Article
Optics
N. R. Subedi, S. Yaraghi, P. S. Jung, G. Kukal, A. G. McDonald, D. N. Christodoulides, A. E. Vasdekis
Summary: Research shows that digitally scanned Airy beams can improve the throughput rates in Raman imaging by an order of magnitude compared to traditional diffraction-limited beams, achieving high contrast and 1 micron axial resolution for three-dimensional imaging of microparticles. This method also achieves orders of magnitude lower irradiation density than coherent Raman imaging schemes, with faster speed and lower phototoxicity.
Article
Nanoscience & Nanotechnology
Yuan Luo, Ming Lun Tseng, Sunil Vyas, Ting-Yu Hsieh, Jui-Ching Wu, Shang-Yang Chen, Hsiao-Fang Peng, Vin-Cent Su, Tzu-Ting Huang, Hsin Yu Kuo, Cheng Hung Chu, Mu Ku Chen, Jia-Wern Chen, Yu-Chun Chen, Kuang-Yuh Huang, Chieh-Hsiung Kuan, Xu Shi, Hiroaki Misawa, Din Ping Tsai
Summary: Light-sheet fluorescent microscopy (LSFM) is the leading technique for in vivo imaging in the fields of disease, medicine, and cell biology research. This study demonstrates the successful integration of a nanophotonic meta-lens as the illumination component for LSFM, addressing the challenges of high image resolution and optical sectioning. With the meta-lens, the LSFM system complexity is significantly reduced, enabling multicolor fluorescent imaging of live biological specimens with cellular resolution.
Article
Biochemical Research Methods
Nava R. R. Subedi, Sergey Stolyar, Sabrina J. J. Tuson, Christopher J. J. Marx, Andreas E. E. Vasdekis
Summary: Scattering-based light-sheet microscopy has become an important technique in label-free tissue imaging and cellular morphometry, but achieving subcellular resolution remains a challenge. In this study, we addressed this by using time-averaged pseudo-thermalized light-sheet illumination, which allowed us to achieve subcellular resolving power after image deconvolution. We successfully validated this approach by imaging cytosolic carbon depots in yeast and bacteria with increased specificity, no staining, and ultralow irradiance levels. This scattering-based light-sheet microscopy approach has the potential to advance single, live cell imaging by reducing phototoxicity.
JOURNAL OF BIOPHOTONICS
(2023)
Article
Biochemical Research Methods
Petra Paie, Gianmaria Calisesi, Alessia Candeo, Andrea Comi, Federico Sala, Francesco Ceccarelli, Ada De Luigi, Pietro Veglianese, Korbinian Muhlberger, Michael Fokine, Gianluca Valentini, Roberto Osellame, Mark Neil, Andrea Bassi, Francesca Bragheri
Summary: Heterogeneity investigation at the single-cell level is crucial in clinical research. The combination of light sheet fluorescence microscopy and structured illumination microscopy in an optofluidic platform enables high throughput super-resolution imaging, allowing comprehensive evaluation of cellular heterogeneity at high resolution.
Article
Biochemical Research Methods
Kevin M. Dean, Tonmoy Chakraborty, Stephan Daetwyler, Jinlong Lin, Gerard Garrelts, Ons M'Saad, Hannahmariam T. Mekbib, Fabian F. Voigt, Martina Schaettin, Esther T. Stoeckli, Fritjof Helmchen, Joerg Bewersdorf, Reto Fiolka
Summary: The protocol provides detailed instructions for assembling and operating a versatile variant of light-sheet fluorescence microscopy called axially swept light-sheet microscopy (ASLM), which offers an unparalleled combination of field of view, optical resolution, and optical sectioning. It includes information on the working principle, applications, practical tips, part lists, schematics, and software for instrument control of ASLM.
Article
Optics
S. Crombez, P. Leclerc, C. Ray, N. Ducros
Summary: We present a computational light-sheet microscope that enables hyperspectral acquisition at high spectral resolution. By focusing the emitted fluorescence light onto the entrance slit of an imaging spectrometer using a cylindrical lens, and illuminating the specimen with a sequence of structured light patterns to capture the spatial dimension orthogonal to the slit, we demonstrate the feasibility of this method and report the initial results in vivo using hydra specimens labeled with two fluorophores.
Article
Multidisciplinary Sciences
Eliana Battistella, Jan Schniete, Katrina Wesencraft, Juan F. Quintana, Gail McConnell
Summary: By using light-sheet mesoscopy, we have developed a high-speed imaging technique that allows rapid imaging of large biological tissue specimens. This opens up new possibilities for high-content, higher-throughput optical bioimaging at the mesoscale.
Article
Biochemical Research Methods
Xiaopeng Chen, Junyu Ping, Yixuan Sun, Chengqiang Yi, Sijian Liu, Zhefeng Gong, Peng Fei
Summary: By combining a microfluidic chip and deep learning technology, high-resolution 3D imaging of crawling Drosophila larvae was achieved on a regular inverted microscope, enabling the correlation between neural activities and locomotion patterns.
Article
Biochemical Research Methods
Jeonghwan Son, Biagio Mandracchia, Aaron D. Silva Trenkle, Gabriel A. Kwong, Shu Jia
Summary: PLSOM is a portable 3D fluorescence cytometric imaging technique that offers high resolution, high throughput, and compatibility with commonly adopted microfluidic chips. It can be widely used for 3D flow cytometric investigations.
Article
Biochemical Research Methods
Biagio Mandracchia, Jeonghwan Son, Shu Jia
Summary: The study introduced an optofluidic scanning microscopy (OSM) system for super-resolution, live-cell imaging, utilizing multi-focal excitation through the innate fluidic motion of specimens to achieve effective resolution doubling, optical sectioning, and contrast enhancement. The system features minimal instrumental complexity and full compatibility with various microfluidic configurations, offering a promising super-resolution optofluidic paradigm for miniaturization and different levels of integration at the chip scale.
Article
Biochemical Research Methods
Po-Yen Lin, Sheng-Ping L. Hwang, Chi-Hon Lee, Bi-Chang Chen
Summary: By incorporating axicon imaging into LSFM, the depth of field is extended, allowing for faster three-dimensional imaging and capturing dynamic changes in physiological processes.
JOURNAL OF BIOMEDICAL OPTICS
(2021)
Article
Biochemical Research Methods
Roberto Memeo, Petra Paie, Federico Sala, Michele Castriotta, Chiara Guercio, Thomas Vaccari, Roberto Osellame, Andrea Bassi, Francesca Bragheri
Summary: The device can automatically image Drosophila embryos, addressing issues related to the embryos' high ellipticity and thickness that degrade image quality. It utilizes femtosecond laser micromachining technology to fabricate optical and fluidic components on glass substrates.
JOURNAL OF BIOPHOTONICS
(2021)
Article
Optics
Anne Stockhausen, Juan Eduardo Rodriguez-Gatica, Jens Schweihoff, Martin Karl Schwarz, Ulrich Kubitscheck
Summary: Common light sheet microscopy has limitations in balancing light sheet width and usable field of view, which can be overcome by using low-diverging Airy beams. However, Airy beams have side lobes that degrade image contrast. In this study, we constructed an Airy beam light sheet microscope and developed a deep learning image deconvolution method to remove side lobe effects. The combination of Airy beam light sheet microscopy and deep learning deconvolution allows for rapid and high-quality imaging of large volumes.
Article
Biochemical Research Methods
Erick J. Vargas-Ordaz, Sergey Gorelick, Harrison M. York, Bonan Liu, Michelle L. Halls, Senthil Arumugam, Adrian Neild, Alex de Marco, Victor J. Cadarso
Summary: This study integrates light-sheet imaging technology directly into a microfluidic chip, achieving 3D imaging of cells with high resolution, fast imaging speed, and easy integration, demonstrating imaging rates of 120 ms per cell and enabling the extraction of complex cellular phenotypes.
Article
Biochemical Research Methods
Bingying Chen, Bo-Jui Chang, Philippe Roudot, Felix Zhou, Etai Sapoznik, Madeleine Marlar-Pavey, James B. Hayes, Peter T. Brown, Chih-Wei Zeng, Talley Lambert, Jonathan R. Friedman, Chun-Li Zhang, Dylan T. Burnette, Douglas P. Shepherd, Kevin M. Dean, Reto P. Fiolka
Summary: Structured illumination microscopy (SIM) improves the spatial resolution of fluorescence microscopy, while light-sheet fluorescence microscopy (LSFM) avoids exciting out-of-focus fluorescence. By combining SIM with LSFM using oblique plane microscopy, high-resolution three-dimensional imaging with low phototoxicity can be achieved.
Review
Biochemistry & Molecular Biology
Pablo Delgado-Rodriguez, Claire Jordan Brooks, Juan Jose Vaquero, Arrate Munoz-Barrutia
Summary: Light Sheet Fluorescence Microscopy (LSFM) has enabled high-resolution 3D fluorescence imaging of ex vivo samples, opening up new possibilities for studying biological structures, disease diagnostics, and drug efficacy research.
PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY
(2022)
Review
Multidisciplinary Sciences
Blanca Comitre-Mariano, Magdalena Martinez-Garcia, Barbara Garcia-Galvez, Maria Paternina-Die, Manuel Desco, Susanna Carmona, Maria Victoria Gomez-Gaviro
Summary: Fetal microchimerism (FMc) refers to the presence and persistence of fetal cells in maternal tissues. FMc has high multilineage potential, can integrate into maternal tissues, and has functional effects. Studying the existence and characteristics of FMc in maternal tissues is crucial for understanding its impact on women's health.
Article
Biochemical Research Methods
Wuwei Ren, Linlin Li, Jianru Zhang, Markus Vaas, Jan Klohs, Jorge Ripoll, Martin Wolf, Ruiqing Ni, Markus Rudin
Summary: Abnormal accumulation of amyloid-beta peptide (Aβ) in the brain is a major characteristic of Alzheimer's disease. This study demonstrates the feasibility of visualizing Aβ deposition in 3D using a multimodal FMT-MRI strategy, providing potential for detailed characterization of disease status and monitoring of treatment efficacy.
BIOMEDICAL OPTICS EXPRESS
(2022)
Article
Chemistry, Multidisciplinary
Albert Belenguer-Llorens, Carlos Sevilla-Salcedo, Manuel Desco, Maria Luisa Soto-Montenegro, Vanessa Gomez-Verdejo
Summary: In this paper, a novel machine learning model based on Bayesian linear regression is proposed to address the low sample-to-variable ratio common in neuroimaging studies of mental disorders. The model combines feature selection capabilities with a formulation in the dual space to effectively handle neuroimaging data. The proposed algorithm is tested on real MRI data from an animal model of schizophrenia, and the results demonstrate efficient diagnosis prediction and detection of brain areas associated with schizophrenia.
APPLIED SCIENCES-BASEL
(2022)
Review
Biochemistry & Molecular Biology
Nicolas Lamanna-Rama, Diego Romero-Miguel, Manuel Desco, Maria Luisa Soto-Montenegro
Summary: Curcumin, a therapeutic compound with antioxidant, anti-inflammatory, and neuroprotective properties, has been studied in preclinical and clinical trials for psychiatric disorders. While there are some positive results reported, the limited number of trials and protocol heterogeneity make it difficult to draw solid conclusions about the real efficacy of curcumin in psychiatric disorders.
Article
Pharmacology & Pharmacy
Laura Sibley, Andrew D. White, Charlotte Sarfas, Jennie Gullick, Fergus Gleeson, Faye Lanni, Simon Clark, Emma Rayner, Santiago Ferrer-Bazaga, Fatima Ortega-Muro, Laura Alameda, Joaquin Rullas, Veronica Sousa, Marisa Martinez, Inigo Angulo-Barturen, Adolfo Garcia, Juan Jose Vaquero, Henry E. Pertinez, Geraint Davies, Mike Dennis, Ann Williams, Sally Sharpe
Summary: Innovative cross-over study designs were explored in non-human primate studies to evaluate the effectiveness of drug treatments for tuberculosis. The pharmacokinetics of standard tuberculosis drugs were established in macaques, and two studies were conducted to evaluate the pharmacokinetics and pharmacodynamics of different drug combinations using cross-over designs. The studies supported the utility of the non-human primate model for determining the pharmacokinetics and pharmacodynamics of tuberculosis drugs, but further optimization of cross-over study designs is needed.
Article
Engineering, Electrical & Electronic
Selin Aviyente, Alejandro F. Frangi, Erik Meijering, Arrate Munoz-Barrutia, Michael Liebling, Dimitri Van de Ville, Jean-Christophe Olivo-Marin, Jelena Kovacevic, Michael Unser
Summary: The Bio Image and Signal Processing (BISP) Technical Committee (TC) of the IEEE Signal Processing Society (SPS) promotes activities in the field of biomedical image and signal processing. It focuses on areas such as medical and biological imaging, digital pathology, molecular imaging, microscopy, computational imaging, and image analysis. It also includes physiological signal processing, computational biology, and bioinformatics.
IEEE SIGNAL PROCESSING MAGAZINE
(2023)
Article
Chemistry, Analytical
Laura Nicolas-Saenz, Agapito Ledezma, Javier Pascau, Arrate Munoz-Barrutia
Summary: Classifying pixels according to color and segmenting areas are necessary steps in computer vision tasks. The challenges in properly classifying pixels based on color lie in the differences between human perception, linguistic terminology, and digital representation. To address this, a novel method combining geometric analysis, color theory, fuzzy color theory, and multi-label systems was proposed. The method shows accuracy in color analysis and provides a standardized alternative for color naming recognizable by both humans and machines.
Article
Biochemistry & Molecular Biology
Diego Romero-Miguel, Marta Casquero-Veiga, Javier Fernandez, Nicolas Lamanna-Rama, Vanessa Gomez-Rangel, Carlos Galvez-Robleno, Cristina Santa-Marta, Claudio J. Villar, Felipe Lombo, Raquel Abalo, Manuel Desco, Maria Luisa Soto-Montenegro
Summary: N-acetylcysteine (NAC) administration during pregnancy can prevent inflammation-induced brain changes and improve memory deficits in offspring. This suggests a potential role of NAC in modulating the microbiota-gut-brain axis.
Article
Microbiology
J. J. Aguilera-Correa, B. Salinas, M. Gonzalez-Arjona, D. de Pablo, P. Munoz, E. Bouza, M. J. Fernandez Acenero, J. Esteban, M. Desco, L. Cusso
Summary: This study compared structural and molecular imaging techniques to assess disease progression in a mouse model of osteomyelitis. The results showed that FDG-PET imaging was more sensitive than MRI and CT in differentiating between infection and inflammation at early stages.
MICROBIOLOGY SPECTRUM
(2023)
Article
Radiology, Nuclear Medicine & Medical Imaging
F. Arias-Valcayo, P. Galve, Joaquin L. Herraiz, J. J. Vaquero, M. Desco, J. M. Udias
Summary: In this study, a spatially-variant resolution model was incorporated into a real time iterative reconstruction code for accurate imaging of multi-animal PET studies. The spatially variant point spread function (SV-PSF) was estimated using measurements and Monte Carlo simulations, and implemented in a GPU-based reconstruction code. The method showed uniform spatial resolution and superior image quality compared to the uniform PSF model.
BIOMEDICAL PHYSICS & ENGINEERING EXPRESS
(2023)
Article
Chemistry, Multidisciplinary
Fernando Arias-Valcayo, Pablo Galve, Jose Manuel Udias, Juan Jose Vaquero, Manuel Desco, Joaquin L. Herraiz
Summary: This study investigates the optimal conditions and motion compensation methods for preclinical PET studies using awake rats with attached point sources. Monte Carlo simulations and experimental validations are performed to determine the parameters for maximum detectability without compromising image quality.
APPLIED SCIENCES-BASEL
(2023)
Review
Chemistry, Multidisciplinary
Marina Canadas-Ortega, Clara Gomez-Cruz, Juan Jose Vaquero, Arrate Munoz-Barrutia
Summary: The high mortality associated with tuberculosis has led to the urgent need for new therapies and strategies. Microfluidic devices have the potential to improve treatment prescription and advance our understanding of the disease. Additionally, they offer advantages in terms of time and costs, which is especially important for countries with limited resources. This article highlights the applications of microdevices in drug testing, drug susceptibility, basic research, and novel approaches to anti-TB vaccines and organ-on-chip studies.
NANOTECHNOLOGY REVIEWS
(2022)