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1,542 results for “Degradation”
Investigating the role of Pseudomonas dye-decolorizing peroxidases in quinone redox cycling for bio-design of a DypB-based lignin degrading enzyme cocktail
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REORGANIZING THE USE OF DEGRADATED WETLANDS
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fluorescence quantification associated with manuscript (Autophagy preferentially degrades non-fibrillar polyQ aggregates https://doi.org/10.1101/2023.08.08.552291 )
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tomogram quantification related to manuscript (Autophagy preferentially degrades non-fibrillar polyQ aggregates) https://doi.org/10.1101/2023.08.08.552291
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Sustained Release of Proteins Using Region-Specific Tunable Degradability in Hydrogels Through 3D Photopatterning and Complimentary Labile Bond Chemistry
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Data from: Effects of forest degradation on Amazonian ferns in a land-bridge island system as revealed by non-specialist inventories
<p>Background: Tropical deforestation and degradation worldwide have rapidly outpaced biodiversity field sampling. No study to date has assessed the effects of insular habitats induced by hydroelectric dams on Amazonian understorey plants. Fern community responses to anthropogenic effects on tropical forest islands can be efficiently revealed through simple and cheap, yet informative protocols that can be applied by non-specialists. </p> <p>Aims: This study seeks to both understand the drivers of fern and lycophyte assemblages on forest islands and investigate the relative costs and effectiveness of a simplified sampling protocol that can be implemented by non-specialists and has potential to be used to crowdsource ecological field data acquisition.</p> <p>Methods: Fern and lycophytes species were sampled by a non-specialist in 17 quarter-hectare plots on 10 forest islands at the lake of Balbina Hydroelectric Dam, central Amazonia. Sampling was carried out opportunistically during a field expedition planned to conduct tree inventory on permanent plots. We used a set of locally measured or GIS-derived predictors for each of the surveyed sites. We used Principal Coordinates Analysis and Generalized Linear Mixed Models (GLMMs) to further assess the influence of predictors on patterns of fern species richness and composition.</p> <p>Results: A total of 286 photographed individual ferns or lycophytes represented 23 taxa. The average number of taxa per plot was 6.1 on islands and 14.3 in the mainland. The insular species pool was a subset of the mainland pool of fern species. Richness was positively related to island size and negatively related to isolation and fire severity. Area, isolation and fire severity significantly explained variation in community composition. The relative cost of the non-specialist picture-based fern protocol was very modest (in our case, only 4% of the total expedition budget), even compared to the typically low cost of alternative orthodox field campaigns.</p> <p>Conclusion: Fern community structure in this forest archipelago was primarily driven by island size, isolation and fire disturbance. We show that a simple sampling protocol carried out by a non-specialist can lead to inexpensive and highly reliable ecological data. This opens an avenue for crowdsourcing ecological fern data collections using a citizen science approach.</p>
PET degrading enzymes
<p>Dataset of PET degrading enzymes with some experimental evidence.</p> <p> </p> <p> </p> <p> </p> <p> </p>
Figure 2 from: Mateeva A, Peikova L, Kondeva-Burdina M, Georgieva M (2022) Development of new HPLC method for identification of metabolic degradation of N-pyrrolylhydrazide hydrazones with determined MAO- B activity in cellular cultures. Pharmacia 69(1): 15-20. https://doi.org/10.3897/pharmacia.69.e78417
Figure 2 Chromatograms demonstrating the hepatocytic metabolism of analyte at 30th min (A) and at 60th min (B).
Supplementary Material: Low temperature photoluminescence investigation of light-induced degradation in boron doped CZ-silicon
<p>Dataset from the paper: Low temperature photoluminescence investigation of light-induced degradation in boron doped CZ-silicon.</p>
Survival and growth data for tree species planted to reforest degraded tropical peat swamp forests and functional trait data for peat swamp forest species across Southeast Asia
<p>Degraded tropical peat swamp forests are harsh environments so difficult to restore. Evidence from past restoration projects can inform selection of species for planting. As part of a systematic review, we collated and synthesised survival and growth monitoring data on trees planted in degraded tropical peat swamp forests across Southeast Asia. A key aim of the systematic review and meta-analysis was to determine which tree species survive best when planted to restore tropical peat swamp forests. We also investigated the impact of seedling and site treatments and climatic conditions (El Niño-Southern Oscillation) on tree seedling survival and growth and the potential to use plant functional traits to predict survival and growth. </p> <p>Full methodological details of the systematic review, including: search strategy, article screening and inclusion criteria, critical appraisal of screened articles, data processing and data analysis can be found in the published article and supporting information stated below.</p> <p>Smith SW, Rahman NEB, Harrison ME, Shiodera S, Giesen W, Lampela M, Wardle DA, Chong KY, Randi A, Wijedasa LS, Teo PY, Fatimah, YA, Teng NT, Joanne YKQ, Alam MJ, Brugues Sintes P, Darusman T, Graham LLB, Katoppo DR, Kojima K, Kusin K, Lestari DP, Metali F, Morrogh-Bernard HC, Nahor MB, Napitupulu RRP, Nasir D, Nath TK, Nilus R, Norisada M, Rachmanadi D, Rachmat HH, Ripoll Capilla B, Salahuddin, Santosa PB, Sukri RS, Tay B, Tuah W, Wedeux, BMM, Yamanoshita T, Yokoyama EY, Yuwati TW, Lee JSH. Tree species that ‘live slow, die older’ enhance tropical peat swamp restoration: evidence from a systematic review. <em>Journal of Applied Ecology. </em>DOI:<a href="https://doi.org/10.1111/1365-2664.14232">10.1111/1365-2664.14232</a></p> <p>In this data repository, we have uploaded the following data used in the meta-analysis to generate the findings presented in the systematic review, specifically:</p> <ul> <li>Screening sheets of eligible articles across languages (English, Indonesian, Japanese and German) read in detailed by multiple authors on the review</li> <li>Survival monitoring data, including predicted half-life (duration until 50% mortality) derived from functional line-fitting</li> <li>Height monitoring data, including standardized relative growth rates (cm × cm<sup>-1 </sup>month<sup>-1</sup>) derived from functional line-fitting</li> <li>Plant functional traits, selected leaf nutrient contents and wood densities for those species used in the functional trait analyses</li> </ul> <p>Each data file has an associated meta-data file explaining the column headers and variables. Please note, data contributors from some studies wished to retain control over access to their monitoring data, but are willing to share this data on request. The relevant study-site code those studies used in the analyses in our systematic review can be found in the meta-data sheets. Details given include study-site code (used in the systematic review), site name and location, author name(s), author contact email(s). All these details have been provided with permission from relevant data contributor co-author(s). </p>
Reaction Mechanism of the PET Degrading Enzyme PETase Studied with DFT/MM Molecular Dynamics Simulations
<p>Raw simulations of the deacylation step by PETase on a PET dimer model substrate, ran with CP2K 6.1 software at the PBE:AMBER level. Details can be found in the original manuscript (<a href="https://doi.org/10.1021/acscatal.1c03700">https://doi.org/10.1021/acscatal.1c03700</a>): Molecular topology in AMBER Parameter Topology format and Trajectories in CHARMM binary coordinate format DCD.</p> <p>QM RESIDUE LIST:<br> GLY57<br> TYR58<br> SEP131<br> MET132<br> TRP156<br> ASP177<br> SER178<br> ILE179<br> ALA180<br> HID208<br> WAT6290<br> WAT6318<br> WAT7630</p> <p>VMD selection:<br> (name CA C O HA2 HA3 and resname GLY and resid 57) or (name N CA CB H HA HB2 HB3 and resname TYR and resid 58) or (name O2 C3 O3 C4 O4 C5 O5 O6 C7 O7 C8 C9 C10 C11 C12 C13 C14 C15 C16 H5 H6 H7 H12 H13 H14 H15 H16 H17 H18 H19 H20 and resname SEP and resid 131) or (name N CA SD CE CB CG H HA HB2 HB3 HG2 HG3 HE1 HE2 HE3 and resname MET and resid 132) or (name CB CG CD1 CD2 CE2 CE3 NE1 CZ2 CZ3 CH2 HB2 HB3 HD1 HE1 HE3 HZ2 HZ3 HH2 and resname TRP and resid 156) or (name CG OD1 OD2 CB HB2 HB3 and resname ASP and resid 177) or (name C O and resname SER and resid 178) or (name N CA C O CG2 CD1 CB CG1 H HA HB HG12 HG13 HG21 HG22 HG23 HD11 HD12 HD13 and resname ILE and resid 179) or (name N CA CB H HA HB1 HB2 HB3 and resname ALA and resid 180) or (name CB CG CD2 ND1 CE1 NE2 HB2 HB3 HD1 HD2 HE1 and resname HID and resid 208) or (name O H1 H2 and resname WAT and resid 6290) or (name O H1 H2 and resname WAT and resid 6318) or (name O H1 H2 and resname WAT and resid 7630)</p> <p>PYMOL selection:<br> (name CA+C+O+HA2+HA3 & resn GLY & resi 57) | (name N+CA+CB+H+HA+HB2+HB3 & resn TYR & resi 58) | (name O2+C3+O3+C4+O4+C5+O5+O6+C7+O7+C8+C9+C10+C11+C12+C13+C14+C15+C16+H5+H6+H7+H12+H13+H14+H15+H16+H17+H18+H19+H20 & resn SEP & resi 131) | (name N+CA+SD+CE+CB+CG+H+HA+HB2+HB3+HG2+HG3+HE1+HE2+HE3 & resn MET & resi 132) | (name CB+CG+CD1+CD2+CE2+CE3+NE1+CZ2+CZ3+CH2+HB2+HB3+HD1+HE1+HE3+HZ2+HZ3+HH2 & resn TRP & resi 156) | (name CG+OD1+OD2+CB+HB2+HB3 & resn ASP & resi 177) | (name C+O & resn SER & resi 178) | (name N+CA+C+O+CG2+CD1+CB+CG1+H+HA+HB+HG12+HG13+HG21+HG22+HG23+HD11+HD12+HD13 & resn ILE & resi 179) | (name N+CA+CB+H+HA+HB1+HB2+HB3 & resn ALA & resi 180) | (name CB+CG+CD2+ND1+CE1+NE2+HB2+HB3+HD1+HD2+HE1 & resn HID & resi 208) | (name O+H1+H2 & resn WAT & resi 6290) | (name O+H1+H2 & resn WAT & resi 6318) | (name O+H1+H2 & resn WAT & resi 7630)</p>
Degradation of Ni-YSZ and Ni-GDC fuel cells after 1000 h operation: Analysis of different overpotential contributions according to electrochemical and microstructural characterization
<p>Datasets from the paper:</p> <p>"Degradation of Ni-YSZ and Ni-GDC fuel cells after 1000 h operation: Analysis of different overpotential contributions according to electrochemical and microstructural characterization". E3S Web of Conferences <strong>334</strong>, 04011 (2022).</p> <p>The activity was carried out within the framework of the European Project AD ASTRA. This project has received funding from the Fuel Cells and Hydrogen 2 Joint Undertaking under <strong>Grant Agreement No 825027</strong>. This Joint Undertaking receives support from the European Union's Horizon 2020 research and innovation programme and Hydrogen Europe.</p>
methylene blue degradation in presence of NaBH4 and catalyzed by SF-AuNP (speed x8)
<p>Video of methylene blue degradation in presence of NaBH4 and catalyzed by SF-AuNP (speed x8)</p>
Community species diversity mediates the trade-off between aboveground and belowground biomass for grasses and forbs in degraded alpine meadow, Tibetan Plateau
<p>Although many empirical experiments have shown that increasing degradation results in lower aboveground biomass (AGB), our knowledge of the magnitude of belowground biomass (BGB) for individual plants is a prerequisite for accurately revealing the biomass trade-off in degraded grasslands. Here, by linking the AGB and BGB of individual plants, species in the community, and soil properties, we explored the biomass partitioning patterns in different plant functional groups (grasses of <i>Stipa capillacea</i> and forbs of <i>Anaphalis xylorhiza</i>). Our results indicated that 81% and 60% of the biomass trade-off variations could be explained by environmental factors affecting grasses and forbs, respectively. The change in community species diversity dominated the biomass trade-off via either direct or indirect effects on soil properties and biomass. However, the community species diversity imparted divergent effects on the biomass trade-off for grasses (scored at -0.72) and forbs (scored at 0.59). Our findings suggest that plant communities have evolved two contrasting strategies of biomass allocation patterns in degraded grasslands. These are the "conservative" strategy in grasses, in which plants with larger BGB trade-off depends on gigantic roots for soil resources, and the "opportunistic" strategy in forbs, in which plants can adapt to degraded lands using high variation and optimal biomass allocation.</p>
Revisiting Degradation in the XPS Analysis of Polymers Data
<p>XPS data in VAMAS format for the Surface and Interface Analysis paper entitled " Revisiting Degradation in the XPS Analysis of Polymers". DOI: 10.1002/sia.7151</p> <p>Recommended analysis software is CasaXPS, minimum of Version 2.3.24</p>
Changes in leaf litter decomposition of primary Korean pine forests after degradation succession into secondary broad-leaved forests
<p>Forest degradation succession often leads to changes in forest ecosystem functioning. Exactly how the decomposition of leaf litter is affected in a disturbed forest remains unknown. Therefore, in our study, we selected a primary Korean pine forest (PK) and a secondary broad-leaved forest (SF) affected by clear-cutting degradation, both in Northeast China. The aim was to explore the response to changes in the leaf litter decomposition converting PK to SF. The mixed litters of PK and SF were decomposed in situ (one year). The proportion of remaining litter mass, main chemistry, and soil biotic and abiotic factors were assessed during decomposition and then we made an in-depth analysis of the changes in the leaf litter decomposition. According to our results, leaf litter decomposition rate was significantly higher in the PK than that in the SF. Overall, the remaining percent mass of leaf litter's main chemical quality in SF was higher than in PK, indicating that leaf litter chemical turnover in PK was relatively faster. PK had a significantly higher amount of total phospholipid fatty acids (PLFAs) than SF during decomposition. Based on multivariate regression trees, the forest type influenced the soil habitat factors related to leaf litter decomposition more than decomposition time. Structural equation modeling revealed that litter N was strongly and positively affecting litter decomposition, and the changes in actinomycetes PLFA biomass played a more important role among all the functional groups. Selected soil abiotic factors were indirectly driving litter decomposition through coupling with actinomycetes. This study provides evidence for the complex interactions between leaf litter substrate and soil physical-chemical properties in affecting litter decomposition via soil microorganisms.</p>
Pedestrian Fall Detection in Various Image Degradation Scenarios Datastes
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A Global Catalog of Martian Impact Craters with Actual Boundaries and Degradation Degrees
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Dataset of paper "Environmental life cycle assessment of UV-C LEDs vs. mercury lamps and oxidant selection for diclofenac degradation"
<p>Dataset of paper "Environmental life cycle assessment of UV-C LEDs vs. mercury lamps and oxidant selection for diclofenac degradation":</p> <ul> <li><span><span>Absolute impact across all categories of the Environmental Footprint (EF) for each treatment and scenario </span></span></li> <li><span><span>Relative impacts as percentages </span></span></li> </ul>
Dataset of the effects of different levels of alpine wetland degradation on flora and soil
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.