712 μg/mL with low reagent consumption of 2.2 μL, demonstrating its potential applications in convenient high-throughput bioanalysis and bioassays.
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Affiliation(s)
- Kai Liu
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China
| | - Yang Pan
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China
| | - Xiaojie Wang
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China
| | - Tuo Ma
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China
| | - Baoqing Li
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China.
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China.
| | - Jiaru Chu
- Department of Precision Machinery & Precision Instrumentation, University of Science & Technology of China, Hefei, 230027, Anhui, China
- Key Laboratory of Precision Scientific Instrumentation of Anhui Higher Education Institutes, University of Science and Technology of China, Hefei, 230027, Anhui, China
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16
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Yim SS, Wang HH. Exploiting interbacterial antagonism for microbiome engineering. CURRENT OPINION IN BIOMEDICAL ENGINEERING 2021; 19:100307. [PMID: 37982076 PMCID: PMC10655851 DOI: 10.1016/j.cobme.2021.100307] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Interbacterial antagonism can significantly impact microbiome assembly and stability and can potentially be exploited to modulate microbes and microbial communities in diverse environments, ranging from natural habitats to industrial bioreactors. Here we highlight key mechanisms of interspecies antagonism that rely on direct cell-to-cell contact or diffusion of secreted biomolecules, and discuss recent advances to provide altered function and specificities for microbiome engineering. We further outline the use of ecological design principles based on antagonistic interactions for bottom-up assembly of synthetic microbial communities. Manipulating microbial communities through these negative interactions will be critical for understanding complex microbiome processes and properties and developing new applications of microbiome engineering.
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Affiliation(s)
- Sung Sun Yim
- Department of Systems Biology, Columbia University, New York, NY, USA
| | - Harris H. Wang
- Department of Systems Biology, Columbia University, New York, NY, USA
- Department of Pathology and Cell Biology, Columbia University, New York, NY, USA
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17
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Mandsberg NK, Højgaard J, Joshi SS, Nielsen LH, Boisen A, Hwu ET. Consumer-Grade Inkjet Printer for Versatile and Precise Chemical Deposition. ACS OMEGA 2021; 6:7786-7794. [PMID: 33778290 PMCID: PMC7992151 DOI: 10.1021/acsomega.1c00282] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/16/2021] [Accepted: 02/19/2021] [Indexed: 06/12/2023]
Abstract
Two simple, mechanical modifications are introduced to a consumer-grade inkjet printer to greatly increase its applicability. First, roller isolation bars are added to unlock multiple prints on the same substrate without smearing. This enables printing on a diverse set of substrates (rigid, elastic, liquid, granular, and sticky). Second, spring loadings are added to increase the print precision up to 50-fold, which facilitates alignment to a pre-patterned substrate or between successive prints. Utilizing the expanded substrate compatibility and the increased print precision, we explore tunable loading of drug combinations into microdevices. This loading method has promising applications within point-of-care personalized medication. Furthermore, we show how inkjet printers with array-type printheads (in our case, 6 x 90 nozzles) allow for quasi-simultaneous loading of reactants into microfluidic systems. The ability to do a quasi-simultaneous introduction of chemicals may be particularly useful for studies of rapidly reacting systems of three or more reactants, where premature introduction can shift the initial conditions from the intended. We believe that our modifications to an affordable system will inspire researchers to explore the possibilities of inkjet printing even further.
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Affiliation(s)
- Nikolaj Kofoed Mandsberg
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
| | - Jesper Højgaard
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
| | - Shreya Suhas Joshi
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
| | - Line Hagner Nielsen
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
| | - Anja Boisen
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
| | - En Te Hwu
- Center for Intelligent Drug
Delivery and Sensing Using Microcontainers and Nanomechanics (IDUN),
Department of Health Technology, Technical
University of Denmark, 2800 Kgs Lyngby, Denmark
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