Related papers: Image-based physical characterization of magnetota…
Understanding how biological communities respond to environmental changes is a key challenge in ecology and ecosystem management. The apparent decline of insect populations necessitates more biomonitoring but the time-consuming sorting and…
Progress in molecular methods has enabled the monitoring of bacterial populations in time. Nevertheless, understanding community dynamics and its links with ecosystem functioning remains challenging due to the tremendous diversity of…
Many motile microorganisms react to environmental light cues with a variety of motility responses guiding cells towards better conditions for survival and growth. The use of spatial light modulators could help to elucidate the mechanisms of…
Active fluids made of powered suspended particles have unique abilities to self-generate flow and density structures. How such dynamics can be triggered and leveraged by external cues is a key question of both biological and applied…
Synthetic microbiomes offer new possibilities for modulating microbiota, to address the barriers in multidtug resistance (MDR) research. We present a Bayesian optimization approach to enable efficient searching over the space of synthetic…
How microorganisms respond to and interact with their environment can vary significantly from individual to individual, which can have important microbiological and ecological implications. However, most microscopy techniques can only…
The human microbiome is a complex ecological system, and describing its structure and function under different environmental conditions is important from both basic scientific and medical perspectives. Viewed through a biostatistical lens,…
The microbial community composition in the human gut has a profound effect on human health. This observation has lead to extensive use of microbiome therapies, including over-the-counter ``probiotic" treatments intended to alter the…
Marine microalgae are widespread in the ocean and play a crucial role in the ecosystem. Automatic identification and location of marine microalgae in microscopy images would help establish marine ecological environment monitoring and water…
Magnetotactic bacteria (MTB) are of significant interest for biophysical applications, particularly in cancer treatment. The biomineralized magnetosomes produced by these bacteria are high-quality magnetic nanoparticles that form chains…
The microaerophilic magnetotactic bacterium Magnetospirillum gryphiswaldense swims along magnetic field lines using a single flagellum at each cell pole. It is believed that this magnetotactic behavior enables cells to seek optimal oxygen…
Magnetotaxis is a well known phenomenon in swimming microorganisms which sense magnetic fields e.g. by incorporating crystalline magnetosomes. In designing artificial active matter with tunable dynamics, external magnetic fields can provide…
Active matter is a new class of material, intrinsically out-of equilibrium with intriguing properties. So far, the recent upsurge of studies has mostly focused on the spontaneous behavior of these systems --in the absence of external…
We present a thorough theoretical analysis of the magnetic torque on microfabricated elements with dimensions in the range of 100 to 500 {\mu}m and magneto-somes of magnetotactic bacteria of a few {\mu}m length. We derive simple equations…
We present a fast, high-throughput method for characterizing the motility of microorganisms in 3D based on standard imaging microscopy. Instead of tracking individual cells, we analyse the spatio-temporal fluctuations of the intensity in…
Modeling living systems at the collective scale can be very challenging because the individual constituents can themselves be complex and the respective interactions between the constituents are not fully understood. With the advent of high…
We propose and study a model of hypothetical magnetosensitive ionic channels which are long thought to be a possible candidate to explain the influence of weak magnetic fields on living organisms ranging from magnetotactic bacteria to…
Automated recognition and classification of bacteria species from microscopic images have significant importance in clinical microbiology. Bacteria classification is usually carried out manually by biologists using different shapes and…
The smooth muscle bundles (SMBs) in the bladder act as contractile elements which enable the bladder to void effectively. In contrast to skeletal muscles, these bundles are not highly aligned, rather they are oriented more heterogeneously…
We study the transport of bacteria in a porous media modeled by a square channel containing one cylindrical obstacle via molecular dynamics simulations coupled to a lattice Boltzmann fluid. Our bacteria model is a rod-shaped rigid body…