Dataset for image classification with knowledge.

Deep learning applied to raw data has demonstrated outstanding image classification performance, mainly when abundant data is available. However, performance significantly degrades when a substantial volume of data is unavailable. Furthermore, deep architectures struggle to achieve satisfactory performance levels when distinguishing between distinct classes, such as fine-grained image classification, is challenging. Utilizing a priori knowledge alongside raw data can enhance image classification in demanding scenarios. Nevertheless, only a limited number of image classification datasets given with a priori knowledge are currently available, thereby restricting research efforts in this field. This paper introduces innovative datasets for the classification problem that integrate a priori knowledge. These datasets are built from existing data typically employed for multilabel multiclass classification or object detection. Frequent closed itemset mining is used to create classes and their corresponding attributes (e.g. the presence of an object in an image) and then to extract a priori knowledge expressed by rules on these attributes. The algorithm for generating rules is described.

Long-term agricultural reuse of treated wastewater and sewage sludge: developing a Time to Critical Content Index for metal species.

This study evaluates the sustainability of spreading wastewater or sewage sludge on agricultural land, balancing benefits with contamination risks. Conventional ecological risk indices often fail to address the long-term accumulation of metals in soils. We investigate the feasibility of spreading based on current knowledge of potentially contaminating metals and their behavior in soil. We analyzed the speciation of metals (Ag, Cd, Co, Cr, Cu, Ni, Pb, Ti, Zn) through sequential extraction in sludge, treated wastewater, and soils after 14 years of application of sewage sludge and treated wastewater issued from an Algerian wastewater treatment plant. We introduce a Time to Critical Content Index (TCCI) that calculates the time required to reach critical levels of potentially mobile metals, considering total metal content and speciation. The TCCI takes into account product knowledge, soil characteristics, metal behavior, ecological/toxicological thresholds, and regulations. Applied to our case study, the TCCI indicates that spreading sewage sludge can continue despite metal contents exceeding regulatory ceiling values. The index serves as a precautionary measure, adaptable to evolving knowledge, providing a comprehensive framework for sustainable agricultural practices.

Nanoplastic production procedure for scientific purposes: PP, PVC, PE-LD, PE-HD, and PS.

Studies on the environmental impact of nanoplastics face challenges in plastic analysis and a scarcity of nanoplastic materials necessary for the development of analytical techniques and experiments on biota impact. Here we provide detailed procedures for obtaining nanoparticles suspended in water for the most commonly used polymers: Polypropylene (PP), Polyvinylchloride (PVC), Low- and High-Density Polyethylene (PE-LD, PE-HD), and Polystyrene (PS). We dissolved larger size material to reprecipitate nanoparticles. For all plastic types, we obtained nanoparticles with a size between 50 and 300 nm, and a mainly spherical morphology. We verified that no irreversible agglomeration or coalescence of the particles occurred after 5 days of storage. The concentrations obtained in the final carrier solution were of the order of 109 particles mL-1. To prevent the persistence of reagents in the final carrier solution, a filtration step was implemented at the end of the process. The method proved unsuitable for Polyethylene Terephthalate (PET).

Metal speciation in sludges: a tool to evaluate risks of land application and to track heavy metal contamination in sewage network.

The agricultural spreading of dehydrated sewage sludge from urban sewage treatment plants is economically profitable provided that the soil agronomic quality and the absence of contamination, in particular of heavy metals, are maintained. We evaluated the variability of sludge between five treatment plants in northern Algeria. We determined parameters that account for their agronomic quality and total content of Ag, Cd, Co, Cr, Cu, Ni, Pb, Ti and Zn. The speciation of metals, which determines their bioavailability, was characterized by sequential extraction into five fractions: easily exchangeable, acid-soluble, bound to carbonates and Fe-sulphides, bound to Fe-Mn oxides, bound to organic matter or sulphides, residual. All the sludges analysed showed satisfactory properties for plant growth. High total Ni contents for three of the sludges indicated that they were not landfillable under French or Chinese regulations. Ni, however, was contained in poorly bioavailable fractions and therefore presented a low risk to soils. In contrast, the total Cu was lower than the regulatory limit values, but mainly contained in very bioavailable fractions whose accumulation over time could reach toxic levels for plants over a period of 3 to 11 years depending on the sludges. These results showed that regulations are not adapted and must take into account the bioavailability with regard to the characteristics of the soils on which to spread. The speciation of metals in the sludge has also, on the one hand, made it possible to identify the zone of the sewerage network in which the sources of contamination must be sought and, on the other hand, has given indications on the possible nature of these sources.

Considering the ionic strength for proper use of 1 or 2-ligands model for static fluorescence quenching or enhancement.

We formally describe a 1- or 2-ligands fluorescence quenching or exhaustion model that takes ionic strength into account. We give ready-to-use formulas, which are easy to implement on a common spreadsheet, to determine complexing capacities and apparent stability constants of fluorescence ligands by adjusting quenching or enhancing experimental curves. The strength of our model is to consider parameters that have rarely taken in account in the literature, resulting in a significant improvement in the quality of the modeling: the charge associated with one or two ligands, and ionic strength. The model predicted fluorescence at various ionic strengths from parameters determined at a given ionic strength. This model is suitable for many applications, such as complexation of dissolved natural organic matter with metal ions, even in sea water, or biologic media.

Evidence of humic acid-aluminium­silicon complexes under controlled conditions.

The chemistry of silicon (Si), the second most abundant element in soil after oxygen, is not yet fully understood in the soil-water-plant continuum. Although Si is widely accepted as an element that has little or no interaction with natural organic matter, some data seems to show the opposite. To identify a potential interaction between natural organic matter and Si, batch experiments were achieved at various pH and Si concentrations, involving also Al3+ as a common ion in soil and using humic acid (HA) as a typical model for natural organic matter. Several complementary techniques were used to characterize the possible complexes formed in the dissolved or solid phases: molecular fluorescence spectroscopy, 29Si solid-state NMR, Fourier transform infrared spectroscopy, quantification of Si, Al and organic carbon, and nanoparticle size distribution. These tools revealed that humic acid indeed interacts, but weakly, with Si alone. In the presence of Al, however, a ternary complex HA-Al-Si forms, likely with Al as the bridging atom. The presence of Si promotes the maintenance of both Al and dissolved organic matter (DOM) in solution, which is likely to modify the result or the kinetics of pedogenesis. Such complexes can also play a role in the control of Al toxicity towards plants and probably also exists with other metals, such as Fe or Mn, and other metalloids such as As.

Optical biopsy mapping on endoscopic image mosaics with a marker-free probe.

Gastric cancer is the second leading cause of cancer-related deaths worldwide. Early diagnosis significantly increases the chances of survival; therefore, improved assisted exploration and screening techniques are necessary. Previously, we made use of an augmented multi-spectral endoscope by inserting an optical probe into the instrumentation channel. However, the limited field of view and the lack of markings left by optical biopsies on the tissue complicate the navigation and revisit of the suspect areas probed in-vivo. In this contribution two innovative tools are introduced to significantly increase the traceability and monitoring of patients in clinical practice: (i) video mosaicing to build a more comprehensive and panoramic view of large gastric areas; (ii) optical biopsy targeting and registration with the endoscopic images. The proposed optical flow-based mosaicing technique selects images that minimize texture discontinuities and is robust despite the lack of texture and illumination variations. The optical biopsy targeting is based on automatic tracking of a free-marker probe in the endoscopic view using deep learning to dynamically estimate its pose during exploration. The accuracy of pose estimation is sufficient to ensure a precise overlapping of the standard white-light color image and the hyperspectral probe image, assuming that the small target area of the organ is almost flat. This allows the mapping of all spatio-temporally tracked biopsy sites onto the panoramic mosaic. Experimental validations are carried out from videos acquired on patients in hospital. The proposed technique is purely software-based and therefore easily integrable into clinical practice. It is also generic and compatible to any imaging modality that connects to a fiberscope.

Pose estimation of a markerless fiber bundle for endoscopic optical biopsy.

Purpose: We present a markerless vision-based method for on-the-fly three-dimensional (3D) pose estimation of a fiberscope instrument to target pathologic areas in the endoscopic view during exploration. Approach: A 2.5-mm-diameter fiberscope is inserted through the endoscope's operating channel and connected to an additional camera to perform complementary observation of a targeted area such as a multimodal magnifier. The 3D pose of the fiberscope is estimated frame-by-frame by maximizing the similarity between its silhouette (automatically detected in the endoscopic view using a deep learning neural network) and a cylindrical shape bound to a kinematic model reduced to three degrees-of-freedom. An alignment of the cylinder axis, based on Plücker coordinates from the straight edges detected in the image, makes convergence faster and more reliable. Results: The performance on simulations has been validated with a virtual trajectory mimicking endoscopic exploration and on real images of a chessboard pattern acquired with different endoscopic configurations. The experiments demonstrated a good accuracy and robustness of the proposed algorithm with errors of 0.33 ± 0.68 mm in distance position and 0.32 ± 0.11 deg in axis orientation for the 3D pose estimation, which reveals its superiority over previous approaches. This allows multimodal image registration with sufficient accuracy of < 3 pixels . Conclusion: Our pose estimation pipeline was executed on simulations and patterns; the results demonstrate the robustness of our method and the potential of fiber-optical instrument image-based tracking for pose estimation and multimodal registration. It can be fully implemented in software and therefore easily integrated into a routine clinical environment.

Wound Size Imaging: Ready for Smart Assessment and Monitoring.

Significance: We introduce and evaluate emerging devices and modalities for wound size imaging and also promising image processing tools for smart wound assessment and monitoring. Recent Advances: Some commercial devices are available for optical wound assessment but with limited possibilities compared to the power of multimodal imaging. With new low-cost devices and machine learning, wound assessment has become more robust and accurate. Wound size imaging not only provides area and volume but also the proportion of each tissue on the wound bed. Near-infrared and thermal spectral bands also enhance the classical visual assessment. Critical Issues: The ability to embed advanced imaging technology in portable devices such as smartphones and tablets with tissue analysis software tools will significantly improve wound care. As wound care and measurement are performed by nurses, the equipment needs to remain user-friendly, enable quick measurements, provide advanced monitoring, and be connected to the patient data management system. Future Directions: Combining several image modalities and machine learning, optical wound assessment will be smart enough to enable real wound monitoring, to provide clinicians with relevant indications to adapt the treatments and to improve healing rates and speed. Sharing the wound care histories of a number of patients on databases and through telemedicine practice could induce a better knowledge of the healing process and thus a better efficiency when the recorded clinical experience has been converted into knowledge through deep learning.

Soil sample conservation from field to lab for heterotrophic respiration assessment.

We evaluated (1) whether the sample transport time could lead to a significant loss of carbon through microbial respiration and to a change of measured respiration rates, which can be a problem in areas difficult to access, with a long travel time from field to laboratory; (2) whether the method used to quantify heterotrophic respiration for agricultural soils is adequate for horizons that remain always water-saturated or close to saturation. Surface horizons and deep Bh of Amazonian podzols were sampled and kept under refrigeration to maintain moisture of sampling time. Incubations of aliquot of the same sample were initiated on the sampling day and 3, 6, 9 and 12 days after sampling. Other aliquots were conducted on a tension table to given water potential (60 cm H2O) prior to incubation.•Soil samples, whether disturbed or not, should not be dried but kept at sampling moisture in semi-open plastic bags under refrigeration at 4 °C, respiration monitoring must be conducted without prior water potential adjustment.•In such conditions,12 days between sampling and beginning of measurement did not affected respiration results.•The method used for agricultural soils gave different results and does not make sense for soils under perudic moisture regime.

PDMPO: a specific silicon or silica, pH sensitive fluorescent probe?

In order to understand Si behavior and biodisponibility in soils and plants, we evaluated the use of PDMPO (2-(4-pyridyl)-5-((4-(2-dimethylaminoethylaminocarbamoyl)methoxy)phenyl)oxazole) that was supposed to be a Si-specific fluorescence marker and to have a pH-dependent fluorescence. We studied the interactions between PDMPO and water-dissolved Si, Al and natural organic matter (humic acids, HA). Six systems with different HA, Si and Al concentrations were studied by fluorescence spectroscopy at pH 4, 7 and 9. The Al-PDMPO complex was characterized by infrared spectroscopy and the particle size distribution in solution was characterized by nano tracking analysis. We found that when usual pH buffers are not present, the PDMPO fluorescence was not pH dependent and was not Si-specific. In the PDMPO-Si-HA system, the PDMPO fluorescence signals were greatly enhanced, suggesting the formation of highly fluorescent ternary HA-PDMPO-Si groups. When Al was added to the system, the fluorescence was strongly quenched, suggesting the formation of low-fluorescence quaternary HA-PDMPO-Si-Al groups. The PDMPO fluorescence is therefore greatly sensitive to complexable metals and to natural organic matter and is therefore difficult to be applied for the quantification of Si or pH in a complex medium.

Markerless tracking of micro-endoscope for optical biopsy in stomach.

This paper presents a landmark-free approach to estimate the fiberscope pose during endoscopic exploration for in-vivo optical biopsy. The fiberscope pose is estimated by fitting the projection of a virtual 3D cylinder into the endoscopic images. The cylinder axis is estimated based on the apparent contours using Plücker coordinates and its insertion is estimated by maximizing the similarity between binary masks. The performance of the method is evaluated on simulations: the mean Euclidian distance of fiberscopic tip between estimated pose and ground truth is 0.158 ± 0.113 mm. The in-vivo performance is assessed in two endoscopic sequences by comparing automatic RCF and manual segmentations in terms of angular deviation of the axis and Euclidian distance between the tip location. The estimation of the relative position of both cameras allows to perform registration between the two image modalities.

Long-term, low technicality sewage sludge amendment and irrigation with treated wastewater under Mediterranean climate: impact on agronomical soil quality.

We evaluated the agronomic quality of loam to clay-loam soils from a Mediterranean area, which have been submitted for more than 10 years to irregular and poorly controlled treated wastewater (TWW) irrigation and sewage sludge (SS) amendment, both TWW and SS issuing from a domestic effluent treatment plant. A soil was submitted to SS amendment only, another to TWW irrigation only, another to both treatments, and another was not submitted to any of these treatments. We found that the agronomic quality of the treated soils has not decreased. In treated soils, it was observed a slight increase of pH, an increase of the cation exchange capacity, and no change of either salinity or electrical conductivity. Sodium adsorption ratio and exchangeable sodium percentage remained satisfactory, below 13 and 15, respectively, and no infiltration problems were observed, indicating that rainwater percolation was sufficient to leach the salt brought by SS or TWW. The soil organic matter (SOM) increased in all SS-amended and/or TWW-irrigated soils, the increase being higher in SS-amended soils. The SOM kept a satisfactory C/N ratio, lower than 15; the SUVA (Specific UV Absorbance) and E2/E3 index showed normal characteristics of the water-extracted organic matter (WEOC). Both SS amendment and TWW irrigation brought high amounts of nutrients in the considered soils and increased the nutrients disponibility, especially regarding K and P, as shown by the nutrient concentrations in the soil water extracts. The pH increase does not seem to be a problem for the bioavailability of trace elements, at least regarding Cu, Zn, Co, and Fe. Complementary studies should be undertaken for Ni. These observations highlight the potential agronomical benefits of application of wastewater and sewage sludge, even without great technicality, the better results being obtained using both SS amendment and TWW irrigation.

Soil organic matter in podzol horizons of the Amazon region: Humification, recalcitrance, and dating.

Characteristics of soil organic matter (SOM) are important, especially in the Amazon region, which represents one of the world's most relevant carbon reservoirs. In this work, the concentrations of carbon and differences in its composition (humification indexes) were evaluated and compared for several horizons (0 to 390cm) of three typical Amazonian podzol profiles. Fluorescence spectroscopy was used to investigate the humic acid (HA) fractions of SOM isolated from the different samples. Simple and labile carbon structures appeared to be accumulated in surface horizons, while more complex humified compounds were leached and accumulated in intermediate and deeper Bh horizons. The results suggested that the humic acids originated from lignin and its derivatives, and that lignin could accumulate in some Bh horizons. The HA present in deeper Bh horizons appeared to originate from different formation pathways, since these horizons showed different compositions. There were significant compositional changes of HA with depth, with four types of organic matter: recalcitrant, humified, and old dating; labile and young dating; humified and young dating; and little humified and old dating. Therefore, the humification process had no direct relation with the age of the organic matter in the Amazonian podzols.

Hyperspectral interventional imaging for enhanced tissue visualization and discrimination combining band selection methods.

PURPOSE: Hyperspectral imaging is an emerging technology recently introduced in medical applications inasmuch as it provides a powerful tool for noninvasive tissue characterization. In this context, a new system was designed to be easily integrated in the operating room in order to detect anatomical tissues hardly noticed by the surgeon's naked eye. METHOD: Our LCTF-based spectral imaging system is operative over visible, near- and middle-infrared spectral ranges (400-1700 nm). It is dedicated to enhance critical biological tissues such as the ureter and the facial nerve. We aim to find the best three relevant bands to create a RGB image to display during the intervention with maximal contrast between the target tissue and its surroundings. A comparative study is carried out between band selection methods and band transformation methods. Combined band selection methods are proposed. All methods are compared using different evaluation criteria. RESULTS: Experimental results show that the proposed combined band selection methods provide the best performance with rich information, high tissue separability and short computational time. These methods yield a significant discrimination between biological tissues. CONCLUSION: We developed a hyperspectral imaging system in order to enhance some biological tissue visualization. The proposed methods provided an acceptable trade-off between the evaluation criteria especially in SWIR spectral band that outperforms the naked eye's capacities.

Fluorescence spectroscopy to study dissolved organic matter interactions with agrochemicals applied in Swiss vineyards.

UV/Vis fluorescence spectroscopy was used to study the possible interactions of dissolved organic matter (DOM) with the herbicide glyphosate and copper-based fungicide used in vineyards. The study focused on the role of DOM in the transport of these micropollutants from parcels to surface waters (river, lake). Soil solution and river water samples were collected in the Lavaux vineyard area, western Switzerland. Their fluorescence excitation emission matrices (EEM) were decomposed using parallel factor (PARAFAC) analysis, and compared to their content in glyphosate and copper. PARAFAC analysis of EEM of both types of samples showed the contribution of protein-like and humic-like fluorophores. In soil water samples, complexes between fulvic-like and humic-like fluorophores of DOM, copper, and glyphosate were likely formed. In surface water, DOM-copper and glyphosate-copper interactions were observed, but not between glyphosate and DOM.

Quantification of total carbon in soil using laser-induced breakdown spectroscopy: a method to correct interference lines.

The C cycle in the Brazilian forests is very important, mainly for issues addressed to climate changes and soil management. Assessing and understanding C dynamics in Amazonian soils can help scientists to improve models and anticipate scenarios. New methods that allow soil C measurements in situ are a crucial approach for this kind of region, due to the costs for collecting and sending soil samples from the rainforest to the laboratory. Laser-induced breakdown spectroscopy (LIBS) is a multielemental atomic emission spectroscopy technique that employs a highly energetic laser pulse for plasma production and requires neither sample preparation nor the use of reagents. As LIBS takes less than 10 s per sample measurement, it is considered a promising technique for in situ soil analyses. One of the limitations of portable LIBS systems, however, is the common overlap of the emission lines that cannot be spectrally resolved. In this study a method was developed capable of separating the Al interference from the C emission line in LIBS measurements. Two typical forest Brazilian soils rich in Al were investigated: a spodosol (Amazon Forest) and an oxisol (Atlantic Forest). Fifty-three samples were collected and analyzed using a low-resolution LIBS apparatus to measure the intensities of C lines. In particular, two C lines were evaluated, at 193.03 and 247.86 nm. The line at 247.86 nm showed very strong interference with Fe and Si lines, which made quantitative analysis difficult. The line at 193.03 nm showed interference with atomic and ionic Al emission lines, but this problem could be solved by applying a correction method that was proposed and tested in this work. The line at 247.86 was used to assess the proposed model. The strong correlation (Pearson's coefficient R=0.91) found between the LIBS values and those obtained by a reference technique (dry combustion by an elemental analyzer) supported the validity of the proposed method.

Selective extraction of PAHs from a sediment with structural preservation of Natural Organic Matter.

Selective extraction of Polycyclic Aromatic Hydrocarbons (PAH) without structural modification of the Natural Organic Matter (NOM) from a heavily contaminated sediment was investigated using various solvents mixtures. Structural modification of the NOM was monitored after extraction using 3D-fluorescence spectroscopy. Better results were obtained with a 15-h PAH extraction under reflux with a dichloromethane/cyclohexane 20/80 mixture. The experimental procedure was validated with NOM standard materials before to be applied on natural sediments. It could be applied to any environmental solid sample such as sediments and soils.

Enhanced assessment of the wound-healing process by accurate multiview tissue classification.

With the widespread use of digital cameras, freehand wound imaging has become common practice in clinical settings. There is however still a demand for a practical tool for accurate wound healing assessment, combining dimensional measurements and tissue classification in a single user-friendly system. We achieved the first part of this objective by computing a 3-D model for wound measurements using uncalibrated vision techniques. We focus here on tissue classification from color and texture region descriptors computed after unsupervised segmentation. Due to perspective distortions, uncontrolled lighting conditions and view points, wound assessments vary significantly between patient examinations. The main contribution of this paper is to overcome this drawback with a multiview strategy for tissue classification, relying on a 3-D model onto which tissue labels are mapped and classification results merged. The experimental classification tests demonstrate that enhanced repeatability and robustness are obtained and that metric assessment is achieved through real area and volume measurements and wound outline extraction. This innovative tool is intended for use not only in therapeutic follow-up in hospitals but also for telemedicine purposes and clinical research, where repeatability and accuracy of wound assessment are critical.

Synthesis of hydrochloric acid solution for total mercury determination in natural waters.

Total mercury (Hg(T)) determination requires the addition of concentrated hydrochloric acid solution (≥10 mol L(-1) HCl) in relatively high amounts to preserve the samples and to prepare reagent solutions. A method for the preparation of concentrated HCl with Hg(T) concentration of lower than 5 ng L(-1) is described in this article. It is based on the well-known chemical reaction: 2 NH(4)Cl + H(2)SO(4) → (NH(4))(2)SO(4) + 2 HCl. This method is validated thanks to the US Environmental Protection Agency method 1631 and standard reference materials BCR-579 (mercury in coastal seawater).