Partitioning of PFAS to serum, tissues, eggs, and hatchlings of an Australian freshwater turtle

Turtles are a potential sentinel species of aquatic ecosystem health as they inhabit aquatic ecosystems, are long lived, and potentially have high exposure to anthropogenic chemicals via food and water. This study investigated per- and polyfluoroalkyl substances (PFAS) tissue partitioning in female Emydura macquarii macquarii turtle, and the maternal offloading of (PFAS) into eggs and then hatchlings as well as the accumulation of PFAS in male and female Emydura macquarii macquarii serum. Significantly higher levels of perfluorosulfonic acids (PFSAs) and perfluorocarboxylic acids (PFCAs) were measured in the male serum compared to the female turtle serum, whereas perfluoroalkane sulfonamides (FASAs) were significantly higher in the female turtle serum. Perfluorooctane sulfonate (PFOS) was the predominant PFAS in the turtles whereas PFHxA was the predominant PFAS found in the surrounding water. PFHxA was not reported in any turtle tissue or the serum. The short-chain PFSAs and FASAs appeared to be highly associated with blood; long-chain PFSAs and PFCAs were more likely to be associated with tissue. Half of the PFHxS and all the long-chain PFSAs and PFCAs reported in the yolks were transferred into the hatchlings (by mass), suggesting a potential intergenerational effect.

Metabolomic analysis revealed the edible and extended-application potential of specific Polygonum multiflorum tissues

The diverse applications of various tissues of Polygonum Multiflorum (PM) encompass the use of its leaf and bud as tea and vegetables, as well as the utilization of its expanded root tubers and caulis as medicinal substances. However, previous studies in the field of metabolomics have primarily focused on the medicinal properties of PM. In order to investigate the potential for broader applications of other tissues within PM, a metabolomic analysis was conducted for the first time using UPLC-Q-TOF-MS/MS on 15 fresh PM tissues. A total of 231 compounds, including newly discovered compounds such as torosachrysone and dihydro-trihydroxystilbene acid derivatives, were identified within PM. Through clustering analysis, the PM tissues were categorized into edible and medicinal parts, with edible tissues exhibiting higher levels of phenolic acids, organic acids, and flavonoids, while the accumulation of quinones, dianthrones, stilbenes, and xanthones was observed in medicinal tissues. Comparative analysis demonstrated the potential application of discarded tissues, such as unexpanded root tuber (an industrial alternative to expanded root tuber) and young caulis (with edible potential). Moreover, the quantification of representative metabolites indicated that flowers and buds contained significant amounts of flavonoids or phenolic acids, suggesting their potential as functional food. Additionally, the edible portion of PM exhibited a high content of quercitrin, ranging from 0.59 to 10.37 mg/g. These findings serve as a valuable point of reference for the expanded utilization of PM tissues, thereby mitigating resource waste in this plant.

The evolutionary adaptation of shrimp hemocyanin subtypes and the consequences on their structure and functions

Hemocyanin is the main respiratory protein of arthropods and is formed by hexameric and/or oligomeric subunits. Due to changes in the living environment and gene rearrangement, various hemocyanin subtypes and subunits evolved in crustaceans. This paper reviews the various hemocyanin subtypes and isoforms in shrimp and analyses published genomic data of sixteen hemocyanin family genes from Litopenaeus vannamei to explore the evolution of hemocyanin genes, subunits, and protein structure. Analysis of hemocyanin subtypes distribution and structure in various tissues was also performed and related to multiple and tissue-specific functions, i.e., immunological activity, immune signaling, phenoloxidase activity, modulation of microbiota homeostasis, and energy metabolism. The functional diversity of shrimp hemocyanin due to molecular polymorphism, transcriptional regulation, alternative splicing, degradation into functional peptides, interaction with other proteins or genes, and structural differences will also be highlighted for future research. Inferences would be drawn from other crustaceans to explain how evolution has changed the structure-function of hemocyanin and its implication for evolutionary research into the multifunctionality of hemocyanin and other related proteins in shrimp.

Toxicokinetic study of scandium oxide in rats

Canada has recently invested in the large-scale exploitation of scandium oxide. However, there are no studies available to date to understand its toxicokinetics in the animal or human body, which is necessary to assess exposure and health risks. The aim of this research was to investigate the toxicokinetics of absorbed scandium oxide (Sc2O3) using the rat as an experimental model. Male Sprague-Dawley rats were injected intravenously with 0.3 or 1 mg Sc2O3/kg body weight (bw). Blood and excreta (urine and feces) were collected sequentially during a 21-day period, and main organs (liver, spleen, lungs, kidneys, brain) were withdrawn at sacrifice on day 21. Inductively coupled plasma-mass spectrometry (ICP-MS) was used for the measurement of Sc element in the different samples. The mean residence time (MRTIV) calculated from the blood profile was 19.7 ± 5.9 h and 43.4 ± 24.6 h at the lower and higher doses, respectively. Highest tissue levels of Sc were found in the lungs and liver; respective lung values of 10.6 ± 6.2% and 3.4 ± 2.3% of the Sc dose were observed at the time of sacrifice while liver levels represented 8.9 ± 6.4% and 4.6 ± 1.1%. Elimination of Sc from the body was not complete after 21 days. Cumulative fecal excretion over the 21-day collection period represented 12.3 ± 1.3% and 5.9 ± 1.0% of the lower and higher Sc doses, respectively, and showed a significant effect of the dose on the excretion; only a small fraction of the Sc dose was recovered in urine (0.025 ± 0.016% and 0.011 ± 0.004% in total, respectively). In addition to an effect of the dose on the toxicokinetics, results highlight the importance of the lung as a site of accumulation and retention of Sc2O3, which raises the question of the risks of effects related to respiratory exposure in workers. The results also question the relevance of urine as a matrix for biological exposure monitoring. A more in-depth inhalation toxicokinetic study would be necessary.

The influence of microstructural characteristics and cell wall material properties on the mechanical behaviors of different tissues of sorghum stems

Sorghum stems comprise different tissue components, i.e., rind, pith, and vascular bundles in the rind and pith regions, of different cell morphologies and cell wall characteristics. The overall responses of stems to mechanical loadings depend on the responses of these tissues themselves. Investigating how each tissue deforms to various loading conditions will inform us of the failure mechanisms in sorghum stems when exposed to wind loadings, which can guide the development of lodging-resistant variants. To this end, numerical analyses were implemented to investigate the effects of cell morphologies and cell wall properties on the overall mechanical responses of the above four tissues under tension and compression. Microstructures of different tissues were constructed from microscopic images of the tissues using computer-aided design (CAD), which were then used for finite element (FE) analyses. Shell finite elements were used to model the cell walls, and the classical lamination model was used to determine the overall mechanical responses of cell walls having different fiber composite arrangements. The results from the numerical analyses helped explain how the loading (boundary) conditions, the cell microstructures, the mechanical properties of cell walls of different tissues, the cell wall thickness, the microfibril angle (MFA) of fiber composites of the cell walls, and the turgor pressure affected the overall mechanical responses of the tissues. Tissue stiffening or softening behaviors were attributed to different microstructural deformations, i.e., local or global buckling of cell walls, cell collapse, densifications of cells, or reorientation and rearrangement of cells. The mechanical properties and thickness of cell walls only affected the stiffness and load-bearing ability of the tissues. The turgor pressure affected the compressive responses but its effect on tensile responses was negligible. The MFA had a significant influence on the stiffness and load-bearing ability when the tissues were loaded along their longitudinal axis, but it had an insignificant effect on loading in the transverse direction. Tissues with smaller cell sizes and denser cells were stronger and stiffer than those with larger cell sizes. The numerical simulations also revealed that rind and rind vascular bundles were stiffer and had higher load-bearing ability than pith and pith vascular bundles.

Toxicokinetics of rare earth element oxides administered intravenously to rats

Rare earth elements (REEs) are increasingly used in a wide range of applications. However, their toxicokinetic behaviors in animals and humans are not yet fully documented, hindering health risk assessments. We used a rat experimental model to provide novel data on the toxicokinetics of the insoluble oxide forms of praseodymium (Pr), neodymium (Nd), cerium (Ce) and yttrium (Y) administered intravenously. Detailed blood, urinary and fecal time courses were documented through serial sampling over 21 days in male Sprague-Dawley rats exposed to a mixture of these REE oxides administered at two different doses (0.3 or 1 mg kg-1 bw of each REE oxide commercially sold as bulk μm-sized particles). Tissue REE levels at the time of sacrifice were also measured. Significant effects of the dose on REE time courses in blood and on cumulative urinary and fecal excretion rates were observed for all four REE oxides assessed, as lower cumulative excretion rates were noted at the higher REE dose. In the liver, the main accumulation organ, the fraction of the administered REE dose remaining in the tissue at necropsy was similar at both doses. Toxicokinetic data for the REE oxides were compared to similar data for their chloride salts (also administered intravenously in a mixture, at 0.3 and 1 mg kg-1 bw of each REE chloride) obtained from a previous study. Compared to their chloride counterparts, faster elimination of REE oxides from the blood was observed in the first hours post-dosing. Furthermore, higher mean residence time (MRT) values as well as slower cumulative urinary and fecal excretion were determined for the REE oxides. Also, while liver REE retention was similar for both REE forms, the fractions of the administered REEs recovered in the spleen and lungs were noticeably higher for the REE oxides, at both dose levels. This study highlights the importance of both the dose and form of the administered REEs on their toxicokinetic profiles. Results indicate that chronic exposure and increased doses of REEs may favor bioaccumulation in the body, in particular for insoluble oxide forms of REEs, which are eliminated more slowly from the body.

Metagenomic analysis unveils the microbial landscape of pancreatic tumors

The composition of resident microbes in the human body is linked to various diseases and their treatment outcomes. Although studies have identified pancreatic ductal adenocarcinoma (PDAC)-associated bacterial communities in the oral and gut samples, herein, we hypothesize that the prevalence of microbiota in pancreatic tumor tissues is different as compared with their matched adjacent, histologically normal appearing tissues, and these microbial molecular signatures can be highly useful for PDAC diagnosis/prognosis. In this study, we performed comparative profiling of bacterial populations in pancreatic tumors and their respective adjacent normal tissues using 16S rRNA-based metagenomics analysis. This study revealed a higher abundance of Proteobacteria and Actinomycetota in tumor tissues compared with adjacent normal tissues. Interestingly, the linear discriminant analysis (LDA) scores unambiguously revealed an enrichment of Delftia in tumor tissues, whereas Sphingomonas, Streptococcus, and Citrobacter exhibited a depletion in tumor tissues. Furthermore, we analyzed the microbial composition between different groups of patients with different tumor differentiation stages. The bacterial genera, Delftia and Staphylococcus, were very high at the G1 stages (well differentiated) compared with G2 (well to moderate/moderately differentiated) and G3/G4 (poorly differentiated) stages. However, the abundance of Actinobacter and Cloacibacterium was found to be very high in G2 and G3, respectively. Additionally, we evaluated the correlation of programmed death-ligand (PDL1) expression with the abundance of bacterial genera in tumor lesions. Our results indicated that three genera such as Streptomyces, Cutibacterium, and Delftia have a positive correlation with PD-L1 expression. Collectively, these findings demonstrate that PDAC lesions harbor relatively different microbiota compared with their normal tumor adjacent tissues, and this information may be helpful for the diagnosis and prognosis of PADC patients.

Concordance of circulating tumor DNA and matched formalin-fixed paraffin-embedded tumor tissue in gastric cancer as a predictor of recurrence

PURPOSE

Combined analysis of the variant composition of circulating tumor DNA (ctDNA) from cell-free plasma and DNA from tumor tissue could provide insight into the implications of the genetic alterations responsible for the intratumoral and intertumoral heterogeneity of gastric cancer. We aimed to evaluate the usefulness of this approach in these patients.

METHODS

Cell-free plasma and formalin-fixed paraffin-embedded tumor tissue samples from 46 patients with gastric cancer were examined. Targeted deep sequencing was performed using a commercially available kit.

RESULTS

The cell-free DNA (cfDNA) concentration was higher in stage II-IV versus stage I patients and in larger versus smaller tumors. Only 12 of the 36 (33.3%) alterations in the tumor tissue samples were in concordance with those in the ctDNA samples. Two variants were in concordance in stage I samples and 10 in stage II-IV samples. Actionable variants that were detected in concordance were in the stage II-IV samples. Preoperative ctDNA positivity of actionable variants was significantly associated with cfDNA concentration, lymphatic invasion, N stage, and TNM stage. Cancer recurrence was significantly associated with tumor size, lymphatic/vascular invasion, TNM stage, and ctDNA-tumor tissue variant concordance.

CONCLUSION

Preoperative ctDNA genetic analysis using a multigene panel offers substantial clinical benefits when performed in conjunction with targeted deep sequencing of tumor tissue. Concordance between preoperative ctDNA and tumor tissue mutations may serve as a prognostic indicator in patients with gastric cancer.

Toxicokinetics of praseodymium and cerium administered as chloride salts in Sprague-Dawley rats: impacts of the dose and of co-exposure with additional rare earth elements

We conducted a rat exposure study to assess the impacts of dose and co-exposure with other rare earth elements (REEs) on the toxicokinetics of praseodymium (Pr) and cerium (Ce). We first determined the kinetic profiles of elemental Pr and Ce in blood, urine and feces along with tissue levels at sacrifice on the seventh day following intravenous injection of PrCl3 or CeCl3 at 0.3 or 1 mg/kg bw (of the chloride salts) in adult male Sprague-Dawley rats (n = 5 per group). In blood, Pr and Ce half-lives for the initial phase (t1/2α) increased with increasing doses, while their half-lives for the terminal phase (t1/2β) were similar at both doses. In urine, a minor excretion route, no significant effect of the dose on the cumulative excretion was apparent. In feces, a major excretion route, the fraction of the Pr dose recovered was significantly lower at the 1 mg/kg bw dose compared to the 0.3 mg/kg bw dose, while no significant dose effect was apparent for Ce. In the liver and spleen, which are the main sites of REEs accumulation, there was a significant effect of the dose only for Ce retention in the spleen (i.e., increased retention of Ce in spleen at higher dose). Results were compared with those of a previous toxicokinetic study with a similar design but an exposure to a quaternary mixture of CeCl3, PrCl3, NdCl3 and YCl3, each administered at 0.3 mg/kg bw or 1 mg/kg bw. A mixture effect was apparent for the initial elimination phase (t1/2α) of Pr and Ce from blood and for the fecal excretion of Ce at the 1 mg/kg bw. In urine and liver, there was no evident overall mixture effect; in the spleen, there was a higher retention of Pr and Ce in rats exposed to the mixture at the 0.3 mg/kg bw, but not at the 1 mg/kg bw dose. Overall, this study showed that the dose and mixture exposure are two important factors to consider as determinants of the toxicokinetics of REEs.

Extracellular vesicles on the move: Traversing the complex matrix of tissues

Extracellular vesicles are small particles involved in intercellular signaling. They are produced by virtually all cell types, transport biological molecules, and are released into the extracellular space. Studies on extracellular vesicles have become more numerous in recent years, leading to promising research on their potential impact on health and disease. Despite significant progress in understanding the bioactivity of extracellular vesicles, most in vitro and in vivo studies overlook their transport through the extracellular matrix in tissues. The interaction or free diffusion of extracellular vesicles in their environment can provide valuable insights into their efficacy and function. Therefore, understanding the factors that influence the transport of extracellular vesicles in the extracellular matrix is essential for the development of new therapeutic approaches that involve the use of these extracellular vesicles. This review discusses the importance of the interaction between extracellular vesicles and the extracellular matrix and the different factors that influence their diffusion. In addition, we evaluate their role in tissue homeostasis, pathophysiology, and potential clinical applications. Understanding the complex interaction between extracellular vesicles and the extracellular matrix is critical in order to develop effective strategies to target specific cells and tissues in a wide range of clinical applications.

eQTL studies: from bulk tissues to single cells

An expression quantitative trait locus (eQTL) is a chromosomal region where genetic variants are associated with the expression levels of specific genes that can be both nearby or distant. The identifications of eQTLs for different tissues, cell types, and contexts have led to a better understanding of the dynamic regulations of gene expressions and implications of functional genes and variants for complex traits and diseases. Although most eQTL studies have been performed on data collected from bulk tissues, recent studies have demonstrated the importance of cell-type-specific and context-dependent gene regulations in biological processes and disease mechanisms. In this review, we discuss statistical methods that have been developed to enable the detection of cell-type-specific and context-dependent eQTLs from bulk tissues, purified cell types, and single cells. We also discuss the limitations of the current methods and future research opportunities.

Testing of tissue specimens obtained from SARS-CoV-2 nasopharyngeal swab-positive donors

Risk for transmission of SARS-CoV-2 through allogeneic human tissue transplantation is unknown. To further evaluate the risk of virus transmission, tissues were obtained from deceased donors who had tested positive for SARS-CoV-2 RNA via nasopharyngeal swab. This study evaluated an array of human tissues recovered for transplantation, including bone, tendon, skin, fascia lata, vascular tissues, and heart valves. Tissue samples and plasma or serum samples, if available, were tested for viral RNA (vRNA) using a real time PCR system for the presence of virus RNA. All samples were tested in quadruplicate for both subgenomic (sgRNA) and genomic (gRNA) RNA encoding the SARS-CoV-2 nucleocapsid gene. Amplification of a cellular housekeeping gene served as the positive control for every sample. A total of 47 tissue samples from 17 donors were tested for SARS-CoV-2 RNA. Four donors had plasma or serum available for paired testing. SARS-CoV-2 RNA was not detected from any tissue or plasma/serum sample tested. Based on these findings, risk of transmission through the transplantation of tissue types studied from SARS-CoV-2 infected donors is likely to be low.

Less is more: a methodological assessment of extraction techniques for per- and polyfluoroalkyl substances (PFAS) analysis in mammalian tissues

Per- and polyfluoroalkyl substances (PFAS) are persistent environmental contaminants. Studying the bioaccumulation in mammalian tissues requires a considerable effort for the PFAS extraction from complex biological matrices. The aim of the current work was to select and optimize the most efficient among common extraction strategies for eleven perfluoroalkyl acids (PFAA). Primary extractions from wild boar tissues (liver, kidney, and lung) were performed with methanol at neutral, acidic, or alkaline conditions, or with methyl-tert-butyl ether (MTBE) after ion-pairing with tetrabutylammonium (TBA) ions. A second purification step was chosen after comparing different solid-phase extraction (SPE) cartridges (Oasis WAX, ENVI-Carb, HybridSPE Phospholipid) and various combinations thereof or dispersive SPE with C18 and ENVI-Carb material. The best extraction efficiencies of the liquid PFAA extraction from tissue homogenates were achieved with methanol alone (recoveries from liver 86.6-114.4%). Further purification of the methanolic extracts using dispersive SPE or Oasis WAX columns decreased recoveries of most PFAA, whereas using pairs of two SPE columns connected in series proved to be more efficient albeit laborious. Highest recoveries for ten out of eleven PFAA were achieved using ENVI-Carb columns (80.3-110.6%). In summary, the simplest extraction methods using methanol and ENVI-Carb columns were also the most efficient. The technique was validated and applied in a proof of principle analysis in human tissue samples.

Chromium (IV) transfer to Amusium pleuronectes by LDPE microplastics: An experimental study

An experiment was carried out to investigate the potential of virgin LDPE microplastics to transfer heavy metals. Desired shapes (fibres, fragments, and films) and sizes (< 5 mm) of virgin LDPE microplastics were immersed in a known concentration (30 µg/l) of chromium (IV). These Cr-coated microplastics were introduced into a culture tank containing edible scallops (Amusium pleuronectes). After the completion of the experiment (5 days), the sediments in the culture tank and edible tissues of A. pleuronectes were tested for the presence of Cr. In the sediments, a maximum concentration of 1.934 µg/g of Cr was accumulated at a rate of R2 = 0.979, while in the tissues, the maximum accumulation concentration was 0.733 µg/g of Cr at a rate of R2 = 0.807. Energy Dispersive X-ray Spectroscopy analysis also confirmed the presence of Cr (2.61 ± 0.44 mass % and 1.80 ± 0.30 atom%) in the tissues of A. pleuronectes, which was absent in the control tissues. The study showed that when exposed to contaminants such as heavy metals, LDPE microplastics can adhere and transfer them to biotic tissues. LDPE showed the potential to transfer adhered contaminants; however, the effects caused by these transferred contaminants on biota must be studied further. Risk assessment study showed that potential ecological risk of Cr is < 40 indicating low risk however, the combined effect of Cr and LDPE can compound its toxicity which needs to be studied further.

On implementation of fibrous connective tissues' damage in Abaqus software

Connective fibrous tissues, such as tendons and ligaments, in humans and animals exhibit hyperelastic behaviour. The constitution of the material of these tissues is anisotropic due to the presence of the collagen fibres, where one family of fibres is the typical case. Traumatic events and/or aging may sometimes lead to the damage of the tissue. The study of motion of affected joints or limbs is usually not permitted in vivo. This is where finite element method (FEM) becomes useful as a premise for general analysis, surgical planning or designing of implants and medical treatment. One of the most often used FEM commercial programs is the field of the biomechanics is Abaqus. The present study discusses the potential of user subroutine UANISOHYPER_INV in this code to analyse response of transversely isotropic tissue with damage in quasi-static range. This subroutine requires providing the material energy function and its derivatives only. The stress tensor and constitutive matrix are computed by the software automatically. To the best of the Authors' knowledge this procedure provides the easiest way to simulate the anisotropic hyperelastic material behaviour in Abaqus. In this study its usage is extended onto the damage response simulation. The verification of the approach and its validation against experimental data indicates its efficiency.

To donate or not to donate? Future healthcare professionals' opinions on biobanking of human biological material for research purposes

BACKGROUND

Over the last few decades biobanks have been recognised as institutions that may revolutionise biomedical research and the development of personalised medicine. Poland, however, still lacks clear regulations regarding the running of biobanks and the conducting of biomedical research. While the awareness of the general public regarding biobanks is low, healthcare professions and medical students also lack basic knowledge regarding biobanks, and such ignorance may affect their support for biobanks.

METHODS

This study is aimed at assessing the knowledge and attitudes of future healthcare professionals towards the donation of human biological material for research purposes and is based on a sample of 865 Polish medical students at Poznań University of Medical Sciences.

RESULTS

This research has shown that the awareness of medical students' regarding biobanks is low. It has also shown that while the majority of future healthcare professionals enrolled in this study supported the idea of biobank research and declared themselves willing to donate, still many students felt ambivalent about the biobanking of human biological material for research purposes and expressed concerns over biobanking research. While the primarily motivation to participate in biobank research was the desire to help advance science and to develop innovative therapies, the most common reason for a refusal was the fear that the government, insurance companies or employers, might have access to the samples. Concerns over unethical use of samples and data safety were also prevalent. More than half of students opted for a study-specific model of consent and only a few opted for broad consent.

CONCLUSIONS

This research suggests that a lack of knowledge about biobanks, their role and activities may affect medical students' support for biobanks and their active participation in the collection and management of biospecimens for research purposes. Since in the future medical, nursing and pharmacy students will be involved in the collection, storage, testing and analysis of biospecimens from their patients, medical students in all professional fields should be trained regarding the concept, purposes and operational procedures of biobanks, as well as the ethical, legal and social implications of biobank research.

Nfinder: automatic inference of cell neighborhood in 2D and 3D using nuclear markers

BACKGROUND

In tissues and organisms, the coordination of neighboring cells is essential to maintain their properties and functions. Therefore, knowing which cells are adjacent is crucial to understand biological processes that involve physical interactions among them, e.g. cell migration and proliferation. In addition, some signaling pathways, such as Notch or extrinsic apoptosis, are highly dependent on cell-cell communication. While this is straightforward to obtain from membrane images, nuclei labelling is much more ubiquitous for technical reasons. However, there are no automatic and robust methods to find neighboring cells based only on nuclear markers.

RESULTS

In this work, we describe Nfinder, a method to assess the cell's local neighborhood from images with nuclei labeling. To achieve this goal, we approximate the cell-cell interaction graph by the Delaunay triangulation of nuclei centroids. Then, links are filtered by automatic thresholding in cell-cell distance (pairwise interaction) and the maximum angle that a pair of cells subtends with shared neighbors (non-pairwise interaction). We systematically characterized the detection performance by applying Nfinder to publicly available datasets from Drosophila melanogaster, Tribolium castaneum, Arabidopsis thaliana and C. elegans. In each case, the result of the algorithm was compared to a cell neighbor graph generated by manually annotating the original dataset. On average, our method detected 95% of true neighbors, with only 6% of false discoveries. Remarkably, our findings indicate that taking into account non-pairwise interactions might increase the Positive Predictive Value up to + 11.5%.

CONCLUSION

Nfinder is the first robust and automatic method for estimating neighboring cells in 2D and 3D based only on nuclear markers and without any free parameters. Using this tool, we found that taking non-pairwise interactions into account improves the detection performance significantly. We believe that using our method might improve the effectiveness of other workflows to study cell-cell interactions from microscopy images. Finally, we also provide a reference implementation in Python and an easy-to-use napari plugin.

The applicability of Fourier transform infrared microspectroscopy for correction against matrix effects in X-ray fluorescence microimaging of tissues

X-ray fluorescence (XRF) and Fourier transform infrared (FTIR) microscopy techniques are now considered popular for rapid and label-free complementary spectrochemical analysis of chemical elements and molecular systems in biological specimens. The morphological heterogeneity but also the inhomogeneities associated with the thickness/density of biological samples demonstrate challenges for the quantitative XRF microimaging. Therefore, in the present work, we proposed for the first time the application of the total absorbance under the FTIR spectra as a mass surface correction procedure for two-dimensional (2D) XRF microimaging of tissues. We also evaluated the equivalence of the developed correction method based on total absorbance of FTIR spectra with the proposed approaches based on incoherent scattering of primary X-rays as well as on the membrane Si-Kα transmission signal, on the example of selected rat organ tissues. Thin cryo-sections taken from various organs of Wistar rats were deposited on silicon nitride membranes (Si₃N₄). The FTIR microscopy studies were performed to collect infrared absorption spectra, used then for the determination of total absorbance values in the selected areas of tissue samples. In turn, hard X-ray imaging based on synchrotron radiation allowed the determination of characteristic radiation intensities of the elements detectable from the tissue, as well as the characteristic radiation of the membrane Si and incoherently scattered X-ray photons (Compton scattering). The latter served as correction factors for the surface mass of the sample alongside the FTIR total absorbance. The qualitative and quantitative analyses showed a high agreement between the results of elemental surface mass correction using total absorbance under FTIR spectra of tissues with those obtained using surface mass correction factors determined directly from XRF spectra. Therefore, the proposed procedure is a good alternative in cases where the surface mass effect of the sample cannot be eliminated based on the information provided directly by the XRF spectrum, as in the case of using polymer films as sample support. We have also proposed a procedure for synchronizing SRXRF and FTIR images, not limited to visual inspection of imaging/mapping data, but also enabling quantitative analysis. We found that the total absorbance determined from FTIR spectra can be successfully used as a correction factor for eliminating the surface mass effect in XRF microimaging of thin freeze-fried tissues and therefore to obtain the surface mass-independent elemental quantities. The proposed approach for 2D-FTIR-XRF analysis can also be a powerful and versatile tool for fostering a correlation and co-localization analysis to search for common distribution patterns between molecular arrangements and chemical elements.

Distribution of microplastics in different tissues of major commercial catches in different functional areas of the South Yellow Sea

The microplastic (MP) pollution in different tissues of six commercial catches, including (Miichthys miiuy, Eleutheronema tetradactylum, Collichthys lucidus, Mugil cephalus, Portunus trituberculatus and Exopalaemon carinicauda) in Haizhou Bay (nori farming area), Yancheng offshore (wind power construction area) and the Nantong marine ranch area of the South Yellow Sea was investigated. MPs are ubiquitous in commercial catches; the average abundance of MPs is 5.19 ± 3.64 items/individual. There are significant differences in the level of MP pollution in commercial catches among functional sea areas. The level of MP pollution in commercial catches in Haizhou Bay and Yancheng offshore is higher than that in the Nantong marine ranch areas. This difference may be related to intense anthropogenic activities such as engineering construction and mariculture. In addition to the presence in digestive tract, MPs in the skin and gills of fish and in the gills of shrimp and crabs cannot be ignored. The main shape, color and material of MPs are fiber, black-gray and celluloid (CP), respectively. Since commercial catches are consumed by humans, the potential risks of MPs in these catches to human health and marine ecology are of concern.

Assessment of macro-, trace- and toxic elements in Small Indian mongoose, Herpestes auropunctatus (Hodgson, 1836), from Montenegro: potential use for biomonitoring

The aim of this study was to determine the concentrations of 28 elements in the liver, kidney, muscle, and heart of a small Indian mongoose from Montenegro. Element concentrations were determined using inductively coupled plasma optical emission spectrometry (ICP-OES). Significant differences in elemental concentrations between analyzed tissues were observed for Ag, Al, Cu, Fe, Hg, K, Mg, Mn, Mo, Na, P, S, Se, and Zn. The concentrations of Ag, Fe, Mo, and S were significantly different between all analyzed tissues. Muscle tissue is characterised by higher concentrations of some macroelements (K, Mg, S) and liver tissue by higher concentrations of some trace elements (Fe, Mn, Mo, and Zn). Cardiac tissue could be the target organ for bioaccumulation of Ag and Se. The molar ratio Se:Hg was higher than 1 in all studied tissues. There were few significant differences between element concentrations in mongooses from three analyzed (Airport, Saline, Inland) groups. Significantly higher concentrations of Ag and Se were found in liver tissue of Inland mongooses compared to animals from Airport and Saline. There were few significant differences (Zn in liver and muscle, Fe in muscle) in element concentrations between females and males.

Updated Methods of Extracellular Vesicles Isolation

Extracellular vesicles (EVs) are considered as cargo and mediate intercellular communication. As natural biological nanoparticles, EVs can be secreted by almost all kinds of cells and exist in biofluids such as milk, urine, blood, etc. In the past decades, several methods have been utilized to isolate EVs from cell culture medium, biofluids, and tissues. Here in this chapter, we summarized conventional and novel methods and fundamental procedures of EVs extraction and purification from different biofluids (plasma, urine, milk, and saliva) and tissues (brain, intestinal tissue, muscles, and heart). The present section also discusses how to choose appropriate methods to extract EVs from tissues based on downstream analysis. This chapter will expand the horizons of EVs isolation and purification from different mediums.

In Vivo Tissue Lipid Uptake in Antisense Oligonucleotide (ASO)-Treated Mice

The prevalence of obesity has increased to pandemic levels over the past years. Associated comorbidities linked with the accumulation of lipids in different tissues and blood are responsible for the high mortality in these patients. The increased dietary lipid uptake contributes to these metabolic diseases. Identifying which pathways might be dysregulated in these patients will contribute to find new therapeutic targets. Thus, here, a protocol to follow up the distribution of dietary lipids in blood and tissues is provided. For this, radiolabeled triglyceride in olive oil is administered by oral gavage. To ascertain more precisely the capacity of each tissue for fatty acid uptake, not considering the intestinal barrier, the intravenous (IV) administration of radiolabeled lipids is also described.

Bisphenol A in edible tissues of rams exposed to repeated low-level dietary dose by high-performance liquid chromatography with fluorescence detection

The presented work deals with levels and distribution of bisphenol A (BPA) in the edible tissues of a large food-producing animal species. An experimental animal study included 14 young Istrian pramenka rams (Ovis aries), of which seven were exposed for 64 days to a low dietary dose of BPA at 25 µg/kg b.w./day, and seven served as a control group. Residue analysis of both aglycone and total BPA was performed in the muscle tissue, liver, kidney and fat tissue of the individual animals by means of enzymatic deconjugation (for total BPA), organic solvent extraction, molecularly imprinted polymer solid-phase extraction (MISPE) clean-up and high-performance liquid chromatography with fluorescence detection (HPLC-FLU). The analysis was optimized and validated for aglycone BPA in the fat tissue and for the total BPA in all tissues investigated. Edible tissues of the control group of rams generally remained BPA-free, while there were concentration differences between the control and treated groups for liver and kidney post last administration. The human health risk resulting from this study was assessed by the estimated dietary exposure in adults, which was < 0.1% related to the valid European Union Tolerable Daily Intake (TDI) value of 4 µg/kg b.w./day. However, it would be 58-fold higher than the newly proposed TDI value of 0.04 ng/kg b.w./day.

Using stable isotope (δ13C, δ15N) values from feces and breath to infer shorebird diets

The use of stable isotopes of carbon (δ¹³C) and nitrogen (δ¹⁵N) from feces and breath offers potential as non-destructive tools to assess diets and nutrition. How stable isotope values derived from breath and feces compare with those from commonly used tissues, such as blood fractions and liver, remains uncertain, including understanding the metabolic routing of dietary nutrients. Here, we measured δ¹³C and δ¹⁵N from feces and δ¹³C of breath from captive Red-necked Stints (Calidris ruficollis) and 26 species of wild-caught migratory shorebirds (n = 259 individuals) and compared them against isotopic values from blood and feathers. For captive birds fed either cereal- or fish-based diets, differences in δ¹³C between feces and lipid-free diet were small, − 0.2 ± 0.5‰ and 0.1 ± 0.3‰, respectively, and differences in δ¹⁵N, − 0.7 ± 0.5‰ and − 0.5 ± 0.5‰, respectively. Hence, δ¹³C and δ¹⁵N values from feces can serve as proxies for ingested proteinaceous tissues and non-soluble carbohydrates because isotopic discrimination can be considered negligible. Stable isotope values in plasma and feces were strongly correlated in wild-caught shorebirds, indicating feces can be used to infer assimilated macronutrients. Breath δ¹³C was 1.6 ± 0.8‰ to 5.6 ± 1.2‰ lower than bulk food sources, and breath C derived from lipids was estimated at 47.5% (cereal) to 96.1% (fish), likely underlining the importance of dietary lipids for metabolism. The findings validate the use of stable isotope values of feces and breath in isotopic assays to better understand the dietary needs of shorebirds.

A multi-tissue biomonitoring investigation of toxic trace elements and their trophic transfer potential in a semi aquatic bird species, the Cattle Egret (Bubulcus ibis)

The constant exposure of toxic trace elements can elicit adverse health effects particularly in birds and species residing higher at the food web. The current study is designed to evaluate the tendency of toxic trace elements viz. Cd, Cr, Pb, Cu, As and Hg to bioaccumulate in liver, kidney, blood, pelvic and pectoral muscles of cattle egret (Bubulcus ibis) collected from premises of a metropolitan city, Lahore, Pakistan. Further, the Trophic Transfer Potential of these elements was also estimated using prey/food samples of cattle egret. All of the selected toxic trace elements except Hg and As were detected with varying concentrations in different tissues of cattle egret. In general, toxic trace elements followed the pattern as Cu > Pb > Cd > Cr in tissues of cattle egret. The maximum mean (Min-max) concentrations (μg/g) of Cu 0.58 (0.11-0.93) and Pb 0.46 (0.40-0.54) in blood and Cd at 0.46 (0.40-0.54) were observed in liver. Similarly, the highest mean (min-max) concentration (μg/g) of Cr 0.17 (0.09-0.25) was recorded in pectoral muscle. In general, blood and liver were found as the most contaminated tissues followed by kidney, pectoral and pelvic muscles. Differences of trace elements were found non-significant (all P > 0.05) among tissues of cattle egret reflecting their homogenous distribution in body. Principal Component Analysis (PCA) corroborated lack of strong association between any of the trace elements and tissues. All the toxic trace elements except Cr showed higher tendency of trophic transfer potential through food chain in all the tissues of Cattle Egret (TTF >1). Although the current study revealed decreasing trends of toxic trace elements, yet their still presence in the local environment and greater likelihood of trophic transfer can undoubtedly cause some severe health effects to the already declining bird populations.

Non-destructive mercury exposure assessment in the Brandt's hedgehog (Paraechinus hypomelas): spines as indicators of endogenous concentrations

Due to its persistence, bioaccumulation characteristics, and toxicity, environmental contamination with mercury (Hg) is of high concern for human health, living organisms, and ecosystems, and its biological monitoring is highly relevant. In this study, the levels of total Hg were measured in organs, tissues, and spines of 50 individuals of Brandt's hedgehog collected in Iran in 2019. The Hg median levels in kidneys, liver, muscle, and spines were 156, 47, 47, and 20 ng/g dry weight, respectively. The results showed a significant positive correlation between the levels of Hg in kidneys and liver (r = 0.519; p < 0.01) and in spines and muscle (r = 0.337, p < 0.01) and kidneys (r = 0.309, p < 0.05). Significant differences (p < 0.05) in Hg levels in organs and tissues were also observed depending on the sex, weight, length, and age of the individuals. In addition, the median levels of total Hg in kidneys of Brandt's hedgehogs from an agricultural ecotype (median 190 ± 65) were significantly higher (p < 0.05) than those collected from a forest ecotype (median 126 ± 50), suggesting that the habitat could have a significant impact on animal contamination.

A review of applications of surface-enhanced raman spectroscopy laser for detection of biomaterials and a quick glance into its advances for COVID-19 investigations

Surface-enhanced Raman spectroscopy (SERS) is one of the most sensitive analytical tools. In some cases, it is possible to record a high-quality SERS spectrum in which even a single molecule is involved. Therefore, SERS is considered a significantly promising option as an alternative to routine analytical techniques used in food, environmental, biochemical, and medical analyzes. In this review, the definitive applications of SERS developed to identify biochemically important species (especially medical and biological) from the simplest to the most complex are briefly discussed. Moreover, the potential capability of SERS for being used as an alternative to routine methods in diagnostic and clinical cases is demonstrated. In addition, this article describes how SERS-based sensors work, addresses its advancements in the last 20 years, discusses its applications for detecting Coronavirus Disease 2019 (COVID-19), and finally describes future works. The authors hope that this article will be useful for researchers who want to enter this amazing field of research.

Using epibenthic fauna as biomonitors of local marine contamination adjacent to McMurdo Station, Antarctica

Ten benthic fauna taxa in a polluted marine area adjacent to McMurdo Station, Antarctica were deemed to be potential biomonitors because PCBs, DDTs, PAHs, copper, lead and/or zinc in their tissues were significantly higher than in tissues of taxa living in reference areas (p < 0.05). Concentrations of PCBs and DDT were highest in Trematomus (fish). Total PAH concentrations were highest in Alcyonium antarcticum (soft coral), Isotealia antarctica (anemone) and L. elliptica. Copper and lead concentrations were highest in Laternula elliptica (bivalve) and Flabegraviera mundata (polychaete), and lowest in Trematomus and Parbolasia corrugatus (nemertean). However, copper concentrations were even higher in the asteroids Perknaster fuscus antarcticus, Odontaster validus and Psilaster charcoti. Bioaccumulation factors for different species were highest for PCBs and DDT, and lowest for lead. Bioaccumulation of some contaminants are likely prevalent in benthic taxa at McMurdo Station, but concentrations are usually low relative to human consumption standards.

Ecotoxicity in Hyriopsis bialatus of copper and zinc biocides used in metal-based antifouling paints

Biofouling is a costly burden for the shipping industry. Metal-based antifouling paints are widely used to protect submerged surfaces, but the release of metals from coatings and the recoating of hulls can leach large amounts of copper and zinc into aquatic environments, posing a risk for aquatic ecosystems and biodiversity. With this study, we studied the time-course metal accumulation and oxidative stress in the digestive gland and the gills of Hyriopsis bialatus, an Asian freshwater mussel, exposed to sublethal concentrations of cuprous chloride (50 and 5 µg/L) and zinc sulfate (1000 and 100 µg/L). Time-dependent accumulation was observed after exposure to copper, but zinc uptake was negligible. Integrated biomarker response (IBRv2) and statistical analysis of individual biomarker levels showed a greater biomarker response in the digestive gland and the gills after exposure to the higher concentration of CuCl and ZnSO₄. Both compounds elicited a biochemical response, especially in the digestive gland. Glutathione peroxidase activity was increased after exposure to both metals at both concentrations, suggesting a powerful defense against lipid peroxidation. The biological impact of zinc was less than that of copper, suggesting mitigated ecological pressure.

Detecting Aggressive Papillary Thyroid Carcinoma Using Hyperspectral Imaging and Radiomic Features

Hyperspectral imaging (HSI) and radiomics have the potential to improve the accuracy of tumor malignancy prediction and assessment. In this work, we extracted radiomic features of fresh surgical papillary thyroid carcinoma (PTC) specimen that were imaged with HSI. A total of 107 unique radiomic features were extracted. This study includes 72 ex-vivo tissue specimens from 44 patients with pathology-confirmed PTC. With the dilated hyperspectral images, the shape feature of least axis length was able to predict the tumor aggressiveness with a high accuracy. The HSI-based radiomic method may provide a useful tool to aid oncologists in determining tumors with intermediate to high risk and in clinical decision making.

A two-photon fluorescence probe with endoplasmic reticulum targeting ability for turn-on sensing photosensitized singlet oxygen in living cells and brain tissues

Endoplasmic reticulum (ER) is an indispensable organelle responsible for protein synthesis, transportation, and maintenance of Ca²⁺ homeostasis in eukaryotic cells. Recent studies highlighted that ER-targeted photosensitizers with high yield of singlet oxygen (¹O₂) are effective in selectively disrupting ER function and are promising candidates for anticancer therapy. Unfortunately, no ER targetable fluorescent probes for determining ¹O₂ photosensitized in this photodynamic therapy process is available. In this work, we synthesized an ER-targetable, two-photon fluorescence probe, ER-¹O₂, for fluorescence turn-on sensing of ¹O₂. ER-¹O₂ demonstrated high sensitivity to ¹O₂ sensing with a wide detection range (0-2.75 μM) and a low detection limit (0.11 μM). ER-¹O₂ also displayed excellent selectivity toward ¹O₂ out of other ROS and metal ions. Notably, ER-¹O₂ exhibited low cytotoxicity but with specific ER targetable capability. On account of these advantageous features, fluctuations of ¹O₂ in living cells and brain tissues were effectively visualized by ER-¹O₂.

Tissue engineered vascular grafts transform into autologous neovessels capable of native function and growth

Background

Tissue-engineered vascular grafts (TEVGs) have the potential to advance the surgical management of infants and children requiring congenital heart surgery by creating functional vascular conduits with growth capacity.

Methods

Herein, we used an integrative computational-experimental approach to elucidate the natural history of neovessel formation in a large animal preclinical model; combining an in vitro accelerated degradation study with mechanical testing, large animal implantation studies with in vivo imaging and histology, and data-informed computational growth and remodeling models.

Results

Our findings demonstrate that the structural integrity of the polymeric scaffold is lost over the first 26 weeks in vivo, while polymeric fragments persist for up to 52 weeks. Our models predict that early neotissue accumulation is driven primarily by inflammatory processes in response to the implanted polymeric scaffold, but that turnover becomes progressively mechano-mediated as the scaffold degrades. Using a lamb model, we confirm that early neotissue formation results primarily from the foreign body reaction induced by the scaffold, resulting in an early period of dynamic remodeling characterized by transient TEVG narrowing. As the scaffold degrades, mechano-mediated neotissue remodeling becomes dominant around 26 weeks. After the scaffold degrades completely, the resulting neovessel undergoes growth and remodeling that mimicks native vessel behavior, including biological growth capacity, further supported by fluid-structure interaction simulations providing detailed hemodynamic and wall stress information.

Conclusions

These findings provide insights into TEVG remodeling, and have important implications for clinical use and future development of TEVGs for children with congenital heart disease.

Distribution, accumulation and health risk assessment of trace elements in Sargassum fusiforme

This study compared the ability of Sargassum fusiforme to accumulate As, Cd, Cr, Cu, Ni, Pb and Zn in its five tissues (main branch, lateral branch, leaf, receptacles and pneumathode). The concentrations of these trace elements in seawater, surface sediments and different tissues of S. fusiforme were analyzed in different areas in Dongtong County (Wenzhou City, China). The presence of receptacle at all sites indicated that S. fusiforme had entered the mature stage. However, the proportion of each tissue in S. fusiforme in different sites was varied, indicating subtle differences in growth. S. fusiforme has a great capacity to accumulate trace elements, showing relatively high levels of As (28.2-64.2 mg kg-1) and Zn (19.9-80.8 mg kg-1). The elements are mainly stored in leaf, receptacles and pneumathode. Compared to element concentrations in the surrounding environment, the seaweed exhibited stronger bioconcentration capacity for As and Cd than for other elements. According to our health risk assessment results, the hazard index and carcinogenic risk were below the limit, suggesting that the S. fusiforme ingestion would not pose any health risk and the potential risk of intake branches was even lower than that of other tissues.

The Human Protein Atlas and Antibody-Based Tissue Profiling in Clinical Proteomics

Immunohistochemistry (IHC) is a standard method for spatial proteomics and allows for exploration of protein expression at single-cell resolution within the intact tissue environment. Stringent procedures and proper antibody validation strategies are however needed to ensure reliability of results. Application-specific strategies have been proposed by the scientific community to ensure high quality despite variations in sample preparation between different antibody-based methods. Here, the entire workflow utilized within the Human Protein Atlas, from sample preparation to annotation of the IHC staining patterns is described in detail, with important notes on various factors that can affect the outcome of IHC. Methods include tissue microarray (TMA) production, tissue sectioning, IHC, annotation, and validation. Also, building on previously suggested validation strategies, IHC-specific orthogonal and independent validation methods are outlined.

Bioaccumulation and biomagnification in elasmobranchs: A concurrent assessment of trophic transfer of trace elements in 12 species from the Indian Ocean

We provided the first multi-species study investigating the presence and organotropism of trace elements in three tissues of 12 elasmobranch species. Shark species showed comparable TE loads, although milk sharks and juvenile scalloped hammerhead sharks exhibited the highest Cd and Hg levels, respectively. Fins accumulated higher levels of Pb, Co, and Cr; muscles higher V, As, and Hg; livers higher Se and Cd levels. The organotropism of TEs calls for cautious when choosing a tissue to be sampled since certain tissues, like fin clips, do not provide reliable surrogate for the internal loads of some TEs. Strong correlations between essential and toxic TEs indicated detoxification mechanisms, while the TMF provided evidence for Hg, As and Se biomagnification along the food-web. Considering the difficulties in assessing elasmobranchs contamination from different areas, the proposed multi-species approach represents a valuable way to estimate the species-specific accumulation and transfer of pollutants in sharks.

Challenges and solutions in polymer drug delivery for bacterial biofilm treatment: A tissue-by-tissue account

To tackle the emerging antibiotic resistance crisis, novel antimicrobial approaches are urgently needed. Bacterial communities (biofilms) are a particular concern in this context. Biofilms are responsible for most human infections and are inherently less susceptible to antibiotic treatments. Biofilms have been linked with several challenging chronic diseases, including implant-associated osteomyelitis and chronic wounds. The specific local environments present in the infected tissues further contribute to the rise in antibiotic resistance by limiting the efficacy of systemic antibiotic therapies and reducing drug concentrations at the infection site, which can lead to reoccurring infections. To overcome the shortcomings of systemic drug delivery, encapsulation within polymeric carriers has been shown to enhance antimicrobial efficacy, permeation and retention at the infection site. In this Review, we present an overview of current strategies for antimicrobial encapsulation within polymeric carriers, comparing challenges and solutions on a tissue-by-tissue basis. We compare challenges and proposed drug delivery solutions from the perspective of the local environments for biofilms found in oral, wound, gastric, urinary tract, bone, pulmonary, vaginal, ocular and middle/inner ear tissues. We will also discuss future challenges and barriers to clinical translation for these therapeutics. The following Review demonstrates there is a significant imbalance between the research focus being placed on different tissue types, with some targets (oral and wound biofims) being extensively more studied than others (vaginal and otitis media biofilms and endocarditis). Furthermore, the importance of the local tissue environment when selecting target therapies is demonstrated, with some materials being optimal choices for certain sites of bacterial infection, while having limited applicability in others.

Advancing the Care of Pancreatic Cancer Patients: Moving Beyond Just Tumour Tissue

Biobanking efforts, to establish and grow the pool of available tissue from which evidence on aetiology, therapeutic susceptibility and prognosis of various diseases, have been underway for decades. This is illustrated nowhere better than in cancer. High incidence cancers such as breast, colorectal and lung have seen massive increases in their requisite formularies that have yielded improved prognoses. These discoveries, on a very fundamental level, were made by scientists who had access to tumour tissue and associated clinical data from patient donors. As the research space for higher incidence malignancies became increasingly crowded, attention has turned towards those malignancies with lower incidence. In the same time span, technology has continued to evolve, allowing the next generation of scientists and clinicians to ask more nuanced questions. Inquiries are no longer limited to the -omics of tumour tissue but also include biomarkers of blood and excretory products, concurrent disease status and composition of the gut microbiome. The impact of these new technologies and the questions now facing researchers in low-incidence cancers will be summarized and discussed. Our experience with pancreatic ductal adenocarcinoma will be used as a model for this review.

Selection and validation of reference genes for RT-qPCR analysis in Desmodium styracifolium Merr

Gene expression valuated by reverse transcription-quantitative PCR (RT-qPCR) are often applied to study the gene function. To obtain accurate and reliable results, the usage of stable reference genes is essential for RT-qPCR analysis. The traditional southern Chinese medicinal herb, Desmodium styracifolium Merr is well known for its remarkable effect on the treatment of urination disturbance, urolithiasis, edema and jaundice. However, there are no ready-made reference genes identified for D. styracifolium. In this study, 13 novel genes retrieved from transcriptome datasets of four different tissues were reported according to the coefficient of variation (CV) and maximum fold change (MFC) of gene expression. The expression stability of currently used Leguminosae ACT6 was compared to the 13 candidate reference genes in different tissues and 7-day-old seedlings under different experimental conditions, which was evaluated by five statistical algorithms (geNorm/NormFinder/BestKeeper/ΔCT/RefFinder). Our results indicated that the reference gene combinations of PP  +  UFM1, CCRP4  +  BRM and NFD6  +  NCLN1 were the most stable reference genes in leaf, stem and root tissues, respectively. The most stable reference gene combination for all tissues was CCRP4  +  CUL1. In addition, the most stable reference genes for different experimental conditions were distinct, for instance SMUP1 for MeJA treatment, ERDJ2A  +  SMUP1 for SA treatment, NCLN1  +  ERDJ2A for ABA treatment and SF3B  +  VAMP721d for salt stress, respectively. Our results lay a foundation for achieving accurate and reliable RT-qPCR results so as to correctly understand the function of genes in D. styracifolium.

SUPPLEMENTARY INFORMATION

The online version contains supplementary material available at 10.1007/s13205-021-02954-x.

[Clinical and Technical Guideline for Endoscopic Ultrasound-guided Tissue Acquisition of Pancreatic Solid Tumor: Korean Society of Gastrointestinal Endoscopy]

Endoscopic ultrasound (EUS)-guided tissue acquisition of pancreatic solid tumor requires a strict recommendation for its proper use in clinical practice because of its technical difficulty and invasiveness. The Korean Society of Gastrointestinal Endoscopy appointed a Task Force to draft clinical practice guidelines for EUS-guided tissue acquisition of pancreatic solid tumor. The strength of recommendation and the level of evidence for each statement were graded according to the Minds Handbook for Clinical Practice Guideline Development 2014. The committee, comprising a development panel of 16 endosonographers and an expert on guideline development methodology, developed 12 evidence-based recommendations in eight categories intended to help physicians make evidence- based clinical judgments with regard to the diagnosis of pancreatic solid tumor. This clinical practice guideline discusses EUS-guided sampling in pancreatic solid tumor and makes recommendations on circumstances that warrant its use, technical issues related to maximizing the diagnostic yield (e.g., needle type, needle diameter, adequate number of needle passes, sample obtaining techniques, and methods of specimen processing), adverse events of EUS-guided tissue acquisition, and learning-related issues. This guideline was reviewed by external experts and suggests best practices recommended based on the evidence available at the time of preparation. This guideline may not be applicable for all clinical situations and should be interpreted in light of specific situations and the availability of resources. It will be revised as necessary to cover progress and changes in technology and evidence from clinical practice.

Characterization of chlordecone distribution and elimination in ewes during daily exposure and depuration

To reduce the exposure of the French West Indies population to the pollutant chlordecone (CLD), the contamination of consumed products must be reduced. One of the strategies to secure safe animal products is related to the depuration of contaminated animals. In order to set up this strategy in situ, characterizing CLD distribution and elimination appears to be essential. The aim of this study is to characterize CLD distribution and elimination in ewes, and establish correlations between CLD concentrations in tissues following a continuous oral contamination period and a depuration period. The experiment consisted in a 90-d period of CLD exposure via daily feeding at 0.01 mg kg^-1 body weight, followed by a 127-d period of depuration. A total of 24 ewes were sequentially slaughtered and serum, liver, perirenal fat, subcutaneous fat, shaft muscle, longissimus dorsi muscle and heart samples were collected. CLD concentrations in serum and tissues were analyzed by GC-MS/MS and LC-MS/MS, respectively. Whatever the time of sampling, CLD concentrations in liver were significantly higher than in other collected tissues. However, the results showed that fat tissues stored the higher portion of CLD body burden, followed by muscle, liver, serum and heart. CLD half-lives did not differ significantly between tissues including serum and ranged between 20.2 ± 4.0 and 24.1 ± 4.9 d. Two linear models were developed to estimate CLD concentration in tissues from a blood sample. This study illustrates the theoretical methodology to estimate the time required to decontaminate farm animals from a blood sample.

Efficient isolation and purification of tissue-specific protoplasts from tea plants (Camellia sinensis (L.) O. Kuntze)

BACKGROUND

Plant protoplasts constitute unique single-cell systems that can be subjected to genomic, proteomic, and metabolomic analysis. An effective and sustainable method for preparing protoplasts from tea plants has yet to be established. The protoplasts were osmotically isolated, and the isolation and purification procedures were optimized. Various potential factors affecting protoplast preparation, including enzymatic composition and type, enzymatic hydrolysis duration, mannitol concentration in the enzyme solution, and iodixanol concentration, were evaluated.

RESULTS

The optimal conditions were 1.5% (w/v) cellulase and 0.4-0.6% (w/v) macerozyme in a solution containing 0.4 M mannitol, enzymatic hydrolysis over 10 h, and an iodixanol concentration of 65%. The highest protoplast yield was 3.27 × 10⁶ protoplasts g^-1 fresh weight. As determined through fluorescein diacetate staining, maximal cell viability was 92.94%. The isolated protoplasts were round and regularly shaped without agglomeration, and they were less than 20 μm in diameter. Differences in preparation, with regard to yield and viability in the tissues (roots, branches, and leaves), cultivars, and cultivation method, were also observed.

CONCLUSIONS

In summary, we reported on a simple, efficient method for preparing protoplasts of whole-organ tissue from tea plant. The findings are expected to contribute to the rapid development of tea plant biology.

Effect of magnetic field on the growth of the cultured Entamoeba histolytica isolated from patients in Palestine

Static magnetic field (SMF) is generated in vicinity of moving charge or current passing through conductor. In this study, we aimed to investigate the effect of SMF on the growth of the cultured Entamoeba histolytica (E. histolytica) trophozoites. Different SMF strengths with maximum value equals 30 mT (mT) was applied on the E.histolytica for different periods of times: 0 h, 24 h, 48 h, and 72 h. A modified diphasic liver infusion agar medium was used for culturing E. histolytica in vitro. The results showed the successful stabilization of culture of E. histolytica trophozoites. If we kept the sample for longer time, e. g. 14 days, the growth rate decreases to zero. When applying 10 mT and 15 mT SMF on the sample, it is found that the cultivated E. histolytica trophozoites dies after 4 and 2 days respectively. The experiments suggested that the SMF inhibited the growth and the propagation of E. histolytica cells. In addition, it completely killed all the cells in a short time interval which depend on the SMF strength. It is concluded that the SMFs inhibits the growth of E. histolytica and change the morphology of these cells. Thus, we recommend to use SMF as treatment to mitigate the growth of E. histolytica.

Effect of the dose on the toxicokinetics of a quaternary mixture of rare earth elements administered to rats

Large human biomonitoring studies are starting to assess exposure to rare earth elements (REEs). Yet, there is a paucity of data on the toxicokinetics of these substances to help interpret biomonitoring data. The objective of the study was to document the effect of the administered dose on the toxicokinetics of REEs. Male Sprague-Dawley rats were injected intravenously with 0.3, 1 or 10 mg/kg body weight (bw) of praseodynium chloride (PrCl3), cerium chloride (CeCl3), neodymium chloride (NdCl3) and yttrium chloride (YCl3) administered together as a mixture. Serial blood samples were withdrawn up to 72 h following injection, and urine and feces were collected at predefined time intervals up to 7 days post-dosing. The REEs were measured by Inductively Coupled Plasma Mass Spectrometry (ICP-MS). For a given REE dose, the time courses in blood, urine and feces were similar for all four REEs. However, the REE dose administered significantly impacted their kinetics, as lower cumulative excretion in urine and feces was associated with higher REE doses. The fraction of REE remaining in rat tissues at the terminal necropsy on post-dosing day 7 also increased with the dose administered, most notably in the lungs and spleen at the 10 mg/kg bw dose. The toxicokinetic parameters calculated from the blood concentration-time profiles further showed significant increases in the mean residence time (MRTIV) for all four REEs at the 10 mg/kg bw dose. The shift in the REE kinetics at high dose may be explained by a higher retention in lysosomes, the main organelle responsible for accumulation of these REEs in different tissues.

Effects of Pesticides on the Diversity of Endophytic Fungi in Tea Plants

We examined the effects of agrochemicals on the endophytic fungal community associated with tea plants. Endophytic fungi were isolated from four different tea plant tissues (bark, xylem, old leaves, new leaves) collected from pesticide-treated and untreated plots. In pesticide-treated plot, the acaricides, fungicides, and insecticides are typically applied 3 times each year. The infection rate was slightly lower in the pesticide-treated plot, but the difference between plots was not statistically significant. Colletotrichum camelliae, Phyllosticta capitalensis, and Pleosporales sp. were common endophytes in both plots. Among a total of 41 fungal species, only 21 were considered common endophytes. Colletotrichum pseudomajus was the predominant endophyte in the bark tissue in the untreated plot, whereas C. camelliae was predominant in the pesticide-treated plot. Paraphaeosphaeria neglecta and Phoma bellendis were predominant in the xylem tissues of samples from the untreated and treated plots, respectively. Colletotrichum camelliae was the most commonly found species in leaf tissues in both plots, but the colonization frequency was significantly lower in the pesticide-treated plot. Species richness was not affected by pesticide treatment. The community structure of endophytic fungi in stem tissues (bark and xylem) differed significantly between plots, but leaf tissue endophytic fungal community structure was not significantly influenced by pesticide treatment.

[Donation in the Cardiology Hospital No. 34]

BACKGROUND

Chronic degenerative diseases have become a challenge for the Mexican health system. Faced with this problem, health institutions have focused on the therapeutic potential of organ and tissue donation and transplantation.

OBJECTIVE

To analyze the experience of the donation program and to identify areas of opportunity at the Hospital de Cardiología No. 34 (Hospital of Cardiology Number 34), in Monterrey, Nuevo León, Mexico.

MATERIAL AND METHODS

Observational, cross-sectional, and retrospective study. The study population was made up by deaths and successful interviews. Only groupings with values of p < 0.05 were considered statistically significant.

RESULTS

A global of 1947 deaths were registered and a total of 210 interviews were carried out; 83 (39.5%) family members accepted to donate and 127 (60.5%) refused to donate. Only 3 associations between variables had significant statistical value. The year was an important determinant in the increase in effective donations (p = 0.010), and so was the month of the year (p = 0.037), obtaining more positive interviews in the second half of the year; finally, the shift also contributed to the family response (p = 0.012), with the morning shift being the best shift to conduct a successful family interview.

CONCLUSIONS

It is imperative to conduct studies that analyze and describe the experience of donation programs to promote and encourage the value of donation.

Trophic transfer potential of nTiO2, nZnO, and triclosan in an algae-algae eating fish food chain

Little is known about the trophic transfer of nanoparticles and personal care products via dietary exposure in an algae-algae eating fish food chain. The bioaccumulation of nano-TiO₂ (P25 - nTiO₂), nano-ZnO (nZnO), and triclosan (TCS) in eight different combinations were explored in this study through algae, Asterococcus superbus, to fish, Gyrinocheilus aymonieri. Results found the bioaccumulation of TCS changed with algal biomass, while the bioaccumulation of Ti and Zn varied with the amount of lipids and proteins in algal cells. In algae, Ti was in the form of nTiO₂ and Zn in the form of zinc ion. Due to dietary exposure, Ti and Zn quantity in fish was closely related to that in algae. The quantity of Ti and Zn in algae and fish exposed to the interaction of nTiO₂ * nZnO* TCS was higher than that in other treatments. The uptake of Ti and Zn in algae exposed to the interaction of nTiO₂ * nZnO had been inhibited, and the corresponding fish also had less Ti and Zn in their tissues. nTiO₂-containing treatments had higher Ti proportion in muscle than gill in fish. Treatment nZnO had the most Zn in gill, whereas nZnO * TCS-containing treatments had higher Zn proportion in gut than other tissues. No observation of TCS in fish in all treatments suggested the removal and metabolism of TCS might be induced by tissue recovery and acclimation. This is the first report on trophic transfer of mixed nanoparticles and personal care product in an algae-algae eating fish two-stage food chain.

Direct quantitative profiling of amino acids in tissues for the assessment of lung cancer

Direct molecular analysis of tissue samples is a promising approach to increase the accuracy, speed and molecular specificity of cancer diagnosis. Herein, alterations of amino acids between human lung cancer tissues and matched adjacent normal tissues were profiled by internal extraction electrospray ionization mass spectrometry (iEESI-MS). The results indicated that the levels of 11 detected amino acids (including serine, proline, valine, threonine, asparagine, aspartic acid, methionine, histidine, phenylalanine, arginine and tyrosine) in the cancerous tissues were lower than that in the adjacent normal tissues. Based on the orthogonal partial least squares discriminant analysis (OPLS-DA) model, cancerous and adjacent normal tissues were clearly discriminated, and the amino acids that played the major role in the differentiation between cancerous and adjacent normal tissues were identified. Moreover, metabolic pathway analysis revealed alterations of differential amino acids in several metabolic pathways upon lung cancer. The current study extends the power of iEESI-MS as a promising tool for quantitative characterization of amino acids in tissues, and allows the study of alterations in amino acids metabolism associated with the development of lung cancer.

Ensemble of transfer learnt classifiers for recognition of cardiovascular tissues from histological images

Recognition of tissues and organs is a recurrent step performed by experts during analyses of histological images. With advancement in the field of machine learning, such steps can be automated using computer vision methods. This paper presents an ensemble-based approach for improved classification of non-pathological tissues and organs in histological images using convolutional neural networks (CNNs). With limited dataset size, we relied upon transfer learning where pre-trained CNNs are re-used for new classification problems. The transfer learning was done using eleven CNN architectures upon 6000 image patches constituting training and validation subsets of a public dataset containing six cardiovascular categories. The CNN models were fine-tuned upon a much larger dataset obtained by augmenting training subset to obtain agreeable performance on validation subset. Lastly, we created various ensembles of trained classifiers and evaluate them on testing subset of 7500 patches. The best ensemble classifier gives, precision, recall, and accuracy of 0.876, 0.869 and 0.869, respectively upon test images. With an overall F₁-score of 0.870, our ensemble-based approach outperforms previous approaches with single fine-tuned CNN, CNN trained from scratch, and traditional machine learning by 0.019, 0.064 and 0.183, respectively. Ensemble approach can perform better than individual classifier-based ones, provided the constituent classifiers are chosen wisely. The empirical choice of classifiers reinforces the intuition that models which are newer and outperformed in their native domain are more likely to outperform in transferred-domain, since the best ensemble dominantly consists of more lately proposed and better architectures.

Detection of insulins in postmortem tissues: an optimized workflow based on immunopurification and LC-MS/HRMS detection

Diabetes is a worldwide disease in perpetual expansion. Type 1 and sometimes type 2 diabetic patients require daily human insulin (HI) or analog administration. Easy access to insulins for insulin-treated diabetics, their relatives, and medical professionals can enable abuse for suicidal or homicidal purpose. However, demonstrating insulin overdose in postmortem blood is challenging. Tissue analyses are contributive, as insulins can accumulate before death or undergo only limited degradation. The present study describes an assay for HI and synthetic analogs (lispro, aspart, glulisine, detemir and degludec, glargine and its main metabolite (M1)) in liver, kidney, muscle, and injection site samples. It is based on a 5-step sample preparation (reduction of tissue sample size, homogenization, extraction, concentration, and immunopurification) associated with liquid chromatography coupled to high-resolution mass spectrometry (LC-MS/HRMS). Selectivity and limit of detection (LOD) for all target analogs were assessed in the above matrices. LOD was determined at 25 ng/g for HI and for analogs except detemir and degludec, where LOD was 50 ng/g in kidney and injection site samples and 80 ng/g in the liver and muscle. The method was applied to13 forensic cases in which insulin use was suspected.

A fluorescent probe for specific detection of β-galactosidase in living cells and tissues based on ESIPT mechanism

β-galactosidase is of great significance to living organisms, which is an important marker of primary ovarian cancer and cellular senescence. To detect the activity of β-galactosidase, a novel fluorescent probe ESIPT-GAL which based on excited state intramolecular proton transfer (ESIPT) mechanism for detecting β-galactosidase is developed in this work with low background fluorescence and high sensitivity (Φ_F = 0.0045-0.2409). The fluorescence intensity at 552 nm of this probe increased by ~ 55 times with β-galactosidase addition (0-4 U/mL), and its detection limit is very low (3.9 × 10^-5 U/mL). In addition, the spectral data (pseudo-first-order rate: 1.303 min^-1) and enzyme kinetic parameter (V_max = 69.5 μΜ•S^-1) both show that the probe can achieve rapid response to β-galactosidase. Moreover, the probe has good water solubility, which ensures that it has good biocompatibility and can be easily applied to detect β-galactosidase in living cells and tissues. Importantly, the probe ESIPT-GAL can monitor β-galactosidase in deep mouse tissue sections (90 μm).