Particle tracking of nanoparticles in soft matter

Rose, Katie A.; Molaei, Mehdi; Boyle, Michael J.; Lee, Daeyeon; Crocker, John C.; Composto, Russell J.

doi:10.1063/5.0003322

Cited by 63 publications

(81 citation statements)

References 277 publications

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“…Another cognate advancement that has important implications for force measurements is the recent advance in algorithms and the application of machine learning to particle tracking and recognition (Helgadottir et al, 2019;Fränzl and Cichos, 2020;Rose et al, 2020). Packages such as DeepTrack (Helgadottir et al, 2019(Helgadottir et al, , 2020 allow for fast accurate tracking and classification of particle mixtures.…”

Section: Force Measurementmentioning

confidence: 99%

Optical Tweezers Exploring Neuroscience

Lenton

Scott

Rubinsztein‐Dunlop

et al. 2020

Front. Bioeng. Biotechnol.

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Over the past decade, optical tweezers (OT) have been increasingly used in neuroscience for studies of molecules and neuronal dynamics, as well as for the study of model organisms as a whole. Compared to other areas of biology, it has taken much longer for OT to become an established tool in neuroscience. This is, in part, due to the complexity of the brain and the inherent difficulties in trapping individual molecules or manipulating cells located deep within biological tissue. Recent advances in OT, as well as parallel developments in imaging and adaptive optics, have significantly extended the capabilities of OT. In this review, we describe how OT became an established tool in neuroscience and we elaborate on possible future directions for the field. Rather than covering all applications of OT to neurons or related proteins and molecules, we focus our discussions on studies that provide crucial information to neuroscience, such as neuron dynamics, growth, and communication, as these studies have revealed meaningful information and provide direction for the field into the future.

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Section: Force Measurementmentioning

confidence: 99%

Optical Tweezers Exploring Neuroscience

Lenton

Scott

Rubinsztein‐Dunlop

et al. 2020

Front. Bioeng. Biotechnol.

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“…In parallel, high-resolution fluorescence based single particle tracking (SPT) techniques have been widely used in the field of cell biology as a means of unravelling diffusion dynamics of biomolecules and tracers within cells, at nanometric spatial resolution (Kusumi et al, 2005;Mandal et al, 2016;Wirtz, 2009). Many fluorescent probes are available right now, where typically the probe is attached to the molecule of interest, such as an organelle, virus-like particles or a receptor to track the individual dynamics (Alcor et al, 2009;Rose et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Microwell array based opto-electrochemical detections revealing co-adaptation of rheological properties and oxygen metabolism in budding yeast

Vajrala

Alric

Laborde

et al. 2021

Preprint

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Microdevices composed of microwell arrays integrating nanoelectrodes (OptoElecWell) were developed to achieve dual high-resolution optical and electrochemical detections on single Saccharomyces cerevisiae budding yeast cells. Each array consists in 1.6 × 105 microwells of 8 µm diameter and 5 µm height, with a platinum nanoring electrode for in-situ electrochemistry, all integrated on a transparent thin wafer for further high-resolution live-cell imaging. After optimizing the filling rate, 32% of cells were effectively trapped within microwells. This allowed to analyse S. cerevisiae metabolisms associated with basal respiration while simultaneously measuring optically other cellular parameters. In this study, we focused on the impact of glucose concentration on respiration and intracellular rheology. We found that while oxygen uptake rate decreased with increasing glucose concentration, diffusion of tracer nanoparticles increased. Our OptoElecWell based respiration methodology provided similar results compared to the commercial gold-standard Seahorse XF analyser, while using 20 times lesser biological samples, paving the way to achieve single cell metabolomics. In addition, it facilitates an optical route to monitor the contents within single cells. The proposed device, in combination with the dual detection analysis, opens up new avenues for measuring cellular metabolism, and relating it to various cellular physiological and rheological indicators at single cell level.

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“…Methods for particle tracking generally fit into one of the following two categories: (i) methods that measure the ensemble average dynamics of particles – such as fluorescence recovery after photobleaching (FRAP), fluorescence correlation spectroscopy (FCS) or dynamic light scattering (DLS) –, and (ii) methods that are able to discriminate single particle movement. Despite enhanced signal due to bulk emission combined with high temporal resolution provided by ensemble methods, these are known for overlooking important information regarding heterogeneous particle populations or media [7]. Multiple particle tracking (MPT) is a well-established technique that enables tracing individual molecules, particulates or even microorganisms at a high spatiotemporal resolution in complex biological systems such as the intracellular environment, extracellular matrix or biological fluids ( e.g ., blood or mucus) [8].…”

Section: Introductionmentioning

confidence: 99%

MPTHub: an open-source software for characterizing the transport of particles in biorelevant media

Gabriel

Almeida

Avelar

et al. 2021

Preprint

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The study of the transport of particles in different environments plays an essential role in understanding interactions with humans and other living organisms. Importantly, obtained data can be directly used for multiple applications in fields such as fundamental biology, toxicology or medicine. Particle movement in biorelevant media can be readily monitored using microscopy and converted into time-resolved trajectories using freely available tracking software. However, translation into tangible and meaningful parameters is time-consuming and not always intuitive. Thus, we developed a new software - MPTHub - as an open-access, stand-alone, user-friendly tool for the rapid and reliable analysis of particle trajectories extracted from video microscopy. The software was programmed using Python and allowed to import and analyze trajectory data, and export relevant data such as individual and ensemble time-averaged mean square displacements and effective diffusivity, and anomalous transport exponent. Data processing was reliable, fast (total processing time of less than 10 sec) and required minimal memory resources (up to a maximum of around 150 MB in RAM). Demonstration of software applicability was conducted by studying the transport of different polystyrene nanoparticles (100-200 nm) in mucus surrogates. Overall, MPTHub represents a freely available software tool that can be used even by unexperienced users for studying the transport of particles in biorelevant media.

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Particle tracking of nanoparticles in soft matter

Cited by 63 publications

References 277 publications

Optical Tweezers Exploring Neuroscience

Optical Tweezers Exploring Neuroscience

Microwell array based opto-electrochemical detections revealing co-adaptation of rheological properties and oxygen metabolism in budding yeast

MPTHub: an open-source software for characterizing the transport of particles in biorelevant media

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