Publications related to Bacterial growth

High-resolution imaging and analysis of the intestinal bacterial load of Caenorhabditis elegans during early adulthood

We study the presence within the worm Caenorhabditis elegans (C. elegans) of a fluorescent strain of the worm's bacterial food (Escherichia coli (E. coli) OP50) during early adulthood. Use of a microfluidic chip based on a thin glass coverslip substrate al ...

ROYAL SOC CHEMISTRY2023

Event-driven acquisition for content-enriched microscopy

Suliana Manley, Dora Mahecic, Willi Leopold Stepp, Chen Zhang, Martin Weigert, Juliette Griffie

Event-driven acquisition uses neural-network-based recognition of specific biological events to trigger switching between slow and fast super-resolution imaging, enriching the capture of interesting events with high spatiotemporal resolution. A common goal ...

2022

Bacterial matrix metalloproteases and serine proteases contribute to the extra-host inactivation of enteroviruses in lake water

Tamar Kohn, Virginie Bachmann

Enteroviruses are ubiquitous contaminants of surface waters, yet their fate in presence of microbial congeners is poorly understood. In this work, we investigated the inactivation of Echovirus-11 (E11) and Coxsackievirus-A9 (CVA9) by bacteria isolated from ...

2022

Viral diversity is linked to bacterial community composition in alpine stream biofilms

Tom Ian Battin, Hannes Markus Peter, Paraskevi Pramateftaki, Meriem Bekliz

Biofilms play pivotal roles in fluvial ecosystems, yet virtually nothing is known about viruses in these communities. Leveraging an optimized sample-to-sequence pipeline, we studied the spatiotemporal turnover of dsDNA viruses associated with stream biofil ...

Springer2022

Natural competence of the pathogen Acinetobacter baumannii: an elusive phenomenon

Nina Vesel

Natural competence for transformation is an important driver of horizontal DNA exchange between different organisms. This can result in accumulation of dangerous genetic features, such as antibiotic resistance genes, in a single organism. One example of an ...

EPFL2022

Microfluidic Platforms for the Study of Bacterial Metabolism and Antimicrobial Susceptibility Testing

Yang Liu

Fast spreading antimicrobial resistance (AMR) is an emerging major public health issue. New therapeutic and diagnostic paradigms must be implemented to counteract this evolution. In this respect, fast antimicrobial susceptibility testing (AST) plays an imp ...

EPFL2021

SODIS potential: A novel parameter to assess the suitability of solar water disinfection worldwide

César Pulgarin, Stefanos Giannakis, Sofia Samoili, Giulio Farinelli

This paper studies the worldwide applicability of solar water disinfection (SODIS) technology through a novel parameter: the SODIS potential. This parameter is defined as the inverse ratio between the required exposure time to achieve a four log disinfecti ...

ELSEVIER SCIENCE SA2021

Identification of Allobaculum mucolyticum as a novel human intestinal mucin degrader

Guido Van Mierlo

The human gut microbiota plays a central role in intestinal health and disease. Yet, many of its bacterial constituents are functionally still largely unexplored. A crucial prerequisite for bacterial survival and proliferation is the creation and/or exploi ...

2021

Antimicrobial susceptibility testing by measuring bacterial oxygen consumption on an integrated platform

Martinus Gijs, Thomas Lehnert, Yang Liu

Cellular respiration is a fundamental feature of metabolic activity and oxygen consumption can be considered as a reliable indicator of bacterial aerobic respiration, including for facultative anaerobic bacteria like E. coli. Addressing the emerging global ...

ROYAL SOC CHEMISTRY2021

A biphasic growth model for cell pole elongation in mycobacteria

Georg Fantner, John McKinney, Haig Alexander Eskandarian, Mélanie Thérèse Marie Hannebelle, Chiara Toniolo, Joëlle Xiao Yuan Ven, Gaëlle Madeleine Vuaridel

Mycobacteria grow by inserting new cell wall material in discrete zones at the cell poles. This pattern implies that polar growth zones must be assembled de novo at each division, but the mechanisms that control the initiation of new pole growth are unknow ...

Nature Research2020

Mechanistic insights into bacterial metabolic reprogramming from omics-integrated genome-scale models

Noushin Hadadi, Vikash Kumar Pandey, Anush Chiappino-Pepe, Merten Morales, Florence Mehl

Understanding the adaptive responses of individual bacterial strains is crucial for microbiome engineering approaches that introduce new functionalities into complex microbiomes, such as xenobiotic compound metabolism for soil bioremediation. Adaptation re ...

NATURE PUBLISHING GROUP2020

A novel proposition for a citrate-modified photo-Fenton process against bacterial contamination of microalgae cultures

César Pulgarin, Christian Ludwig, Adrian Pulgarin, Stefanos Giannakis, Dominik Refardt

This study reports the first attempt of a citrate-modified photo-Fenton (PF) application at near-neutral pH (7.5–8.5, tap water) to disinfect Escherichia coli (as model bacterium), in Chlorella vulgaris cultures. The conditions are aimed towards bacterial ...

2020

Fast antimicrobial susceptibility testing onEscherichia coliby metabolic heat nanocalorimetry

Martinus Gijs, Thomas Lehnert, Yang Liu

Fast spreading of antimicrobial resistance is now considered a major global health threat. New technologies are required, enabling rapid diagnostics of bacterial infection combined with fast antimicrobial susceptibility testing (AST) for evaluating the eff ...

2020

Overlapping and essential roles for molecular and mechanical mechanisms in mycobacterial cell division

Georg Fantner, John McKinney, Adrian Pascal Nievergelt, Pascal Damian Odermatt, Haig Alexander Eskandarian, Mélanie Thérèse Marie Hannebelle

Mechanisms to control cell division are essential for cell proliferation and survival. Bacterial cell growth and division require the coordinated activity of peptidoglycan synthases and hydrolytic enzymes to maintain mechanical integrity of the cell wall. ...

2020

Mass Spectrometry Methods for Bacterial Infection Diagnosis and Cancer Analysis

Yingdi Zhu

Matrix-assisted laser desorption/ionisation (MALDI) time-of-flight (TOF) mass spectrometry is an important analytical tool in chemistry and biology. Bearing the advantages of easy-to-use, fast measurements and relatively simple data interpretation, MALDI-T ...

EPFL2019

Kinetic modeling of lag times during photo-induced inactivation of E. coli in sunlit surface waters: Unraveling the pathways of exogenous action

César Pulgarin, Stefanos Giannakis, Jean Arnaud Troyon

This work presents a kinetic analysis of the exogenous photo-induced disinfection of E. coli in natural waters. Herein, the inactivation of bacteria by light and photo-generated transient species, i.e., hydroxyl radical (HO center dot), excited triplet sta ...

PERGAMON-ELSEVIER SCIENCE LTD2019

Photoinduced disinfection in sunlit natural waters: Measurement of the second order inactivation rate constants between E-coli and photogenerated transient species

César Pulgarin, Stefanos Giannakis, Jean Arnaud Troyon

This work uncovers the implications of the estimation of exogenous inactivation rates for E. coli after the initial lag phase, and presents a strategy for the determination of the second-order inactivation rate constants (k2nd) of these bacteria with relev ...

PERGAMON-ELSEVIER SCIENCE LTD2018

The double-edged toxins : how Spiroplasma Ribosome-Inactivating Proteins affect Drosophila melanogaster life history traits

Mario Gonzalo Garcia Arraez

Many insect species are associated with endosymbiotic bacteria which have the particularity of living within host tissues. Endosymbionts benefit from this stable and nutritious environment, while providing ecological advantages to their host, such as prote ...

EPFL2018

Hyperplectonemes: A Higher Order Compact and Dynamic DNA Self-Organization

Giovanni Dietler, Paolo De Los Rios, Giovanni Longo, Fabrizio Benedetti, Aleksandre Japaridze

Bacterial chromosome has a compact structure that dynamically changes its shape in response to bacterial growth rate and growth phase. Determining how chromatin remains accessible to DNA binding proteins, and transcription machinery is crucial to understan ...

American Chemical Society2017

Essentiality of mmpL3 and impact of its silencing on Mycobacterium tuberculosis gene expression

Stewart Cole, Andrej Benjak

MmpL3 is an inner membrane transporter of Mycobacterium tuberculosis responsible for the export of trehalose momomycolate, a precursor of the mycobacterial outer membrane component trehalose dimycolate (TDM), as well as mycolic acids bound to arabinogalact ...

Nature Research2017