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Breoni D, Schwarzendahl FJ, Blossey R, Löwen H. A one-dimensional three-state run-and-tumble model with a 'cell cycle'. THE EUROPEAN PHYSICAL JOURNAL. E, SOFT MATTER 2022; 45:83. [PMID: 36258055 PMCID: PMC9579107 DOI: 10.1140/epje/s10189-022-00238-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 10/10/2022] [Indexed: 06/16/2023]
Abstract
We study a one-dimensional three-state run-and-tumble model motivated by the bacterium Caulobacter crescentus which displays a cell cycle between two non-proliferating mobile phases and a proliferating sedentary phase. Our model implements kinetic transitions between the two mobile and one sedentary states described in terms of their number densities, where mobility is allowed with different running speeds in forward and backward direction. We start by analyzing the stationary states of the system and compute the mean and squared-displacements for the distribution of all cells, as well as for the number density of settled cells. The latter displays a surprising super-ballistic scaling [Formula: see text] at early times. Including repulsive and attractive interactions between the mobile cell populations and the settled cells, we explore the stability of the system and employ numerical methods to study structure formation in the fully nonlinear system. We find traveling waves of bacteria, whose occurrence is quantified in a non-equilibrium state diagram.
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Affiliation(s)
- Davide Breoni
- Institut für Theoretische Physik II: Weiche Materie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße 1, 40225, Düsseldorf, Germany.
| | - Fabian Jan Schwarzendahl
- Institut für Theoretische Physik II: Weiche Materie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße 1, 40225, Düsseldorf, Germany
| | - Ralf Blossey
- Unité de Glycobiologie Structurale et Fonctionnelle (UGSF), CNRS UMR8576, University of Lille, 59000, Lille, France
| | - Hartmut Löwen
- Institut für Theoretische Physik II: Weiche Materie, Heinrich-Heine-Universität Düsseldorf, Universitätsstraße 1, 40225, Düsseldorf, Germany
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Bourguignon N, Alessandrello M, Booth R, Lobo CB, Juárez Tomás MS, Cumbal L, Perez M, Bhansali S, Ferrero M, Lerner B. Bioremediation on a chip: A portable microfluidic device for efficient screening of bacterial biofilm with polycyclic aromatic hydrocarbon removal capacity. CHEMOSPHERE 2022; 303:135001. [PMID: 35605730 DOI: 10.1016/j.chemosphere.2022.135001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Revised: 04/11/2022] [Accepted: 05/14/2022] [Indexed: 06/15/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are pollutants of critical environmental and public health concern and their elimination from contaminated sites is significant for the environment. Biodegradation studies have demonstrated the ability of bacteria in biofilm conformation to enhance the biodegradation of pollutants. In this study, we used our newly developed microfluidic platform to explore biofilm development, properties, and applications of fluid flow, as a new technique for screening PAHs-degrading biofilms. The optimization and evaluation of the flow condition in the microchannels were performed through computational fluid dynamics (CFD). The formation of biofilms by PAHs-degrading bacteria Pseudomonas sp. P26 and Gordonia sp. H19, as pure cultures and co-culture, was obtained in the developed microchips. The removal efficiencies of acenaphthene, fluoranthene and pyrene were determined by HPLC. All the biofilms formed in the microchips removed all tested PAHs, with the higher removal percentages observed with the Pseudomonas sp. P26 biofilm (57.4% of acenaphthene, 40.9% of fluoranthene, and 28.9% of pyrene). Pseudomonas sp. P26 biofilm removed these compounds more efficiently than planktonic cultures. This work proved that the conformation of biofilms enhances the removal rate. It also provided a new tool to rapid and low-cost screen for effective pollutant-degrading biofilms.
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Affiliation(s)
- Natalia Bourguignon
- IREN Center, National Technological University, Buenos Aires, 1706, Argentina; Department of Electrical and Computer Engineering, Florida International University, Miami, FL, 33174, USA
| | - Mauricio Alessandrello
- Planta Piloto de Procesos Industriales Microbiológicos (PROIMI, CONICET), Tucumán, Argentina
| | - Ross Booth
- Roche Sequencing Solutions, Inc., 4300 Hacienda Dr, Pleasanton, CA, 94588, USA
| | - Constanza Belén Lobo
- Planta Piloto de Procesos Industriales Microbiológicos (PROIMI, CONICET), Tucumán, Argentina
| | | | - Luis Cumbal
- Centro de Nanociencia y Nanotecnologia, Universidad de Las Fuerzas Armadas ESPE, Av. Gral. Rumiñahui s/n, Sangolqui, P.O. BOX 171-5-231B, Ecuador
| | - Maximiliano Perez
- IREN Center, National Technological University, Buenos Aires, 1706, Argentina; Department of Electrical and Computer Engineering, Florida International University, Miami, FL, 33174, USA
| | - Shekhar Bhansali
- Department of Electrical and Computer Engineering, Florida International University, Miami, FL, 33174, USA
| | - Marcela Ferrero
- YPF Tecnologia, Av. del Petróleo Argentino, 900-1198, Berisso, Buenos Aires, Argentina.
| | - Betiana Lerner
- IREN Center, National Technological University, Buenos Aires, 1706, Argentina; Department of Electrical and Computer Engineering, Florida International University, Miami, FL, 33174, USA.
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Bouvard J, Douarche C, Mergaert P, Auradou H, Moisy F. Direct measurement of the aerotactic response in a bacterial suspension. Phys Rev E 2022; 106:034404. [PMID: 36266851 DOI: 10.1103/physreve.106.034404] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2022] [Accepted: 07/29/2022] [Indexed: 06/16/2023]
Abstract
Aerotaxis is the ability of motile cells to navigate toward oxygen. A key question is the dependence of the aerotactic velocity with the local oxygen concentration c. Here we combine simultaneous bacteria tracking and local oxygen concentration measurements using Ruthenium encapsulated in micelles to characterize the aerotactic response of Burkholderia contaminans, a motile bacterium ubiquitous in the environment. In our experiments, an oxygen gradient is produced by the bacterial respiration in a sealed glass capillary permeable to oxygen at one end, producing a bacterial band traveling toward the oxygen source. We compute the aerotactic response χ(c) both at the population scale, from the drift velocity in the bacterial band, and at the bacterial scale, from the angular modulation of the run times. Both methods are consistent with a power-law χ∝c^{-2}, in good agreement with existing models based on the biochemistry of bacterial membrane receptors.
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Affiliation(s)
- J Bouvard
- Université Paris-Saclay, CNRS, FAST, 91405, Orsay, France
| | - C Douarche
- Université Paris-Saclay, CNRS, FAST, 91405, Orsay, France
| | - P Mergaert
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette, France
| | - H Auradou
- Université Paris-Saclay, CNRS, FAST, 91405, Orsay, France
| | - F Moisy
- Université Paris-Saclay, CNRS, FAST, 91405, Orsay, France
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Pérez‐Rodríguez S, García‐Aznar JM, Gonzalo‐Asensio J. Microfluidic devices for studying bacterial taxis, drug testing and biofilm formation. Microb Biotechnol 2022; 15:395-414. [PMID: 33645897 PMCID: PMC8867988 DOI: 10.1111/1751-7915.13775] [Citation(s) in RCA: 28] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Revised: 02/01/2021] [Accepted: 02/02/2021] [Indexed: 12/11/2022] Open
Abstract
Some bacteria have coevolved to establish symbiotic or pathogenic relationships with plants, animals or humans. With human association, the bacteria can cause a variety of diseases. Thus, understanding bacterial phenotypes at the single-cell level is essential to develop beneficial applications. Traditional microbiological techniques have provided great knowledge about these organisms; however, they have also shown limitations, such as difficulties in culturing some bacteria, the heterogeneity of bacterial populations or difficulties in recreating some physical or biological conditions. Microfluidics is an emerging technique that complements current biological assays. Since microfluidics works with micrometric volumes, it allows fine-tuning control of the test conditions. Moreover, it allows the recruitment of three-dimensional (3D) conditions, in which several processes can be integrated and gradients can be generated, thus imitating physiological 3D environments. Here, we review some key microfluidic-based studies describing the effects of different microenvironmental conditions on bacterial response, biofilm formation and antimicrobial resistance. For this aim, we present different studies classified into six groups according to the design of the microfluidic device: (i) linear channels, (ii) mixing channels, (iii) multiple floors, (iv) porous devices, (v) topographic devices and (vi) droplet microfluidics. Hence, we highlight the potential and possibilities of using microfluidic-based technology to study bacterial phenotypes in comparison with traditional methodologies.
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Affiliation(s)
- Sandra Pérez‐Rodríguez
- Aragón Institute of Engineering Research (I3A)Department of Mechanical EngineeringUniversity of ZaragozaZaragoza50018Spain
- Multiscale in Mechanical and Biological Engineering (M2BE)IIS‐AragónZaragozaSpain
- Grupo de Genética de MicobacteriasDepartment of Microbiology, Faculty of MedicineUniversity of ZaragozaIIS AragónZaragoza50009Spain
| | - José Manuel García‐Aznar
- Aragón Institute of Engineering Research (I3A)Department of Mechanical EngineeringUniversity of ZaragozaZaragoza50018Spain
- Multiscale in Mechanical and Biological Engineering (M2BE)IIS‐AragónZaragozaSpain
| | - Jesús Gonzalo‐Asensio
- Grupo de Genética de MicobacteriasDepartment of Microbiology, Faculty of MedicineUniversity of ZaragozaIIS AragónZaragoza50009Spain
- CIBER Enfermedades RespiratoriasInstituto de Salud Carlos IIIMadrid28029Spain
- Institute for Biocomputation and Physics of Complex Systems (BIFI)Zaragoza50018Spain
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