Positive matrix factorization
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The study intended to assess the level of pollution of potential toxic elements (PTEs) at different soil depths and to evaluate the source contribution in agricultural soil. One hundred and two soil samples were collected for both topsoil (51), and the subsoil (51) and the content of PTEs (Cr, Cu, Cd, Mn, Ni, Pb, As and Zn) were determined using inductively coupled plasma-optical emission spectroscopy (ICP-OES). The concentrations of Zn and Cd in both soil horizons indicated that the current study levels were higher than the upper continental crust (UCC), world average value (WAV), and European average values (EAV). Nonetheless, the concentration values of PTEs such as Mn and Cu for EAV, As, Cu, Mn, and Pb for UCC, and Pb for WAV were lower than the average values of the corresponding PTEs in this study. The single pollution index, enrichment factor, and ecological risk revealed that the pollution level ranged from low to high. The pollution load index, Nemerow pollution index, and risk index all revealed that pollution levels ranged from low to high. The spatial distribution confirmed that pollution levels varied between the horizons; that is, the subsoil was considered slightly more enriched than the topsoil. Principal component analysis identified the PTE source as geogenic (i.e. for Mn, Cu, Ni, Cr) and anthropogenic (i.e. for Pb, Zn, Cd, and As). PTEs were attributed to various sources using enrichment factor-positive matrix factorization (EF-PMF) and positive matrix factorization (PMF), including geogenic (e.g. rock weathering), fertilizer application, steel industry, industrial sewage irrigation, agrochemicals, and metal works. Both receptor models allotted consistent sources for the PTEs. Multiple linear regression analysis was applied to the receptor models (EF-PMF and PMF), and their efficiency was tested and assessed using root-mean-square error (RMSE), mean absolute error (MAE), and R2 accuracy indicators. The validation and accuracy assessment of the receptor models revealed that the EF-PMF receptor model output significantly reduces errors compared with the parent model PMF. Based on the marginal error levels in RMSE and MAE, 7 of the 8 PTEs (As, Cd, Cr, Cu, Ni, Mn, Pb, and Zn) analysed performed better under the EF-PMF receptor model. The EF-PMF receptor model optimizes the efficiency level in source apportionment, reducing errors in determining the proportion contribution of PTEs in each factor. The purpose of building a model is to maximize efficiency while minimizing inaccuracy. The marginal error limitation encountered in the parent model PMF was circumvented by EF-PMF. As a result, EF-PMF is feasible and useful for apparently polluted environments, whether farmland, urban land, or peri-urban land.
- Klíčová slova
- Enrichment factor-positive matrix factorization, Frýdek-Místek District, Multiple linear regression, Potentially toxic elements, Principal component analysis, Spatial distribution,
- MeSH
- hodnocení rizik MeSH
- kadmium analýza MeSH
- látky znečišťující půdu * analýza MeSH
- monitorování životního prostředí metody MeSH
- olovo analýza MeSH
- půda chemie MeSH
- těžké kovy * analýza MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- Čína MeSH
- Názvy látek
- kadmium MeSH
- látky znečišťující půdu * MeSH
- olovo MeSH
- půda MeSH
- těžké kovy * MeSH
A recent data set for 22 poly- and per-fluorinated compounds (PFASs) in Ponar grab samples of surface sediments and cores from the Great Lakes of North America was examined for concentrations, loads, correlations with geographical coordinates and depth (time), and for sources. Correlations were determined by multivariate regression analyses. Source apportionment of PFASs was carried out by positive matrix factorization (PMF) for two cores from Lake Ontario. For the five lakes together, the total load of PFASs in sediments was estimated to be 245 ± 24 tonnes, which is about half the load for total PCBs. The recent annual loading was 1812 ± 320 kg/yr. Concentrations and inventories of PFASs were greatest in Lakes Erie and Ontario. Since 1947, concentrations of perfluorooctane sulfonic acid (PFOS) in ten cores have increased exponentially as a function of time with doubling times between 10 and 54 yr and have leveled off in three cores since 2000. PMF demonstrated an effective grouping of two particle-associated factors, characterized mainly by longer-chain PFASs (C ≥ 8) and two other factors of mainly shorter-chain compounds (C ≤ 6). Two factors feature only one dominant compound: factor 1, PFOS, and factor 3, perfluorobutane sulfonic acid (PFBS). Of all factors, factor 3 with PFBS has the largest contribution (47.8%). Significant scores for perfluorohexane sulfonic acid (PFHxS) and PFBS, along with flat or decreasing PFOS contributions since 2003, indicate that the replacement of PFOS with these compounds is beginning to take effect in the environment.
- Klíčová slova
- Poly- and per-fluorinated compounds, Positive matrix factorization, Sediment, Temporal trends, The Great Lakes,
- MeSH
- chemické látky znečišťující vodu analýza MeSH
- fluorokarbony MeSH
- geologické sedimenty MeSH
- jezera MeSH
- kyseliny alkansulfonové MeSH
- kyseliny sulfonové analýza MeSH
- monitorování životního prostředí * MeSH
- Publikační typ
- časopisecké články MeSH
- Geografické názvy
- oblast Velkých jezer MeSH
- Ontario MeSH
- Severní Amerika MeSH
- Názvy látek
- chemické látky znečišťující vodu MeSH
- fluorokarbony MeSH
- kyseliny alkansulfonové MeSH
- kyseliny sulfonové MeSH
- perflexane MeSH Prohlížeč
- perfluorobutane MeSH Prohlížeč
- perfluorooctane sulfonic acid MeSH Prohlížeč
Concentration data derived from 1H NMR analysis of the water-soluble organic compounds from fine aerosol (PM2.5) at three Central European background stations, Košetice, Frýdlant (both in the Czech Republic), and Melpitz (Germany), were used for detailed source apportionment analysis. Two winter and two summer episodes (year 2021) with higher organic concentrations and similar wind directions were selected for NMR analyses. The concentration profiles of 61 water-soluble organic compounds were determined by NMR Aerosolomics and a principal component analysis (PCA) was performed on this dataset. Based on the PCA results, 23 compounds were selected for positive matrix factorization (PMF) analysis in order to identify dominant aerosol sources at rural background sites in Central Europe. Both the PCA and the subsequent PMF analyses clearly distinguished the characteristics of winter and summer aerosol particles. In summer, four factors were identified from PMF and were associated with biogenic aerosol (61-78 %), background aerosol (9-15 %), industrial biomass combustion (7-13 %), and residential heating (5-13 %). In winter, only 3 factors were identified - industrial biomass combustion (33-49 %), residential heating (37-45 %) and a background aerosol (8-30 %). The main difference was observed in the winter season with a stronger contribution of emissions from industrial biomass burning at the Czech stations Košetice and Frýdlant (47-49 %) compared to the Melpitz station (33 %). However, in general, there were negligible differences in identified sources between stations in the given seasons, indicating a certain homogeneity in PM2.5 composition within Central Europe at least during the sampling periods.
- Klíčová slova
- Atmospheric aerosols, Central Europe, NMR Aerosolomics, Source apportionment,
- Publikační typ
- časopisecké články MeSH
Idiopathic pes equinovarus (clubfoot) is a congenital deformity of the feet and lower legs. Clubfoot belongs to a group of fibro-proliferative disorders but its origin remains unknown. Our study aimed to achieve the first complex proteomic comparison of clubfoot contracted tissue of the foot (medial side; n = 16), with non-contracted tissue (lateral side; n = 13). We used label-free mass spectrometry quantification and immunohistochemistry. Seven proteins were observed to be significantly upregulated in the medial side (asporin, collagen type III, V, and VI, versican, tenascin-C, and transforming growth factor beta induced protein) and four in the lateral side (collagen types XII and XIV, fibromodulin, and cartilage intermediate layer protein 2) of the clubfoot. Comparison of control samples from cadavers brought only two different protein concentrations (collagen types I and VI). We also revealed pathological calcification and intracellular positivity of transforming growth factor beta only in the contracted tissue of clubfoot. Most of the 11 differently expressed proteins are strongly related to the extracellular matrix architecture and we assume that they may play specific roles in the pathogenesis of this deformity. These proteins seem to be promising targets for future investigations and treatment of this disease. © 2019 Orthopaedic Research Society. Published by Wiley Periodicals, Inc. J Orthop Res.
- Klíčová slova
- clubfoot, collagen, extracellular matrix, fibrosis, proteomics,
- MeSH
- dítě MeSH
- extracelulární matrix - proteiny metabolismus MeSH
- hmotnostní spektrometrie MeSH
- kalcinóza MeSH
- lidé MeSH
- pes equinovarus etiologie metabolismus MeSH
- předškolní dítě MeSH
- prospektivní studie MeSH
- proteom MeSH
- transformující růstový faktor beta metabolismus MeSH
- Check Tag
- dítě MeSH
- lidé MeSH
- mužské pohlaví MeSH
- předškolní dítě MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- srovnávací studie MeSH
- Názvy látek
- betaIG-H3 protein MeSH Prohlížeč
- extracelulární matrix - proteiny MeSH
- proteom MeSH
- transformující růstový faktor beta MeSH
BACKGROUND: Lipoprotein-associated phospholipase A2 (Lp-PLA2) is independently associated with cardiovascular risk, probably via inflammatory activity in sclerotic plaque. We speculated whether Lp-PLA2 has a role in the aetiology of vascular calcifications, estimated from circulating uncarboxylated matrix Gla protein (MGP) species and whether we could find a potential interaction of Lp-PLA2 and MGP in terms of mortality. MATERIALS AND METHODS: We examined 798 patients (mean age 65.1 years) with stable vascular disease and followed them in a prospective study. Both, desphospho-uncarboxylated and total MGP (dp-ucMGP or t-ucMGP) were quantified by pre-commercial ELISA assays, developed by VitaK (Maastricht, The Netherland) RESULTS: Lp-PLA2 activity was independently positively associated with desphospho-uncarboxylated MGP (dp-ucMGP) [β coeff = 0.098, p=0.006]. 1SD of Lp-PLA2 activity was associated with 37% increased risk (p=0.001) of elevated dp-ucMGP (≥977 pmol/L, top quartile). In the Cox proportional hazard model adjusted for conventional risk factors, the patients in the highest quartile of dp-ucMGP or lowest quintile of total-uncarboxylated ucMGP (<2660 nmol/L) had higher risk of all-cause mortality [HRR 2.79 (95% CI 1.97-3.94) and HRR 1.69 (95% CI 1.18-2.42), respectively]. We observed no effect of high Lp-PLA2 activity (≥195 nmol/min/mL) on total mortality. CONCLUSIONS: We assume that Lp-PLA2 is involved in vascular calcification and that dp-ucMGP is a more appropriate biomarker of residual risk than Lp-PLA2 itself.
- Klíčová slova
- Coronary heart disease, Euroaspire, Lipoprotein-associated phospholipaseA(2), Matrix Gla protein, Mortality risk, Stroke,
- MeSH
- 1-alkyl-2-acetylglycerofosfocholinesterasa krev MeSH
- analýza přežití MeSH
- biologické markery krev MeSH
- extracelulární matrix - proteiny krev MeSH
- kardiovaskulární nemoci krev mortalita MeSH
- lidé středního věku MeSH
- lidé MeSH
- matrixový protein Gla MeSH
- proporcionální rizikové modely MeSH
- prospektivní studie MeSH
- proteiny vázající vápník krev MeSH
- rizikové faktory MeSH
- senioři MeSH
- Check Tag
- lidé středního věku MeSH
- lidé MeSH
- mužské pohlaví MeSH
- senioři MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Nizozemsko MeSH
- Názvy látek
- 1-alkyl-2-acetylglycerofosfocholinesterasa MeSH
- biologické markery MeSH
- extracelulární matrix - proteiny MeSH
- proteiny vázající vápník MeSH
BACKGROUND/AIM: Stromal cells in the tumor microenvironment are primarily considered as sources of promalignant factors. The objective of our study was to define the effect of extracellular matrix (ECM) produced by normal dermal or cancer-associated fibroblasts exposed to adhesion/growth-regulatory lectin galectin-1 on human umbilical vein endothelial cells (HUVECs). MATERIALS AND METHODS: Fibroblasts were cultured for 10 days with lectin, followed by removing cellular constituents after an osmotic shock. Freshly-isolated HUVECs were placed on the ECM. In parallel, HUVECs were seeded on untreated and gelatin-coated surfaces as controls. A positive control for growth of HUVECs culture using medium supplemented with vascular endothelial growth factor completed the test panel. Cells were kept in contact to the substratum for two days and then processed for immunocytochemistry. RESULTS: HUVECs seeded on fibroblast-generated ECM presented a comparatively high degree of proliferation. Furthermore, contact to substratum produced by tumor-associated fibroblasts led to generation of a meshwork especially rich in fibronectin. CONCLUSION: Galectin-1 is apparently capable to trigger ECM production favorable for growth of HUVECs, prompting further work on characterizing structural features of the ECM and in situ correlation of lectin presence, ECM constitution and neoangiogenesis.
- Klíčová slova
- Angiogenesis, extracellular matrix, lectin, tumor growth, wound healing,
- MeSH
- endoteliální buňky pupečníkové žíly (lidské) fyziologie MeSH
- extracelulární matrix metabolismus MeSH
- fibroblasty fyziologie MeSH
- galektin 1 farmakologie MeSH
- kultivované buňky MeSH
- lidé MeSH
- nádorové mikroprostředí * MeSH
- proliferace buněk účinky léků MeSH
- vaskulární endoteliální růstový faktor A farmakologie MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Názvy látek
- galektin 1 MeSH
- vaskulární endoteliální růstový faktor A MeSH
BACKGROUND: Matrix Gla protein (MGP) is a natural inhibitor of tissue calcification. In a previous study, we observed the positive association between abnormal concentrations of uncarboxylated MGP species and increased mortality risk in stable vascular patients. We explore whether co-incidence of abnormal status of uncarboxylated MPG and heart failure (HF) affects the mortality risk. METHODS: We examined 799 patients (mean age 65.1 years) with stable vascular disease and followed them in a prospective study. Both, desphospho-uncarboxylated and total uncarboxylated MGP (dp-ucMGP or t-ucMGP) were quantified by pre-commercial ELISA assays. RESULTS: Elevated (>100 ng/L) circulating brain natriuretic peptide (BNP) and abnormal status of plasma uncarboxylated MGP species (i.e.: dp-ucMGP ≥ 977 pmol/L or t-ucMGP ≤ 2825 nmol/L) were all identified as robust predictors of all-cause 5-year mortality. However, their co-incidence represented a substantial additional risk. We observed the highest mortality risk in patients with elevated BNP plus high dp-ucMGP compared to those with normal BNP plus low dp-ucMGP; fully adjusted HRR's were 4.86 (3.15-7.49). Likewise, the risk was increased when compared with patients with elevated BNP plus low dp-ucMGP; HRR 2.57 (1.60-4.10). Similar result we observed when co-incidence of elevated BNP and low t-ucMGP was analyzed [corresponding HRR's were 4.16 (2.62-6.61) and 1.96 (1.24-3.12)]. CONCLUSIONS: The concomitant abnormality of uncarboxylated MGP and mild elevation of BNP leads in chronic patients with vascular disease to about two-fold increase of the relative mortality risk. We hypothesize that abnormal homeostasis of MGP is involved in the pathophysiology of HF.
- Klíčová slova
- Atherovascular disease, Heart failure, Matrix γ-carboxyl glutamate protein (MGP), Mortality, dp-ucMGP, t-ucMGP,
- MeSH
- biologické markery krev MeSH
- extracelulární matrix - proteiny krev MeSH
- hodnocení rizik * MeSH
- kalcinóza MeSH
- lidé MeSH
- matrixový protein Gla MeSH
- míra přežití trendy MeSH
- následné studie MeSH
- nemoci cév krev komplikace mortalita MeSH
- prospektivní studie MeSH
- proteiny vázající vápník krev MeSH
- rizikové faktory MeSH
- senioři MeSH
- srdeční selhání krev komplikace mortalita MeSH
- vitamin K MeSH
- Check Tag
- lidé MeSH
- mužské pohlaví MeSH
- senioři MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- multicentrická studie MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Česká republika epidemiologie MeSH
- Názvy látek
- biologické markery MeSH
- extracelulární matrix - proteiny MeSH
- proteiny vázající vápník MeSH
- vitamin K MeSH
AIMS: To evaluate the serum levels of matrix metalloproteinase-3 (MMP-3) as a potential marker of disease activity and joint damage in 92 patients with rheumatoid arthritis (RA), compared to 24 osteoarthritis (OA) patients and 26 healthy controls. METHODS: The concentrations of MMP-3 were measured by ELISA using the commercial kit AESKULISA DF MMP-3 (AESKU.Diagnostics, Germany) and compared with other laboratory parameters routinely used to assess the disease status, clinical score (DAS28) and radiographic stage in the group of RA patients. RESULTS: The mean serum concentrations of MMP-3 were 199.1 ± 160 ng/mL in RA patients, 113.9 ± 96.9 ng/mL in OA patients and 48.3 ± 19.2 in healthy controls. The differences were highly significant: RA patients and healthy controls (P<0.0001), RA and OA patients (P=0.008) as well as between OA patients and controls (P=0.009). MMP-3 concentrations were further compared with other laboratory parameters and clinical and structural damage data. There were correlations between MMP-3 and CRP (r=0.304, P<0.01), DAS28 (r=0.301, P<0.05), levels of anti-cyclic citrullinated peptide antibodies (r=0.241, P<0.05), erythrocyte sedimentation rate (r=0.200, P=0.059) and radiographic disease stage (r=0.197, P=0.063). CONCLUSION: These results demonstrated that measurement of MMP-3 could become a marker of disease activity in RA patients.
- Klíčová slova
- disease activity, matrix metalloproteinase-3, rheumatoid arthritis,
- MeSH
- biologické markery krev MeSH
- ELISA MeSH
- krevní sedimentace MeSH
- lidé středního věku MeSH
- lidé MeSH
- matrixová metaloproteinasa 3 krev MeSH
- osteoartróza diagnostické zobrazování enzymologie patologie patofyziologie MeSH
- prediktivní hodnota testů MeSH
- progrese nemoci MeSH
- průřezové studie MeSH
- radiografie MeSH
- revmatoidní artritida diagnostické zobrazování enzymologie patologie patofyziologie MeSH
- revmatoidní faktor krev MeSH
- Check Tag
- lidé středního věku MeSH
- lidé MeSH
- mužské pohlaví MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- srovnávací studie MeSH
- Názvy látek
- biologické markery MeSH
- matrixová metaloproteinasa 3 MeSH
- MMP3 protein, human MeSH Prohlížeč
- revmatoidní faktor MeSH
The extracellular matrix (ECM) plays a critical role in influencing the biological behavior of brain tumors and the diagnostic detection of ECM components in ependymomas might be of prognostic value. In the present study we evaluated immunohistochemically the expression of a spectrum of ECM glycoproteins (tenascin, vitronectin, fibronectin, laminin, collagen types II, IV and VI) in a series of 36 pediatric intracranial ependymomas. The distribution of the ECM glycoproteins was evaluated both within the tumor tissue and at the tumor invasion front, and the prognostic value of the results was tested in a survival analysis. The expression of most of the ECM glycoproteins was associated only with blood vessels. Tenascin and vitronectin were found in a more diffuse pattern around the tumor cells and at the tumor invasion fronts of several cases. The progression-free survival was significantly decreased for patients with tenascin positive tumors (in any of the studied compartments) and for the tumors with vitronectin accumulation at their invasion fronts. In one ependymoma containing foci of cartilage with metaplastic ossification we demonstrated that collagen types II and VI and tenascin were present in ECM of both the cartilage and the ependymoma, and were accompanied by areas of necrosis and dystrophic calcifications. We suggest, that the rare simultaneous production of the specific ECM components might lead to the formation of chondroid areas in ependymomas. An abundant production of some ECM glycoproteins (tenascin and vitronectin) is present in a proportion of ependymomas and its immunohistochemical detection is of prognostic relevance.
- MeSH
- dítě MeSH
- ependymom patologie MeSH
- extracelulární matrix - proteiny analýza biosyntéza MeSH
- imunohistochemie MeSH
- kojenec MeSH
- lidé MeSH
- mladiství MeSH
- nádory mozku patologie MeSH
- následné studie MeSH
- předškolní dítě MeSH
- přežití bez známek nemoci MeSH
- prognóza MeSH
- tenascin analýza biosyntéza MeSH
- Check Tag
- dítě MeSH
- kojenec MeSH
- lidé MeSH
- mladiství MeSH
- mužské pohlaví MeSH
- předškolní dítě MeSH
- ženské pohlaví MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Názvy látek
- extracelulární matrix - proteiny MeSH
- tenascin MeSH
A healthy soil is a healthy ecosystem because humans, animals, plants, and water highly depend upon it. Soil pollution by potentially toxic elements (PTEs) is a serious concern for humankind. The study is aimed at (i) assessing the concentrations of PTEs in soils under a long-term heavily industrialized region for coal and textiles, (ii) modeling and mapping the spatial and vertical distributions of PTEs using a GIS-based ordinary kriging technique, and (iii) identifying the possible sources of these PTEs in the Jizerské Mountains (Jizera Mts.) using a positive matrix factorization (PMF) model. Four hundred and forty-two (442) soil samples were analyzed by applying the aqua regia method. To assess the PTE contents, the level of pollution, and the distribution pattern in soil, the contamination factor (CF) and the pollution load index load (PLI) were applied. ArcGIS-based ordinary kriging interpolation was used for the spatial analysis of PTEs. The results of the analysis revealed that the variation in the coefficient (CV) of PTEs in the organic soil was highest in Cr (96.36%), followed by Cu (54.94%) and Pb (49.40%). On the other hand, the mineral soil had Cu (96.88%), Cr (66.70%), and Pb (64.48%) as the highest in CV. The PTEs in both the organic soil and the mineral soil revealed a high heterogeneous variability. Though the study area lies within the "Black Triangle", which is a historic industrial site in Central Europe, this result did not show a substantial influence of the contamination of PTEs in the area. In spite of the rate of pollution in this area being very low based on the findings, there may be a need for intermittent assessment of the soil. This helps to curtail any excessive accumulation and escalation in future. The results may serve as baseline information for pollution assessment. It might support policy-developers in sustainable farming and forestry for the health of an ecosystem towards food security, forest safety, as well as animal and human welfare.
- Klíčová slova
- GIS-kriging, contamination factor, heavy metals, pollution load index, positive matrix factorization,
- Publikační typ
- časopisecké články MeSH