1
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Sturm A, Jóźwiak G, Verge MP, Munch L, Cathomen G, Vocat A, Luraschi-Eggemann A, Orlando C, Fromm K, Delarze E, Świątkowski M, Wielgoszewski G, Totu RM, García-Castillo M, Delfino A, Tagini F, Kasas S, Lass-Flörl C, Gstir R, Cantón R, Greub G, Cichocka D. Accurate and rapid antibiotic susceptibility testing using a machine learning-assisted nanomotion technology platform. Nat Commun 2024; 15:2037. [PMID: 38499536 PMCID: PMC10948838 DOI: 10.1038/s41467-024-46213-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2023] [Accepted: 02/16/2024] [Indexed: 03/20/2024] Open
Abstract
Antimicrobial resistance (AMR) is a major public health threat, reducing treatment options for infected patients. AMR is promoted by a lack of access to rapid antibiotic susceptibility tests (ASTs). Accelerated ASTs can identify effective antibiotics for treatment in a timely and informed manner. We describe a rapid growth-independent phenotypic AST that uses a nanomotion technology platform to measure bacterial vibrations. Machine learning techniques are applied to analyze a large dataset encompassing 2762 individual nanomotion recordings from 1180 spiked positive blood culture samples covering 364 Escherichia coli and Klebsiella pneumoniae isolates exposed to cephalosporins and fluoroquinolones. The training performances of the different classification models achieve between 90.5 and 100% accuracy. Independent testing of the AST on 223 strains, including in clinical setting, correctly predict susceptibility and resistance with accuracies between 89.5% and 98.9%. The study shows the potential of this nanomotion platform for future bacterial phenotype delineation.
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Affiliation(s)
- Alexander Sturm
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland.
| | | | - Marta Pla Verge
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - Laura Munch
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - Gino Cathomen
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - Anthony Vocat
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | | | - Clara Orlando
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - Katja Fromm
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - Eric Delarze
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | | | | | - Roxana M Totu
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
| | - María García-Castillo
- Hospital Universitario Ramón y Cajal, Instituto Ramón y Cajal de Investigación Sanitaria (IRYCIS), Carretera de Colmenar Km 9,1, 28034, Madrid, Spain
| | - Alexandre Delfino
- Institute of Microbiology, Lausanne University Hospital (CHUV) & University of Lausanne (UNIL), 1011, Lausanne, Switzerland
| | - Florian Tagini
- Institute of Microbiology, Lausanne University Hospital (CHUV) & University of Lausanne (UNIL), 1011, Lausanne, Switzerland
| | - Sandor Kasas
- Laboratory of Biological Electron Microscopy (LBEM), École Polytechnique Fédérale de Lausanne (EPFL) and University of Lausanne (UNIL), 1015, Lausanne, Switzerland
- Centre Universitaire Romand de Médecine Légale (UFAM) & Université de Lausanne (UNIL), 1015, Lausanne, Switzerland
| | - Cornelia Lass-Flörl
- Institut für Hygiene und Medizinische Mikrobiologie, Medizinische Universität Innsbruck, Schöpfstraße 41, 6020, Innsbruck, Austria
| | - Ronald Gstir
- Institut für Hygiene und Medizinische Mikrobiologie, Medizinische Universität Innsbruck, Schöpfstraße 41, 6020, Innsbruck, Austria
| | - Rafael Cantón
- Hospital Universitario Ramón y Cajal, Instituto Ramón y Cajal de Investigación Sanitaria (IRYCIS), Carretera de Colmenar Km 9,1, 28034, Madrid, Spain
- CIBER de Enfermedades Infecciosas (CIBERINFEC). Instituto de Salud Carlos III. Sinesio Delgado 4, 28029, Madrid, Spain
| | - Gilbert Greub
- Institute of Microbiology, Lausanne University Hospital (CHUV) & University of Lausanne (UNIL), 1011, Lausanne, Switzerland
| | - Danuta Cichocka
- Resistell AG, Hofackerstrasse 40, 4132, Muttenz, Switzerland
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2
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Zhou J, Liao C, Zou M, Villalba MI, Xiong C, Zhao C, Venturelli L, Liu D, Kohler AC, Sekatskii SK, Dietler G, Wang Y, Kasas S. An Optical Fiber-Based Nanomotion Sensor for Rapid Antibiotic and Antifungal Susceptibility Tests. NANO LETTERS 2024; 24:2980-2988. [PMID: 38311846 PMCID: PMC10941246 DOI: 10.1021/acs.nanolett.3c03781] [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: 10/03/2023] [Revised: 01/24/2024] [Accepted: 01/29/2024] [Indexed: 02/06/2024]
Abstract
The emergence of antibiotic and antifungal resistant microorganisms represents nowadays a major public health issue that might push humanity into a post-antibiotic/antifungal era. One of the approaches to avoid such a catastrophe is to advance rapid antibiotic and antifungal susceptibility tests. In this study, we present a compact, optical fiber-based nanomotion sensor to achieve this goal by monitoring the dynamic nanoscale oscillation of a cantilever related to microorganism viability. High detection sensitivity was achieved that was attributed to the flexible two-photon polymerized cantilever with a spring constant of 0.3 N/m. This nanomotion device showed an excellent performance in the susceptibility tests of Escherichia coli and Candida albicans with a fast response in a time frame of minutes. As a proof-of-concept, with the simplicity of use and the potential of parallelization, our innovative sensor is anticipated to be an interesting candidate for future rapid antibiotic and antifungal susceptibility tests and other biomedical applications.
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Affiliation(s)
- Jiangtao Zhou
- Laboratory
of Physics of Living Matter (LPMV), École
Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
- Department
of Health Sciences and Technology, ETH Zurich, 8092 Zurich, Switzerland
| | - Changrui Liao
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Mengqiang Zou
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Maria Ines Villalba
- Laboratory
of Biological Electron Microscopy (LBEM), École Polytechnique Fédérale de Lausanne (EPFL),
and Department of Fundamental Biology, Faculty of Biology and Medicine,
University of Lausanne (UNIL), CH-1015 Lausanne, Switzerland
| | - Cong Xiong
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Cong Zhao
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Leonardo Venturelli
- Laboratory
of Physics of Living Matter (LPMV), École
Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Dan Liu
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Anne-Celine Kohler
- Laboratory
of Physics of Living Matter (LPMV), École
Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Sergey K. Sekatskii
- Laboratory
of Physics of Living Matter (LPMV), École
Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
- Laboratory
of Biological Electron Microscopy (LBEM), École Polytechnique Fédérale de Lausanne (EPFL),
and Department of Fundamental Biology, Faculty of Biology and Medicine,
University of Lausanne (UNIL), CH-1015 Lausanne, Switzerland
| | - Giovanni Dietler
- Laboratory
of Physics of Living Matter (LPMV), École
Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
| | - Yiping Wang
- Guangdong
and Hong Kong Joint Research Centre for Optical Fiber Sensors and
Key Laboratory of Optoelectronic Devices and Systems of the Ministry
of Education and Guangdong Province, College of Physics and Optoelectronic
Engineering, Shenzhen University, Shenzhen 518060, China
| | - Sandor Kasas
- Laboratory
of Biological Electron Microscopy (LBEM), École Polytechnique Fédérale de Lausanne (EPFL),
and Department of Fundamental Biology, Faculty of Biology and Medicine,
University of Lausanne (UNIL), CH-1015 Lausanne, Switzerland
- International
Joint Research Group VUB-EPFL BioNanotechnology & NanoMedicine, 1050 Brussels, Belgium
- Centre
Universitaire Romand de Médecine Légale, UFAM, Université de Lausanne, 1015 Lausanne, Switzerland
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3
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Villalba MI, Gligorovski V, Rahi SJ, Willaert RG, Kasas S. A simplified version of rapid susceptibility testing of bacteria and yeasts using optical nanomotion detection. Front Microbiol 2024; 15:1328923. [PMID: 38516011 PMCID: PMC10956355 DOI: 10.3389/fmicb.2024.1328923] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2023] [Accepted: 02/20/2024] [Indexed: 03/23/2024] Open
Abstract
We present a novel optical nanomotion-based rapid antibiotic and antifungal susceptibility test. The technique consisted of studying the effects of antibiotics or antifungals on the nanometric scale displacements of bacteria or yeasts to assess their sensitivity or resistance to drugs. The technique relies on a traditional optical microscope, a video camera, and custom-made image analysis software. It provides reliable results in a time frame of 2-4 h and can be applied to motile, non-motile, fast, and slowly growing microorganisms. Due to its extreme simplicity and low cost, the technique can be easily implemented in laboratories and medical centers in developing countries.
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Affiliation(s)
- Maria I. Villalba
- Laboratory of Biological Electron Microscopy (LBEM), Ecole Polytechnique Fédérale de Lausanne (EPFL), Université de Lausanne, Lausanne, Switzerland
- International Joint Research Group VUB-EPFL BioNanotechnology & NanoMedicine (NANO), Brussels, Switzerland
| | - Vojislav Gligorovski
- Laboratory of the Physics of Biological Systems (LPBS), Institute of Physics, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Sahand J. Rahi
- Laboratory of the Physics of Biological Systems (LPBS), Institute of Physics, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Ronnie G. Willaert
- International Joint Research Group VUB-EPFL BioNanotechnology & NanoMedicine (NANO), Brussels, Switzerland
- Research Group Structural Biology Brussels, Alliance Research Group VUB-UGhent NanoMicrobiology (NAMI), Vrije Universiteit Brussel (VUB), Brussels, Belgium
| | - Sandor Kasas
- Laboratory of Biological Electron Microscopy (LBEM), Ecole Polytechnique Fédérale de Lausanne (EPFL), Université de Lausanne, Lausanne, Switzerland
- International Joint Research Group VUB-EPFL BioNanotechnology & NanoMedicine (NANO), Brussels, Switzerland
- Centre Universitaire Romand de Médecine Légale (UFAM), Université de Lausanne, Lausanne, Switzerland
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Starodubtseva MN, Shkliarava NM, Chelnokova IA, Villalba MI, Krylov AY, Nadyrov EA, Kasas S. Mechanical Properties and Nanomotion of BT-20 and ZR-75 Breast Cancer Cells Studied by Atomic Force Microscopy and Optical Nanomotion Detection Method. Cells 2023; 12:2362. [PMID: 37830577 PMCID: PMC10572077 DOI: 10.3390/cells12192362] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2023] [Revised: 09/22/2023] [Accepted: 09/23/2023] [Indexed: 10/14/2023] Open
Abstract
Cells of two molecular genetic types of breast cancer-hormone-dependent breast cancer (ZR-75 cell line) and triple-negative breast cancer (BT-20 cell line)-were studied using atomic force microscopy and an optical nanomotion detection method. Using the Peak Force QNM and Force Volume AFM modes, we revealed the unique patterns of the dependence of Young's modulus on the indentation depth for two cancer cell lines that correlate with the features of the spatial organization of the actin cytoskeleton. Within a 200-300 nm layer just under the cell membrane, BT-20 cells are stiffer than ZR-75 cells, whereas in deeper cell regions, Young's modulus of ZR-75 cells exceeds that of BT-20 cells. Two cancer cell lines also displayed a difference in cell nanomotion dynamics upon exposure to cytochalasin D, a potent actin polymerization inhibitor. The drug strongly modified the nanomotion pattern of BT-20 cells, whereas it had almost no effect on the ZR-75 cells. We are confident that nanomotion monitoring and measurement of the stiffness of cancer cells at various indentation depths deserve further studies to obtain effective predictive parameters for use in clinical practice.
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Affiliation(s)
- Maria N. Starodubtseva
- Department of Medical and Biological Physics, Gomel State Medical University, 246000 Gomel, Belarus
- Laboratory of the Stability of Biological Systems, Radiobiology Institute of NAS of Belarus, 246007 Gomel, Belarus; (N.M.S.); (I.A.C.)
| | - Nastassia M. Shkliarava
- Laboratory of the Stability of Biological Systems, Radiobiology Institute of NAS of Belarus, 246007 Gomel, Belarus; (N.M.S.); (I.A.C.)
| | - Irina A. Chelnokova
- Laboratory of the Stability of Biological Systems, Radiobiology Institute of NAS of Belarus, 246007 Gomel, Belarus; (N.M.S.); (I.A.C.)
| | - María I. Villalba
- Laboratory of Biological Electron Microscopy, Ecole Polytechnique Fédérale de Lausanne (EPFL), University of Lausanne (UNIL), 1015 Lausanne, Switzerland; (M.I.V.); (S.K.)
- Centre Universitaire Romand de Médecine Légale, UFAM, University of Lausanne, 1015 Lausanne, Switzerland
| | - Andrei Yu. Krylov
- Department of Forensic Medicine, Institute of Further Training and Retraining of the Personnel, State Forensic Examination Committee of the Republic of Belarus, 220033 Minsk, Belarus;
| | - Eldar A. Nadyrov
- Department of Histology, Cytology and Embryology, Gomel State Medical University, 246000 Gomel, Belarus;
| | - Sandor Kasas
- Laboratory of Biological Electron Microscopy, Ecole Polytechnique Fédérale de Lausanne (EPFL), University of Lausanne (UNIL), 1015 Lausanne, Switzerland; (M.I.V.); (S.K.)
- Centre Universitaire Romand de Médecine Légale, UFAM, University of Lausanne, 1015 Lausanne, Switzerland
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5
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Walther-Antonio M, Schulze-Makuch D. The Hypothesis of a "Living Pulse" in Cells. Life (Basel) 2023; 13:1506. [PMID: 37511881 PMCID: PMC10381587 DOI: 10.3390/life13071506] [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: 06/05/2023] [Revised: 06/26/2023] [Accepted: 06/30/2023] [Indexed: 07/30/2023] Open
Abstract
Motility is a great biosignature and its pattern is characteristic for specific microbes. However, motion does also occur within the cell by the myriads of ongoing processes within the cell and the exchange of gases and nutrients with the outside environment. Here, we propose that the sum of these processes in a microbial cell is equivalent to a pulse in complex organisms and suggest a first approach to measure the "living pulse" in microorganisms. We emphasize that if a "living pulse" can be shown to exist, it would have far-reaching applications, such as for finding life in extreme environments on Earth and in extraterrestrial locations, as well as making sure that life is not present where it should not be, such as during medical procedures and in the food processing industry.
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Affiliation(s)
- Marina Walther-Antonio
- Department of Surgery, Division of Surgical Research, Mayo Clinic, Rochester, MN 55905, USA
- Department of Obstetrics and Gynecology, Mayo Clinic, Rochester, MN 55905, USA
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
| | - Dirk Schulze-Makuch
- Astrobiology Group, Center of Astronomy and Astrophysics, Technical University, 10623 Berlin, Germany
- German Research Centre for Geosciences (GFZ), Section Geomicrobiology, 14473 Potsdam, Germany
- Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries, 16775 Stechlin, Germany
- School of the Environment, Washington State University, Pullman, WA 99164, USA
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6
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Pleskova SN, Lazarenko EV, Sudakova IS, Kriukov RN, Bezrukov NA. A New Method for Express Detection of Antibiotic Resistance. APPL BIOCHEM MICRO+ 2023. [DOI: 10.1134/s0003683823010076] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/28/2023]
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7
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Parmar P, Villalba MI, Horii Huber AS, Kalauzi A, Bartolić D, Radotić K, Willaert RG, MacFabe DF, Kasas S. Mitochondrial nanomotion measured by optical microscopy. Front Microbiol 2023; 14:1133773. [PMID: 37032884 PMCID: PMC10078959 DOI: 10.3389/fmicb.2023.1133773] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Accepted: 03/01/2023] [Indexed: 04/11/2023] Open
Abstract
Nanometric scale size oscillations seem to be a fundamental feature of all living organisms on Earth. Their detection usually requires complex and very sensitive devices. However, some recent studies demonstrated that very simple optical microscopes and dedicated image processing software can also fulfill this task. This novel technique, termed as optical nanomotion detection (ONMD), was recently successfully used on yeast cells to conduct rapid antifungal sensitivity tests. In this study, we demonstrate that the ONMD method can monitor motile sub-cellular organelles, such as mitochondria. Here, mitochondrial isolates (from HEK 293 T and Jurkat cells) undergo predictable motility when viewed by ONMD and triggered by mitochondrial toxins, citric acid intermediates, and dietary and bacterial fermentation products (short-chain fatty acids) at various doses and durations. The technique has superior advantages compared to classical methods since it is rapid, possesses a single organelle sensitivity, and is label- and attachment-free.
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Affiliation(s)
- Priyanka Parmar
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL) and University of Lausanne (UNIL), Lausanne, Switzerland
| | - Maria Ines Villalba
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL) and University of Lausanne (UNIL), Lausanne, Switzerland
- International Joint Research Group VUB-EPFL NanoBiotechnology and NanoMedicine (NANO), Vrije Universiteit Brussel and École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- *Correspondence: Maria I. Villalba, ; Sandor Kasas,
| | - Alexandre Seiji Horii Huber
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL) and University of Lausanne (UNIL), Lausanne, Switzerland
| | - Aleksandar Kalauzi
- Institute for Multidisciplinary Research, University of Belgrade, Belgrade, Serbia
| | - Dragana Bartolić
- Institute for Multidisciplinary Research, University of Belgrade, Belgrade, Serbia
| | - Ksenija Radotić
- Institute for Multidisciplinary Research, University of Belgrade, Belgrade, Serbia
| | - Ronnie Guy Willaert
- International Joint Research Group VUB-EPFL NanoBiotechnology and NanoMedicine (NANO), Vrije Universiteit Brussel and École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Alliance Research Group VUB-UGent NanoMicrobiology (NAMI), Research Group Structural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium
| | - Derrick F. MacFabe
- Kilee Patchell-Evans Autism Research Group, London, ON, Canada
- Department of Microbiology, Faculty of Medicine, Centre of Healthy Eating and Food Innovation (HEFI), Maastricht University, Maastricht, Netherlands
| | - Sandor Kasas
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL) and University of Lausanne (UNIL), Lausanne, Switzerland
- International Joint Research Group VUB-EPFL NanoBiotechnology and NanoMedicine (NANO), Vrije Universiteit Brussel and École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Centre Universitaire Romand de Médecine Légale, UFAM, University of Lausanne, Lausanne, Switzerland
- *Correspondence: Maria I. Villalba, ; Sandor Kasas,
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8
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Starodubtseva MN, Chelnokova IA, Shkliarava NM, Villalba MI, Tapalski DV, Kasas S, Willaert RG. Modulation of the nanoscale motion rate of Candida albicans by X-rays. Front Microbiol 2023; 14:1133027. [PMID: 37025638 PMCID: PMC10070863 DOI: 10.3389/fmicb.2023.1133027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2022] [Accepted: 03/06/2023] [Indexed: 04/08/2023] Open
Abstract
Introduction Patients undergoing cancer treatment by radiation therapy commonly develop Candida albicans infections (candidiasis). Such infections are generally treated by antifungals that unfortunately also induce numerous secondary effects in the patient. Additional to the effect on the immune system, ionizing radiation influences the vital activity of C. albicans cells themselves; however, the reaction of C. albicans to ionizing radiation acting simultaneously with antifungals is much less well documented. In this study, we explored the effects of ionizing radiation and an antifungal drug and their combined effect on C. albicans. Methods The study essentially relied on a novel technique, referred to as optical nanomotion detection (ONMD) that monitors the viability and metabolic activity of the yeast cells in a label and attachment-free manner. Results and discussion Our findings demonstrate that after exposure to X-ray radiation alone or in combination with fluconazole, low-frequency nanoscale oscillations of whole cells are suppressed and the nanomotion rate depends on the phase of the cell cycle, absorbed dose, fluconazole concentration, and post-irradiation period. In a further development, the ONMD method can help in rapidly determining the sensitivity of C. albicans to antifungals and the individual concentration of antifungals in cancer patients undergoing radiation therapy.
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Affiliation(s)
- Maria N. Starodubtseva
- Department of Medical and Biological Physics, Gomel State Medical University, Gomel, Belarus
- Laboratory of Bionanoscopy, Institute of Radiobiology of NAS of Belarus, Gomel, Belarus
- *Correspondence: Maria N. Starodubtseva,
| | - Irina A. Chelnokova
- Laboratory of Bionanoscopy, Institute of Radiobiology of NAS of Belarus, Gomel, Belarus
| | | | - María Inés Villalba
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL), University of Lausanne (UNIL), Lausanne, Switzerland
| | - Dmitry V. Tapalski
- Department of Microbiology, Gomel State Medical University, Gomel, Belarus
| | - Sandor Kasas
- Laboratory of Biological Electron Microscopy, École Polytechnique Fédérale de Lausanne (EPFL), University of Lausanne (UNIL), Lausanne, Switzerland
- Centre Universitaire Romand de Médecine Légale, Unité Facultaire d’Anatomie et de Morphologie (UFAM), University of Lausanne (UNIL), Lausanne, Switzerland
- International Joint Research Group VUB-EPFL NanoBiotechnology & NanoMedicine (NANO), Vrije Universiteit Brussel and École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Ronnie G. Willaert
- International Joint Research Group VUB-EPFL NanoBiotechnology & NanoMedicine (NANO), Vrije Universiteit Brussel and École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- Alliance Research Group VUB-UGent NanoMicrobiology (NAMI), Research Group Structural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium
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Rosłoń IE, Japaridze A, Steeneken PG, Dekker C, Alijani F. Probing nanomotion of single bacteria with graphene drums. NATURE NANOTECHNOLOGY 2022; 17:637-642. [PMID: 35437320 DOI: 10.1038/s41565-022-01111-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Accepted: 03/02/2022] [Indexed: 06/14/2023]
Abstract
Motion is a key characteristic of every form of life1. Even at the microscale, it has been reported that colonies of bacteria can generate nanomotion on mechanical cantilevers2, but the origin of these nanoscale vibrations has remained unresolved3,4. Here, we present a new technique using drums made of ultrathin bilayer graphene, where the nanomotion of single bacteria can be measured in its aqueous growth environment. A single Escherichia coli cell is found to generate random oscillations with amplitudes of up to 60 nm, exerting forces of up to 6 nN to its environment. Using mutant strains that differ by single gene deletions that affect motility, we are able to pinpoint the bacterial flagella as the main source of nanomotion. By real-time tracing of changes in nanomotion on administering antibiotics, we demonstrate that graphene drums can perform antibiotic susceptibility testing with single-cell sensitivity. These findings deepen our understanding of processes underlying cellular dynamics, and pave the way towards high-throughput and parallelized rapid screening of the effectiveness of antibiotics in bacterial infections with graphene devices.
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Affiliation(s)
- Irek E Rosłoń
- Delft University of Technology, Delft, the Netherlands
| | | | | | - Cees Dekker
- Delft University of Technology, Delft, the Netherlands
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10
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Yang Y, Gress H, Ekinci KL. Measurement of the low-frequency charge noise of bacteria. Phys Rev E 2022; 105:064413. [PMID: 35854507 DOI: 10.1103/physreve.105.064413] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2021] [Accepted: 06/08/2022] [Indexed: 11/07/2022]
Abstract
Bacteria meticulously regulate their intracellular ion concentrations and create ionic concentration gradients across the bacterial membrane. These ionic concentration gradients provide free energy for many cellular processes and are maintained by transmembrane transport. Given the physical dimensions of a bacterium and the stochasticity in transmembrane transport, intracellular ion concentrations and hence the charge state of a bacterium are bound to fluctuate. Here we investigate the charge noise of hundreds of nonmotile bacteria by combining electrical measurement techniques from condensed matter physics with microfluidics. In our experiments, bacteria in a microchannel generate charge density fluctuations in the embedding electrolyte due to random influx and efflux of ions. Detected as electrical resistance noise, these charge density fluctuations display a power spectral density proportional to 1/f^{2} for frequencies 0.05Hz≤f≤1Hz. Fits to a simple noise model suggest that the steady-state charge of a bacterium fluctuates by ±1.30×10^{6}e(e≈1.60×10^{-19}C), indicating that bacterial ion homeostasis is highly dynamic and dominated by strong charge noise. The rms charge noise can then be used to estimate the fluctuations in the membrane potential; however, the estimates are unreliable due to our limited understanding of the intracellular concentration gradients.
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Affiliation(s)
- Yichao Yang
- Department of Mechanical Engineering, Division of Materials Science and Engineering, and the Photonics Center, Boston University, Boston, Massachusetts 02215, USA
| | - Hagen Gress
- Department of Mechanical Engineering, Division of Materials Science and Engineering, and the Photonics Center, Boston University, Boston, Massachusetts 02215, USA
| | - Kamil L Ekinci
- Department of Mechanical Engineering, Division of Materials Science and Engineering, and the Photonics Center, Boston University, Boston, Massachusetts 02215, USA
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The Dynamics of Single-Cell Nanomotion Behaviour of Saccharomyces cerevisiae in a Microfluidic Chip for Rapid Antifungal Susceptibility Testing. FERMENTATION 2022. [DOI: 10.3390/fermentation8050195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
The fast emergence of multi-resistant pathogenic yeasts is caused by the extensive—and sometimes unnecessary—use of broad-spectrum antimicrobial drugs. To rationalise the use of broad-spectrum antifungals, it is essential to have a rapid and sensitive system to identify the most appropriate drug. Here, we developed a microfluidic chip to apply the recently developed optical nanomotion detection (ONMD) method as a rapid antifungal susceptibility test. The microfluidic chip contains no-flow yeast imaging chambers in which the growth medium can be replaced by an antifungal solution without disturbing the nanomotion of the cells in the imaging chamber. This allows for recording the cellular nanomotion of the same cells at regular time intervals of a few minutes before and throughout the treatment with an antifungal. Hence, the real-time response of individual cells to a killing compound can be quantified. In this way, this killing rate provides a new measure to rapidly assess the susceptibility of a specific antifungal. It also permits the determination of the ratio of antifungal resistant versus sensitive cells in a population.
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Pleskova SN, Fomichev OI, Kriukov RN, Sudakova IS. Nanovibrations of Atomic Force Microscope Cantilevers as a System for Real Time Detection of Antibiotic Resistance in Bacteria. Biophysics (Nagoya-shi) 2021. [DOI: 10.1134/s0006350921060154] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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