Thin Tissue Slices Research Articles

Quantification of elemental composition of the thin tissue slices with the commercial benchtop micro-XRF spectrometer

In this paper we present the scheme for quantification of local elemental composition by micro-XRF in thin tissue slices. The proposed procedure involves simultaneous determination of the geometry factor and the primary spectrum distribution from the measurement of set of the thin film calibrations standards. The procedure has been applied for the commercial M4 Tornado Plus spectrometer by Bruker. The quantification of the thin tissue slice has been performed as well.

High throughput screening of airway constriction in mouse lung slices

The level of airway constriction in thin slices of lung tissue is highly variable. Owing to the labor-intensive nature of these experiments, determining the number of airways to be analyzed in order to allocate a reliable value of constriction in one mouse is challenging. Herein, a new automated device for physiology and image analysis was used to facilitate high throughput screening of airway constriction in lung slices. Airway constriction was first quantified in slices of lungs from male BALB/c mice with and without experimental asthma that were inflated with agarose through the trachea or trans-parenchymal injections. Random sampling simulations were then conducted to determine the number of airways required per mouse to quantify maximal constriction. The constriction of 45 ± 12 airways per mouse in 32 mice were analyzed. Mean maximal constriction was 37.4 ± 32.0%. The agarose inflating technique did not affect the methacholine response. However, the methacholine constriction was affected by experimental asthma (p = 0.003), shifting the methacholine concentration–response curve to the right, indicating a decreased sensitivity. Simulations then predicted that approximately 35, 16 and 29 airways per mouse are needed to quantify the maximal constriction mean, standard deviation and coefficient of variation, respectively; these numbers varying between mice and with experimental asthma.

In vivo label-free tissue histology through a microstructured imaging window.

Tissue histopathology, based on hematoxylin and eosin (H&E) staining of thin tissue slices, is the gold standard for the evaluation of the immune reaction to the implant of a biomaterial. It is based on lengthy and costly procedures that do not allow longitudinal studies. The use of non-linear excitation microscopy in vivo, largely label-free, has the potential to overcome these limitations. With this purpose, we develop and validate an implantable microstructured device for the non-linear excitation microscopy assessment of the immune reaction to an implanted biomaterial label-free. The microstructured device, shaped as a matrix of regular 3D lattices, is obtained by two-photon laser polymerization. It is subsequently implanted in the chorioallantoic membrane (CAM) of embryonated chicken eggs for 7 days to act as an intrinsic 3D reference frame for cell counting and identification. The histological analysis based on H&E images of the tissue sections sampled around the implanted microstructures is compared to non-linear excitation and confocal images to build a cell atlas that correlates the histological observations to the label-free images. In this way, we can quantify the number of cells recruited in the tissue reconstituted in the microstructures and identify granulocytes on label-free images within and outside the microstructures. Collagen and microvessels are also identified by means of second-harmonic generation and autofluorescence imaging. The analysis indicates that the tissue reaction to implanted microstructures is like the one typical of CAM healing after injury, without a massive foreign body reaction. This opens the path to the use of similar microstructures coupled to a biomaterial, to image in vivo the regenerating interface between a tissue and a biomaterial with label-free non-linear excitation microscopy. This promises to be a transformative approach, alternative to conventional histopathology, for the bioengineering and the validation of biomaterials in in vivo longitudinal studies.

Application of Innovative 3D Pathological Tactic for Diagnosis of Organizing Pneumonia.

The pathological diagnosis of organizing pneumonia (OP) relies on conventional traditional histopathological analysis, which involves examining stained thin slices of tissue. However, this method often results in suboptimal diagnostic objectivity due to low tissue sampling rates. This study aimed to assess the efficacy of tissue-clearing and infiltration-enhanced 3D spatial imaging techniques for elucidating the tissue architecture of OP. H&E staining, 3D imaging technology, and AI-assisted analysis were employed to facilitate the construction of a multidimensional tissue architecture using six OP patient specimens procured from Taichung Veterans General Hospital, enabling a comprehensive morphological assessment. Specimens underwent H&E staining and exhibited Masson bodies and varying degrees of interstitial fibrosis. Furthermore, we conducted a comprehensive study of 3D images of the pulmonary histology reconstructed through an in-depth pathology analysis, and uncovered heterogenous distributions of fibrosis and Masson bodies across different depths of the OP specimens. Integrating 3D imaging for OP with AI-assisted analysis permits a substantially enhanced visualization and delineation of complex histological pulmonary disorders such as OP. The synergistic application of conventional histopathology with novel 3D imaging elucidated the sophisticated spatial configuration of OP, revealing the presence of Masson bodies and interstitial fibrosis. This methodology transcends conventional pathology constraints and paves the way for advanced algorithmic approaches to enhance precision in the detection, classification, and clinical management of lung pathologies.

Determination of Krogh Coefficient for Oxygen Consumption Measurement from Thin Slices of Rodent Cortical Tissue Using a Fick's Law Model of Diffusion.

To investigate the impact of experimental interventions on living biological tissue, ex vivo rodent brain slices are often used as a more controllable alternative to a live animal model. However, for meaningful results, the biological sample must be known to be healthy and viable. One of the gold-standard approaches to identifying tissue viability status is to measure the rate of tissue oxygen consumption under specific controlled conditions. Here, we work with thin (400 μm) slices of mouse cortical brain tissue which are sustained by a steady flow of oxygenated artificial cerebralspinal fluid (aCSF) at room temperature. To quantify tissue oxygen consumption (Q), we measure oxygen partial pressure (pO2) as a function of probe depth. The curvature of the obtained parabolic (or parabola-like) pO2 profiles can be used to extract Q, providing one knows the Krogh coefficient Kt, for the tissue. The oxygen trends are well described by a Fick's law diffusion-consumption model developed by Ivanova and Simeonov, and expressed in terms of ratio (Q/K), being the rate of oxygen consumption in tissue divided by the Krogh coefficient (oxygen diffusivity × oxygen solubility) for tissue. If the fluid immediately adjacent to the tissue can be assumed to be stationary (i.e., nonflowing), one may invoke conservation of oxygen flux K·(∂P/∂x) across the interface to deduce (Kt/Kf), the ratio of Krogh coefficients for tissue and fluid. Using published interpolation formulas for the effect of salt content and temperature on oxygen diffusivity and solubility for pure water, we estimate Kf, the Krogh coefficient for aCSF, and hence deduce the Kt coefficient for tissue. We distinguish experimental uncertainty from natural biological variability by using pairs of repeated profiles at the same tissue location. We report a dimensionless Krogh ratio (Kt/Kf)=0.562±0.088 (mean ± SD), corresponding to a Krogh coefficient Kt=(1.29±0.21)×10-14 mol/(m·s·Pa) for mouse cortical tissue at room temperature, but acknowledge the experimental limitation of being unable to verify that the fluid boundary layer is truly stationary. We compare our results with those reported in the literature, and comment on the challenges and ambiguities caused by the extensive use of 'biologically convenient' non-SI units for tissue Krogh coefficient.

Better phasor calibration in turbid media using Monte Carlo simulations.

Phasor analysis has gained acceptance as a simpler yet quantitative alternative to nonlinear fitting approaches for in vitro fluorescence lifetime imaging microscopy (FLIM) and is incorporated into many commercial and research analysis software. FLIM typically involves cell monolayers, thin tissue slices or transparent spheroids, which do not introduce significant light scattering or absorption effects. As a result, the recorded fluorescence decay is a mere convolution product of the instrument response function and the emitted decay. However, the situation is more complex when in tissue phantoms or live animals observed with macroscopic fluorescence lifetime imaging (MFLI) systems, where those effects become noticeable. In particular, when using the phasor approach to analyze MFLI data, they result in an inadequacy to properly calibrate the phasor of measured decays using the simple approach used in FLIM. Namely, a discrepancy between observed calibrated phasor locations and those expected is generally observed in the simple cases where single-exponential decays are known to occur, no matter what calibration approach is used. This calls for a way to take these effects into account to obtain more quantitative results in this general situation of fluorescence in turbid media.

Label-free Assessment of the Nascent State of Rat Non-alcoholic Fatty Liver Disease Using Spontaneous Raman Microscopy.

Spontaneous Raman microscopy, which can detect molecular vibrations in cells and tissues, could be a useful tool for the label-free assessment of non-alcoholic fatty liver disease (NAFLD). However, it is unclear whether it can be used to evaluate the nascent state of NAFLD. To address this, we analyzed the Raman spectra of rat liver tissues in the nascent state of NAFLD upon excitation at 532 nm. Raman and histochemical analyses were performed of liver tissues from rats fed a high-fat, high-cholesterol diet (HFHCD). Raman microscopic imaging analysis of formalin-fixed thin tissue slices showed hepatic steatosis, as revealed by the Raman band at 2,854 cm−1, whereas lipid droplets were not detectable by hematoxylin-eosin staining of images until 3 days after feeding a HFHCD. Raman signals of retinol at 1,588 cm−1 emitted from hepatic stellate cells were distributed alongside hepatic cords; the retinol content rapidly decreased after feeding a HFHCD, whereas hepatic lipid content increased inversely. Raman microscopic analysis of the surface of fresh ex vivo livers enabled early detection of lipid accumulation after a 1-day feeding a HFHCD. In conclusion, spontaneous Raman microscopy can be applied to the label-free evaluation of the nascent state of NAFLD liver tissues.

A Fast and Efficient Decellularization Method for Tissue Slices.

The study and use of decellularized extracellular matrix (dECM) in tissue engineering, regenerative medicine, and pathophysiology have become more prevalent in recent years. To obtain dECM, numerous decellularization procedures have been developed for the entire organ or tissue blocks, employing either perfusion of decellularizing agents through the tissue's vessels or submersion of large sections in decellularizing solutions. However, none of these protocols are suitable for thin tissue slices (less than 100 µm) or allow side-by-side analysis of native and dECM consecutive tissue slices. Here, we present a detailed protocol to decellularize tissue sections while maintaining the sample attached to a glass slide. This protocol consists of consecutive washes and incubations of simple decellularizing agents: ultrapure water, sodium deoxycholate (SD) 2%, and deoxyribonuclease I solution 0.3 mg/mL (DNase I). This novel method has been optimized for a faster decellularization time (2-3 h) and a better correlation between dECM properties and native tissue-specific biomarkers, and has been tested in different types of tissues and species, obtaining similar results. Furthermore, this method can be used for scarce and valuable samples such as clinical biopsies. This protocol was validated in: Front Bioeng Biotechnol (2022), DOI: 10.3389/fbioe.2022.832178.

Vibrational imaging for label-free cancer diagnosis and classification

The first key step in the detection and classification of most cancers is the microscopic assessment of thin tissue slices, the so-called “histopathology”. This procedure is still nowadays, similarly to 150 years ago, performed by staining the tissue with two or more dyes able to bind to specific biological structures, followed by visual inspection by the histopathologist under the bright-field optical microscope. This approach involves long manual procedures which can be accompanied by human errors, subjectivity, and lack of reproducibility. Vibrational microscopies are capable of directly providing chemical and biomolecular information on tissues, identifying them through their fingerprint vibrational spectra without the need of staining and, thus, constitute powerful tools for label-free and objective tumour identification. The two most established techniques, spontaneous Raman microscopy and infrared absorption microscopy, suffer, respectively, from long acquisition times and low spatial resolution. These limitations can be overcome by novel and more technically demanding approaches such coherent Raman scattering and photothermal infrared microscopy. Here we present an extended overview of the major advances in the field of vibrational imaging for cancer diagnosis. We start from a detailed description of the different technologies and then present examples of their applications to tissue imaging for cancer assessment. We critically compare the presented approaches, discussing the steps required to bring these powerful technologies from bench to bedside.

Quantification of gold nanoparticles in histologically thin tissue slices using TXRF

AbstractThe promise of gold nanoparticles (AuNPs) in cancer applications remains an active area of research. The assessment of tumoral uptake can provide valuable insights into their intended efficacy. Total X‐ray reflection fluorescence (TXRF) spectroscopy offers low detection limits coupled with direct quantification through internal standardization. These features enable TXRF to measure uptake of AuNPs in the presence of organic matrix. In this work, we demonstrate TXRF's ability to directly quantify AuNP concentration in slices of tissue. Bovine liver was cut into 5 μm thin slices, and 10 nm reference material AuNPs were deposited either above or below the tissue. The tissue slice was then spiked with a lanthanum (La) internal standard. In order to extend the investigation to homogenous samples, a TOPAS‐based simulation toolkit was used to model Au‐containing tissue. Additionally, scanning electron microscopy (SEM) was used to examine the distribution of the Au and La on the tissue slices, revealing elemental uniformity on the tissue surface. The experimental and simulation results revealed nearly 100% quantification accuracy of AuNPs in all permutations of sample configuration—making TXRF a viable option for assessment of tumoral AuNP uptake with minimal sample preparation.

Human cerebral vascular amyloid contains both antiparallel and parallel in-register Aβ40 fibrils

The accumulation of fibrillar amyloid-β (Aβ) peptides alongside or within the cerebral vasculature is the hallmark of cerebral amyloid angiopathy (CAA). This condition commonly co-occurs with Alzheimer's disease (AD) and leads to cerebral microbleeds, intracranial hemorrhages, and stroke. CAA also occurs sporadically in an age-dependent fashion and can be accelerated by the presence of familial Aβ mutant peptides. Recent studies using Fourier transform infrared (FTIR) spectroscopy of vascular Aβ fibrils derived from rodents containing the double E22Q/D23N mutations indicated the presence of a novel antiparallel β-sheet structure. To address whether this structure is associated solely with the familial mutations or is a common feature of CAA, we propagated Aβ fibrils from human brain vascular tissue of patients diagnosed with nonfamilial CAA. Aβ fibrils were isolated from cerebral blood vessels using laser capture microdissection in which specific amyloid deposits were removed from thin slices of the brain tissue. Transmission electron microscopy revealed that these deposits were organized into a tight meshwork of fibrils, which FTIR measurements showed could serve as seeds to propagate the growth of Aβ40 fibrils for structural studies. Solid-state NMR measurements of the fibrils propagated from vascular amyloid showed they contained a mixture of parallel, in-register, and antiparallel β-sheet structures. The presence of fibrils with antiparallel structure derived from vascular amyloid is distinct from the typical parallel, in-register β-sheet structure that appears in fibrils derived from parenchymal amyloid in AD. These observations reveal that different microenvironments influence the structures of Aβ fibrils in the human brain.

Investigating the impact of internal standard heterogeneity on gold quantification with total reflection X‐ray fluorescence: A simulation study

Total reflection X‐ray Fluorescence (TXRF) is a powerful analytical tool with high detection sensitivity that has been applied to a variety of biological samples. While its ability to quantify gold nanoparticles (AuNPs) in cancer cells has been demonstrated, the extension to tissue slices would be of interest. To that end, the preservation of the underlying tissue microstructure requires samples to be measured as microtome slices. In this form, internal standard spiking is warranted. Thus, it is important to examine the impact of sample heterogeneity on the TXRF's quantification accuracy. To address these questions, a TXRF spectrometer along with 5 μm thin heterogeneous and homogeneous samples were modeled using TOPAS. The simulation model generated TXRF spectra which were then analyzed to obtain recovery rates of Au in both sample types. The results showed near 100% recovery regardless of the elemental spatial distribution in the samples. This provides insights into the quantification potential for AuNPs inside tumors that are histologically processed into thin tissue slices. In addition, this simulation toolkit provides the first practical means of modeling TXRF spectroscopy which will hopefully be of use to the TXRF community.

Deep-learning-assisted microscopy with ultraviolet surface excitation for rapid slide-free histological imaging.

Histopathological examination of tissue sections is the gold standard for disease diagnosis. However, the conventional histopathology workflow requires lengthy and laborious sample preparation to obtain thin tissue slices, causing about a one-week delay to generate an accurate diagnostic report. Recently, microscopy with ultraviolet surface excitation (MUSE), a rapid and slide-free imaging technique, has been developed to image fresh and thick tissues with specific molecular contrast. Here, we propose to apply an unsupervised generative adversarial network framework to translate colorful MUSE images into Deep-MUSE images that highly resemble hematoxylin and eosin staining, allowing easy adaptation by pathologists. By eliminating the needs of all sample processing steps (except staining), a MUSE image with subcellular resolution for a typical brain biopsy (5 mm × 5 mm) can be acquired in 5 minutes, which is further translated into a Deep-MUSE image in 40 seconds, simplifying the standard histopathology workflow dramatically and providing histological images intraoperatively.

Towards Development of LED-Based Time-Domain Near-IR Spectroscopy System for Delineating Breast Cancer From Adjacent Normal Tissue

Currently, the breast cancer diagnosis is performed by microscopic examination of thin slices of ex-vivo biopsy tissue by the pathologist. In this paper, a robust and affordable LED-based time-domain near-infrared spectroscopy system (Spectro-IRTDx) is proposed to further aid the pathologist for rapid and accurate breast cancer diagnosis. The measurements are performed on formalin-fixed cancerous tissues (invasive ductal carcinoma) and their adjacent normal tissues obtained from N = 6 patients. The mean effective attenuation coefficient ( μ <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><i>eff</i></sub> ) for cancerous tissue is found to be 5.41 and 2.41 times higher than adjacent normal tissue, with good statistical significance (p = 0.00216) while operating at 850 nm and 940 nm, respectively. The average detected peak voltage (DPV) for adjacent normal tissue is found to be 3.44 and 4.16 times higher than cancerous tissue, with good statistical significance (p = 0.00216) while operating at 850 nm and 940 nm, respectively. The mean time of flight for cancerous tissue was 46 ns and 4 ns higher than the adjacent normal tissue while operating at 850 nm and 940 nm, respectively, with good statistical significance (p = 0.00216) at 850 nm. The obtained results establish the proof-of-concept of the time-domain near-infrared spectroscopy for rapid diagnosis of core biopsy tissues.

Effect of focal spot scanning method in agarose gel and chicken breast on heating efficiency in cavitation-enhanced ultrasonic heating

High-intensity focused ultrasound (HIFU) treatment is a non-invasive method of cancer treatment. In a HIFU treatment, ultrasound is focused on a target tumor tissue leading to temperature rise that coagulates the tissue. The treatment has a problem of long treatment time because a tumor is usually larger than the focal spot of HIFU. To reduce the treatment time, cavitation bubbles can be used for accelerating ultrasonic heating. Additionally, the heat conducting away from a focal spot can be utilized by properly scanning the focus. In this study, three sequences of scanning the focus to form six foci were compared by observing cavitation bubbles and measuring temperature rise in an excised chicken breast tissue and an agarose gel as well as a thin slice of tissue sandwiched between agarose gels. The results showed that there were differences in the behavior of bubbles and the efficient sequence between the tissue and the gel.

Super-resolution imaging of flat-mounted whole mouse cornea

Super-resolution microscopy revolutionized biomedical research with significantly improved imaging resolution down to the molecular scale. To date, only limited studies reported multi-color super-resolution imaging of thin tissue slices mainly because of unavailable staining protocols and incompatible imaging techniques. Here, we show the first super-resolution imaging of flat-mounted whole mouse cornea using single-molecule localization microscopy (SMLM). We optimized immunofluorescence staining protocols for β-Tubulin, Vimentin, Peroxisome marker (PMP70), and Histone-H4 in whole mouse corneas. Using the optimized staining protocols, we imaged these four intracellular protein structures in the epithelium and endothelium layers of flat-mounted mouse corneas. We also achieved simultaneous two-color spectroscopic SMLM (sSMLM) imaging of β-Tubulin and Histone-H4 in corneal endothelial cells. The spatial localization precision of sSMLM in these studies was around 20-nm. This work sets the stage for investigating multiple intracellular alterations in corneal diseases at a nanoscopic resolution using whole corneal flat-mount beyond cell cultures.

Heart Slices to Model Cardiac Physiology.

Translational research in the cardiovascular field is hampered by the unavailability of cardiac models that can recapitulate organ-level physiology of the myocardium. Outside the body, cardiac tissue undergoes rapid dedifferentiation and maladaptation in culture. There is an ever-growing demand for preclinical platforms that allow for accurate, standardized, long-term, and rapid drug testing. Heart slices is an emerging technology that solves many of the problems with conventional myocardial culture systems. Heart slices are thin (<400 µm) slices of heart tissue from the adult ventricle. Several recent studies using heart slices have shown their ability to maintain the adult phenotype for prolonged periods in a multi cell-type environment. Here, we review the current status of cardiac culture systems and highlight the unique advantages offered by heart slices in the light of recent efforts in developing physiologically relevant heart slice culture systems.

Probing variations of fibrous structures during the development of breast ductal carcinoma tissues via Mueller matrix imaging.

Recently, we developed a label-free method to probe the microstructural information and optical properties of unstained thin tissue slices based on microscopic Mueller matrix imaging technique. In this paper, we take the microscopic Mueller matrix images of human breast ductal carcinoma tissue samples at different pathological stages, and then calculate and analyze their retardance-related Mueller matrix-derived parameters. To reveal the microstructural features more quantitatively and precisely, we propose a new method based on first-order statistical properties of image to transform the 2D images of Mueller matrix parameters into several statistical feature vectors. We evaluate each statistical feature vector by corresponding classification characteristic value extracted from the statistical features of Mueller matrix parameters images of healthy breast duct tissue samples. The experimental results indicate that these statistical feature vectors of Mueller matrix derived parameters may become powerful tools to quantitatively characterize breast ductal carcinoma tissue samples at different pathological stages. It has the potential to facilitate automating the staging process of breast ductal carcinoma tissue, resulting in the improvement of diagnostic efficiency.

Holotomographic microscopy: A new approach to detect apoptotic cell features.

Holotomographic (HT) microscopy, combines two techniques, holography and tomography, and, in this way, it allows to quantitatively and noninvasively investigate cells and thin tissue slices, by obtaining three-dimensional (3D) images and by monitoring inner morphological changes. HT has indeed two significant advantages: it is label-free and low-energy light passes through the specimen with minimal perturbation. Using quantitative phase imaging with optical diffraction tomography, it can produce 3D images by measuring the refraction index (RI). Therefore, based on RI values, HT can provide structural and chemical cell information, such as dry mass values, morphological changes, or cellular membrane dynamics. In this study, suspended and adherent culture cells have been processed for HT analyses. Some of them have been treated with known apoptotic drugs or pro-oxidant agents and cell response has been investigated both by conventional microscopic approaches and by HT. The ultrastructural and fluorescence images have been compared to those obtained by HT and their congruence has been discussed, with particular attention to apoptotic cell death and on correlated plasma membrane changes. HT appears a valid approach to further characterize well-known apoptotic features such as cell blebbing, chromatin condensation, micronuclei, and apoptotic bodies. Taken together, our data demonstrate that HT appears suitable to highlight suspended or adherent cell behavior under different conditions. In particular, this technique appears an important new tool to distinguish healthy cells from the apoptotic ones, as well as to monitor outer and inner cell changes in a rapid way and with a noninvasive, label-free, approach.

Inductively Coupled RF Coil for Imaging a 40 µm-Thick Histology Sample in a Clinical MRI Scanner

A histology coil is a U-shaped radio-frequency (RF) coil that is designed to provide a high signal-to-noise ratio (SNR) in magnetic resonance imaging (MRI) of microscopically thin samples. In this work, we demonstrate an inductively coupled histology coil that can be easily integrated with a human MRI scanner, providing a simple method to conduct novel, microscopic imaging experiments in a clinical scanner. All experiments were conducted in a 3T whole-body MRI scanner. The coil consisted of a U-shaped copper foil with tuning capacitors shunting the ends of the “U”. This design maximizes the B1-field efficiency and the homogeneity in the coil’s cavity. For inductive coupling, the histology coil was connected to an untuned single-turn pick-up loop via a coaxial cable. A standard 3T receive-only surface coil, connected to the scanner’s standard receive circuitry, was then inductively coupled to the pick-up loop. Separately, the RF pulse transmitted from the MRI body coil inductively drove the histology coil. In gel phantom imaging, we confirmed a higher (threefold) SNR for the histology coil than for the scanner’s standard surface coil, as well as high B1 homogeneity for the histology coil. Gradient echo images of a 40-µm-thick rat brain slice, at an in-plane resolution of 219 × 219 µm2, could be obtained with SNR > 10 (in the cortex) in about 2 hours. Our work demonstrates the feasibility of imaging microscopically thin tissue slices in a clinical MRI scanner using an inductively coupled histology coil. The method can be applied to multi-modality and multi-orientation imaging of ex-vivo and engineered tissue samples.