Benthic fluxes refer to the exchange rates of nutrients and other compounds between the water column and the sediment bed in aquatic ecosystems. Their quantification contributes to our understanding of aquatic ecosystem functioning. Near-bed hydrodynamics plays an important role at the sediment-water interface, especially in shallow lakes, but it is poorly considered by traditional measuring techniques of flux quantification, such as sediment incubations. Thus, alternative sampling techniques are needed to characterize key benthic fluxes under in-situ hydrodynamic conditions. This study aimed to evaluate the performance of two promising methods: relaxed eddy accumulation (REA) and mass transfer coefficient (MTC). We applied them in a hyper-eutrophic shallow lake to measure the fluxes of ammonium, phosphate, iron, and manganese ions. For the first time, REA revealed hourly nutrient flux variations, indicating a strong lake biogeochemical dynamics at short time-scales. Daily average fluxes are of similar orders of magnitude for REA and MTC for ammonium (24 and 42 mmol m2 d-1), manganese (1.0 and 0.8), and iron (0.8 and 0.7) ions. They are one order of magnitude higher than fluxes estimated from sediment incubations, due to the difficulty in reproducing in-situ oxygen and hydrodynamic conditions in the laboratory. Although the accuracy of both techniques needs to be improved, the results revealed their potential: REA follows the short-term biogeochemical dynamics of sediments, while MTC could be widely used for lake monitoring because of its simpler implementation.
- Klíčová slova
- Biogeochemistry, Hydrodynamics, Mass transfer coefficient, Relaxed eddy accumulation, Sediment, Sediment-water interface,
- MeSH
- amoniové sloučeniny * analýza MeSH
- chemické látky znečišťující vodu * analýza MeSH
- ekosystém MeSH
- eutrofizace MeSH
- fosfáty analýza MeSH
- geologické sedimenty * chemie MeSH
- hydrodynamika MeSH
- jezera * chemie MeSH
- mangan analýza MeSH
- monitorování životního prostředí * metody MeSH
- železo analýza MeSH
- Publikační typ
- časopisecké články MeSH
- Názvy látek
- amoniové sloučeniny * MeSH
- chemické látky znečišťující vodu * MeSH
- fosfáty MeSH
- mangan MeSH
- železo MeSH
Elevated environmental levels of elements originating from anthropogenic activities threaten natural communities and public health, as these elements can persist and bioaccumulate in the environment. However, their environmental risks and bioaccumulation patterns are often habitat-, species- and element-specific. We studied the bioaccumulation patterns of 11 elements in seven freshwater taxa in post-mining habitats in the Czech Republic, ranging from less polluted mining ponds to highly polluted fly ash lagoons. We found nonlinear, power-law relationships between the environmental and tissue concentrations of the elements, which may explain differences in bioaccumulation factors (BAF) reported in the literature. Tissue concentrations were driven by the environmental concentrations in non-essential elements (Al, As, Co, Cr, Ni, Pb and V), but this dependence was limited in essential elements (Cu, Mn, Se and Zn). Tissue concentrations of most elements were also more closely related to substrate than to water concentrations. Bioaccumulation was habitat specific in eight elements: stronger in mining ponds for Al and Pb, and stronger in fly ash lagoons for As, Cu, Mn, Pb, Se, V and Zn, although the differences were often minor. Bioaccumulation of some elements further increased in mineral-rich localities. Proximity to substrate, rather than trophic level, drove increased bioaccumulation levels across taxa. This highlights the importance of substrate as a pollutant reservoir in standing freshwaters and suggests that benthic taxa, such as molluscs (e.g., Physella) and other macroinvertebrates (e.g., Nepa), constitute good bioindicators. Despite the higher environmental risks in fly ash lagoons than in mining ponds, the observed ability of freshwater biota to sustain pollution supports the conservation potential of post-industrial sites. The power law approach used here to quantify and disentangle the effects of various bioaccumulation drivers may be helpful in additional contexts, increasing our ability to predict the effects of other contaminants and environmental hazards on biota.
- Klíčová slova
- Coal combustion residues, Fish, Heavy metals, Macroinvertebrates, Microhabitat, Trace elements, Trophic level,
- Publikační typ
- časopisecké články MeSH
Deposits of fly ash and other coal combustion wastes are common remnants of the energy industry. Despite their environmental risks from heavy metals and trace elements, they have been revealed as refuges for threatened terrestrial biodiversity. Surprisingly, freshwater biodiversity of fly ash sedimentation lagoons remains unknown despite such lack of knowledge strongly limits the efficient restoration of fly ash deposits. We bring the first comprehensive survey of freshwater biodiversity, including nekton, benthos, zooplankton, phytoplankton, and macrophytes, in fly ash lagoons across industrial regions of the Czech Republic. To assess their conservation potential, we compared their biodiversity with abandoned post-mining ponds, the known strongholds of endangered aquatic species in the region with a shortage of natural ponds. Of 28 recorded threatened species, 15 occurred in the studied fly ash lagoons, some of which were less abundant or even absent in the post-mining ponds. These are often species of nutrient-poor, fishless waters with rich vegetation, although some are specialised extremophiles. Species richness and conservation value of most groups in the fly ash lagoons did not significantly differ from the post-mining ponds, except for species richness of benthos, zooplankton, and macrophytes, which were slightly lower in the fly ash lagoons. Although the concentrations of some heavy metals (mainly Se, V, and As) were significantly higher in the fly ash lagoons, they did not significantly affect species richness or conservation value of the local communities. The differences in species composition therefore does not seem to be caused by water chemistry. Altogether, we have shown that fly ash lagoons are refuges for threatened aquatic species, and we thus suggest maintaining water bodies during site restoration after the cessation of fly ash deposition. Based on our analyses of environmental variables, we discuss suitable restoration practices that efficiently combine biodiversity protection and environmental risk reduction.
- Klíčová slova
- Aquatic communities, Biodiversity conservation, Energetic industry, Environmental pollution, Post-industrial sites, Restoration ecology,
- MeSH
- biodiverzita MeSH
- ekosystém MeSH
- popel uhelný * MeSH
- sladká voda MeSH
- těžké kovy * MeSH
- voda MeSH
- Publikační typ
- časopisecké články MeSH
- Názvy látek
- popel uhelný * MeSH
- těžké kovy * MeSH
- voda MeSH
Organic matter (OM) quantity, quality, and nutrient dynamics within twelve shallow lakes in the Czech Republic were assessed in the context of catchment soil pH and iron (Fe) concentration. The catchments of the lakes were classified into two categories: (i) slightly acidic (soil pH = 5.1-6.3) with Fe-rich soils (H_Fe; Fe = 315-344 mg kg-1 in Mehlich 3 extract); and (ii) neutral (soil pH = 6.8-7.6) with Fe-poor soils (L_Fe; Fe = 126-259 mg kg-1 in Mehlich 3 extract). The quality of OM in the two lake types was characterized using a combination of spectroscopic techniques (UV-Vis, fluorescence, and Fourier Transform Infrared spectroscopy). We show that dissolved nutrient and dissolved organic carbon (DOC) concentrations, as well as the amount of aromatic and protein-like compounds in the water column and sediment porewater were significantly (p < 0.01) lower in the H_Fe lakes compared to the waterbodies located within L_Fe catchments. The FTIR analyses of the H_Fe sediments contained higher relative concentrations of aromatic compounds with hydroxyl-containing functional groups and carbohydrates, while more aliphatic and oxidised OM was found in the L_Fe lake sediments. These results suggest that the pH value of catchment soils and, particularly, their Fe content have profound geochemical effects on the mobility of OM and nutrients in the sediments of recipient waters. Because the OM-Fe association stabilises OM in sediments, waterbodies within L_Fe catchments are likely more vulnerable to increasing eutrophication and oxygen depletion compared to those in H_Fe catchments and this has important implications for water quality management, risk assessment, and predictions of aquatic ecosystem vulnerability under conditions of accelerating climate change.
- Klíčová slova
- Dissolved organic matter, FTIR, Fractionation, Iron association, PARAFAC, Sediment, Stabilization,
- MeSH
- ekosystém * MeSH
- jezera chemie MeSH
- koncentrace vodíkových iontů MeSH
- půda * chemie MeSH
- rostlinné extrakty MeSH
- živiny MeSH
- Publikační typ
- časopisecké články MeSH
- Názvy látek
- půda * MeSH
- rostlinné extrakty MeSH
Various disease conditions can alter EEG event-related responses and fMRI-BOLD signals. We hypothesized that event-related responses and their clinical alterations are imprinted in the EEG spectral domain as event-related (spatio)spectral patterns (ERSPat). We tested four EEG-fMRI fusion models utilizing EEG power spectra fluctuations (i.e., absolute spectral model - ASM; relative spectral model - RSM; absolute spatiospectral model - ASSM; and relative spatiospectral model - RSSM) for fully automated and blind visualization of task-related neural networks. Two (spatio)spectral patterns (high δ 4 band and low β 1 band) demonstrated significant negative linear relationship (p FWE < 0.05) to the frequent stimulus and three patterns (two low δ 2 and δ 3 bands, and narrow θ 1 band) demonstrated significant positive relationship (p < 0.05) to the target stimulus. These patterns were identified as ERSPats. EEG-fMRI F-map of each δ 4 model showed strong engagement of insula, cuneus, precuneus, basal ganglia, sensory-motor, motor and dorsal part of fronto-parietal control (FPCN) networks with fast HRF peak and noticeable trough. ASM and RSSM emphasized spatial statistics, and the relative power amplified the relationship to the frequent stimulus. For the δ 4 model, we detected a reduced HRF peak amplitude and a magnified HRF trough amplitude in the frontal part of the FPCN, default mode network (DMN) and in the frontal white matter. The frequent-related β 1 patterns visualized less significant and distinct suprathreshold spatial associations. Each θ 1 model showed strong involvement of lateralized left-sided sensory-motor and motor networks with simultaneous basal ganglia co-activations and reduced HRF peak and amplified HRF trough in the frontal part of the FPCN and DMN. The ASM θ 1 model preserved target-related EEG-fMRI associations in the dorsal part of the FPCN. For δ 4, β 1, and θ 1 bands, all models provided high local F-statistics in expected regions. The most robust EEG-fMRI associations were observed for ASM and RSSM.
BACKGROUND AND OBJECTIVE: We present a fully automatic system based on learning approaches, which aims to localization and identification (labeling) of vertebrae in 3D computed tomography (CT) scans of possibly incomplete spines in patients with bone metastases and vertebral compressions. METHODS: The framework combines a set of 3D algorithms for i) spine detection using a convolution neural network (CNN) ii) spinal cord tracking based on combination of a CNN and a novel growing sphere method with a population optimization, iii) intervertebral discs localization using a novel approach of spatially variant filtering of intensity profiles and iv) vertebra labeling using a CNN-based classification combined with global dynamic optimization. RESULTS: The proposed algorithm has been validated in testing databases, including also a publicly available dataset. The mean error of intervertebral discs localization is 4.4 mm, and for vertebra labeling, the average rate of correctly identified vertebrae is 87.1%, which can be considered a good result with respect to the large share of highly distorted spines and incomplete spine scans. CONCLUSIONS: The proposed framework, which combines several advanced methods including also three CNNs, works fully automatically even with incomplete spine scans and with distorted pathological cases. The achieved results allow including the presented algorithms as the first phase to the fully automated computer-aided diagnosis (CAD) system for automatic spine-bone lesion analysis in oncological patients.
- Klíčová slova
- Convolution neural network, Learning-based approach, Pathological vertebrae, Vertebra detection,
- MeSH
- algoritmy MeSH
- databáze faktografické MeSH
- diagnóza počítačová MeSH
- lidé MeSH
- metastázy nádorů MeSH
- meziobratlová ploténka diagnostické zobrazování patologie MeSH
- nádory kostí diagnostické zobrazování patologie MeSH
- nemoci páteře diagnostické zobrazování MeSH
- neuronové sítě (počítačové) MeSH
- páteř diagnostické zobrazování patologie MeSH
- počítačová rentgenová tomografie * MeSH
- počítačové zpracování obrazu MeSH
- reprodukovatelnost výsledků MeSH
- rozpoznávání automatizované MeSH
- software MeSH
- zobrazování trojrozměrné metody MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
BACKGROUND: Spatial and temporal resolution of brain network activity can be improved by combining different modalities. Functional Magnetic Resonance Imaging (fMRI) provides full brain coverage with limited temporal resolution, while electroencephalography (EEG), estimates cortical activity with high temporal resolution. Combining them may provide improved network characterization. NEW METHOD: We examined relationships between EEG spatiospectral pattern timecourses and concurrent fMRI BOLD signals using canonical hemodynamic response function (HRF) with its 1st and 2nd temporal derivatives in voxel-wise general linear models (GLM). HRF shapes were derived from EEG-fMRI time courses during "resting-state", visual oddball and semantic decision paradigms. RESULTS: The resulting GLM F-maps self-organized into several different large-scale brain networks (LSBNs) often with different timing between EEG and fMRI revealed through differences in GLM-derived HRF shapes (e.g., with a lower time to peak than the canonical HRF). We demonstrate that some EEG spatiospectral patterns (related to concurrent fMRI) are weakly task-modulated. COMPARISON WITH EXISTING METHOD(S): Previously, we demonstrated 14 independent EEG spatiospectral patterns within this EEG dataset, stable across the resting-state, visual oddball and semantic decision paradigms. Here, we demonstrate that their time courses are significantly correlated with fMRI dynamics organized into LSBN structures. EEG-fMRI derived HRF peak appears earlier than the canonical HRF peak, which suggests limitations when assuming a canonical HRF shape in EEG-fMRI. CONCLUSIONS: This is the first study examining EEG-fMRI relationships among independent EEG spatiospectral patterns over different paradigms. The findings highlight the importance of considering different HRF shapes when spatiotemporally characterizing brain networks using EEG and fMRI.
- Klíčová slova
- Group-ICA, Large scale brain networks, Multi-subject blind source separation, Resting-state, Semantic decision, Simultaneous EEG-fMRI, Spatiospectral patterns, Visual oddball,
- MeSH
- dospělí MeSH
- elektroencefalografie metody MeSH
- funkční zobrazování neurálních procesů metody MeSH
- lidé MeSH
- magnetická rezonanční tomografie metody MeSH
- mladý dospělý MeSH
- nervová síť diagnostické zobrazování fyziologie MeSH
- neurovaskulární vazba fyziologie MeSH
- psycholingvistika MeSH
- velký mozek diagnostické zobrazování fyziologie MeSH
- zraková percepce fyziologie MeSH
- Check Tag
- dospělí MeSH
- lidé MeSH
- mladý dospělý MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Lake Medard is an oligotrophic post-mining lake characterised by ferruginous bottom waters, with marked redox gradients resulting from iron (Fe) and nitrogen (N) speciation and accompanying depth-dependent variations in the abundance of volatile fatty acids (VFAs), pH and alkalinity. The lacustrine system is meromictic, featuring a dysoxic hypolimnion and an anoxic monimolimnion with relatively high concentrations of sulfate (SO42-, 19 ± 2 mM) and Fe(ii) (127 ± 17 μM). An increase in dissolved manganese is also observed with increasing depth, together with a general lack of sulfide, which can only be detected at the sediment-water interface at concentrations of ∼0.30 μM. In the hypolimnion, nitrate (NO3-) becomes progressively depleted and ammonium (NH4+) dominates the dissolved N inventory (up to 185 ± 13 μM). Here we describe the biogeochemical disequilibrium conditions governing critical mineralogical transformations involving Fe and phosphorus (P) co-precipitation in the dysoxic-to-anoxic bottom water column. A combination of mineral equilibrium modelling and synchrotron-based diffraction and spectroscopic techniques was applied to investigate the minerals comprising the upper anoxic sediments. The combined dataset indicates that elemental recycling on and below the hypolimnion promote the precipitation of FeOOH polymorphs that accumulate as heterogeneous mineral clusters. Changes in the relative abundance of bacterioplankton taxa with increasing water depth point to a link between the activity of certain members of Proteobacteria and the co-recycling of carbon (C), N, and Fe stocks. Such a redox recycling process seems to lead to P stabilisation into organic-rich Fe-(oxyhydr)oxides near and above the anoxic sediment-water interface (SWI).
- MeSH
- dusík MeSH
- ekosystém * MeSH
- fosfor chemie MeSH
- geologické sedimenty chemie MeSH
- hornictví MeSH
- jezera chemie mikrobiologie MeSH
- koloběh dusíku MeSH
- mangan chemie MeSH
- minerály MeSH
- oxidace-redukce MeSH
- plankton MeSH
- sírany MeSH
- sulfidy chemie MeSH
- uhlík chemie MeSH
- vodní organismy MeSH
- železo chemie MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Česká republika MeSH
- Názvy látek
- dusík MeSH
- fosfor MeSH
- mangan MeSH
- minerály MeSH
- sírany MeSH
- sulfidy MeSH
- uhlík MeSH
- železo MeSH
This paper aims to address the segmentation and classification of lytic and sclerotic metastatic lesions that are difficult to define by using spinal 3D Computed Tomography (CT) images obtained from highly pathologically affected cases. As the lesions are ill-defined and consequently it is difficult to find relevant image features that would enable detection and classification of lesions by classical methods of texture and shape analysis, the problem is solved by automatic feature extraction provided by a deep Convolutional Neural Network (CNN). Our main contributions are: (i) individual CNN architecture, and pre-processing steps that are dependent on a patient data and a scan protocol - it enables work with different types of CT scans; (ii) medial axis transform (MAT) post-processing for shape simplification of segmented lesion candidates with Random Forest (RF) based meta-analysis; and (iii) usability of the proposed method on whole-spine CTs (cervical, thoracic, lumbar), which is not treated in other published methods (they work with thoracolumbar segments of spine only). Our proposed method has been tested on our own dataset annotated by two mutually independent radiologists and has been compared to other published methods. This work is part of the ongoing complex project dealing with spine analysis and spine lesion longitudinal studies.
- Klíčová slova
- CT analysis, Computer aided detection, Convolutional neural network, Spinal metastasis,
- MeSH
- lidé středního věku MeSH
- lidé MeSH
- nádory páteře diagnostické zobrazování sekundární MeSH
- neuronové sítě (počítačové) * MeSH
- počítačová rentgenová tomografie * MeSH
- rentgenový obraz - interpretace počítačová metody MeSH
- senioři nad 80 let MeSH
- senioři MeSH
- zobrazování trojrozměrné * MeSH
- Check Tag
- lidé středního věku MeSH
- lidé MeSH
- mužské pohlaví MeSH
- senioři nad 80 let MeSH
- senioři MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
OBJECTIVE: Growing interest in the examination of large-scale brain network functional connectivity dynamics is accompanied by an effort to find the electrophysiological correlates. The commonly used constraints applied to spatial and spectral domains during electroencephalogram (EEG) data analysis may leave part of the neural activity unrecognized. We propose an approach that blindly reveals multimodal EEG spectral patterns that are related to the dynamics of the BOLD functional network connectivity. APPROACH: The blind decomposition of EEG spectrogram by parallel factor analysis has been shown to be a useful technique for uncovering patterns of neural activity. The simultaneously acquired BOLD fMRI data were decomposed by independent component analysis. Dynamic functional connectivity was computed on the component's time series using a sliding window correlation, and between-network connectivity states were then defined based on the values of the correlation coefficients. ANOVA tests were performed to assess the relationships between the dynamics of between-network connectivity states and the fluctuations of EEG spectral patterns. MAIN RESULTS: We found three patterns related to the dynamics of between-network connectivity states. The first pattern has dominant peaks in the alpha, beta, and gamma bands and is related to the dynamics between the auditory, sensorimotor, and attentional networks. The second pattern, with dominant peaks in the theta and low alpha bands, is related to the visual and default mode network. The third pattern, also with peaks in the theta and low alpha bands, is related to the auditory and frontal network. SIGNIFICANCE: Our previous findings revealed a relationship between EEG spectral pattern fluctuations and the hemodynamics of large-scale brain networks. In this study, we suggest that the relationship also exists at the level of functional connectivity dynamics among large-scale brain networks when no standard spatial and spectral constraints are applied on the EEG data.
- MeSH
- časové faktory MeSH
- dospělí MeSH
- elektroencefalografie metody MeSH
- lidé MeSH
- magnetická rezonanční tomografie metody MeSH
- mladý dospělý MeSH
- mozek diagnostické zobrazování fyziologie MeSH
- nervová síť diagnostické zobrazování fyziologie MeSH
- Check Tag
- dospělí MeSH
- lidé MeSH
- mladý dospělý MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
