cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11440266
title: Syntaxonomy of <i>Pinus nigra</i> s.l. communities in the <i>Erico-Pinetea</i> class and their distribution in the central Apennines and Balkan province

description: The aim was to study the relationships among forest communities dominated by <i>Pinus nigra</i> s.l. in the Apennine-Balkan biogeographical province. The opportunity to deepen this argument was offered by <i>Pinus nigra</i> natural communities present in the central Apennines (Gran Sasso d’Italia). The data collected on the vegetation were elaborated with the phytosociological method, although in the choice of the higher order syntaxa, it was considered appropriate to broaden the approach to different tectonic, palaeobotanical, palaeogeographic and biogeographic analysis factors, to define the classes and reference orders. This led to the recognition that the black pine forests of the study area, together with those of the central-southern limestone Apennines, should be included in the class <i>Erico-Pinetea</i> Horvat 1959. For the territory investigated, we describe the new association <i>Junipero hemisphaericae–Pinetum nigrae</i> and the new order <i>Junipero communis–Pinetalia nigrae ordo nov. hoc loco</i>, of which the southern Balkan alliance <i>Fraxino orni-Pinion nigrae</i> Em 1978 is considered the alliance <i>typus</i>. In this context, the new alliance <i>Junipero hemisphaericae–Pinion nigrae</i> (<i>typus</i>: <i>Junipero hemisphaericae–Pinetum nigrae</i>) represents the central-southern Apennine vicariant. The new order <i>Junipero communis-Pinetalia nigrae</i> represents the vicariant of the order <i>Erico-Pinetalia</i> Horvat 1959 in the central-southern Apennine-Balkan mountain ranges.
DOI: 10.6084/m9.figshare.11440266.v1
title: Syntaxonomy of <i>Pinus nigra</i> s.l. communities in the <i>Erico-Pinetea</i> class and their distribution in the central Apennines and Balkan province

description: The aim was to study the relationships among forest communities dominated by <i>Pinus nigra</i> s.l. in the Apennine-Balkan biogeographical province. The opportunity to deepen this argument was offered by <i>Pinus nigra</i> natural communities present in the central Apennines (Gran Sasso d’Italia). The data collected on the vegetation were elaborated with the phytosociological method, although in the choice of the higher order syntaxa, it was considered appropriate to broaden the approach to different tectonic, palaeobotanical, palaeogeographic and biogeographic analysis factors, to define the classes and reference orders. This led to the recognition that the black pine forests of the study area, together with those of the central-southern limestone Apennines, should be included in the class <i>Erico-Pinetea</i> Horvat 1959. For the territory investigated, we describe the new association <i>Junipero hemisphaericae–Pinetum nigrae</i> and the new order <i>Junipero communis–Pinetalia nigrae ordo nov. hoc loco</i>, of which the southern Balkan alliance <i>Fraxino orni-Pinion nigrae</i> Em 1978 is considered the alliance <i>typus</i>. In this context, the new alliance <i>Junipero hemisphaericae–Pinion nigrae</i> (<i>typus</i>: <i>Junipero hemisphaericae–Pinetum nigrae</i>) represents the central-southern Apennine vicariant. The new order <i>Junipero communis-Pinetalia nigrae</i> represents the vicariant of the order <i>Erico-Pinetalia</i> Horvat 1959 in the central-southern Apennine-Balkan mountain ranges.
DOI: 10.6084/m9.figshare.11440080
title: Microbial diversity dynamics during the self-acidification of dairy slurry

description: Slurry acidification has been shown to be effective in reducing environmentally damaging gases. However, this involved the use of concentrated acids on farms. Therefore, due to the health and safety concerns, there is an interest in self-acidification of slurry technique. This study was designed to determine the microbial dynamics leading to self-acidification of slurry. A fresh cattle slurry was amended 10% brewing sugar and stored over 30 days. This fermentable carbon source promoted self-acidification of the slurry from pH 7.0 to 4.7 within four days, and was associated with the accumulation of lactic acid and a reduction in methane and relative ammonia emissions. A metagenomics approach through next generation sequencing (NGS) using an Illumina MiSeq platform was used to determine the microbial diversity and dynamics (bacteria and archaea) in the stored amended slurry. 16S ribosomal ribonucleic acid (rRNA) sequence data revealed the presence of the Order of <i>Lactobacillales</i> was associated with the lactic acid production. The operational taxonomic units (OTUs) abundance indicates that the methanogenic community was dominated by hydrogenotrophic methanogens from the member Order of <i>Methanobacteriales</i>, <i>Methanomicrobiales</i>, and <i>Methanosarcinales</i>. The decrease in tolerance by the methanogens in the self-acidified slurry was probably the main reason for the reduced methane emission. These results confirm, at the microbial level, the mechanism of inhibiting methane production via self-acidification during storage period.
DOI: 10.6084/m9.figshare.11440080.v2
title: Microbial diversity dynamics during the self-acidification of dairy slurry

description: Slurry acidification has been shown to be effective in reducing environmentally damaging gases. However, this involved the use of concentrated acids on farms. Therefore, due to the health and safety concerns, there is an interest in self-acidification of slurry technique. This study was designed to determine the microbial dynamics leading to self-acidification of slurry. A fresh cattle slurry was amended 10% brewing sugar and stored over 30 days. This fermentable carbon source promoted self-acidification of the slurry from pH 7.0 to 4.7 within four days, and was associated with the accumulation of lactic acid and a reduction in methane and relative ammonia emissions. A metagenomics approach through next generation sequencing (NGS) using an Illumina MiSeq platform was used to determine the microbial diversity and dynamics (bacteria and archaea) in the stored amended slurry. 16S ribosomal ribonucleic acid (rRNA) sequence data revealed the presence of the Order of <i>Lactobacillales</i> was associated with the lactic acid production. The operational taxonomic units (OTUs) abundance indicates that the methanogenic community was dominated by hydrogenotrophic methanogens from the member Order of <i>Methanobacteriales</i>, <i>Methanomicrobiales</i>, and <i>Methanosarcinales</i>. The decrease in tolerance by the methanogens in the self-acidified slurry was probably the main reason for the reduced methane emission. These results confirm, at the microbial level, the mechanism of inhibiting methane production via self-acidification during storage period.
DOI: 10.6084/m9.figshare.11440080.v1
title: Microbial diversity dynamics during the self-acidification of dairy slurry

description: Slurry acidification has been shown to be effective in reducing environmentally damaging gases. However, this involved the use of concentrated acids on farms. Therefore, due to the health and safety concerns, there is an interest in self-acidification of slurry technique. This study was designed to determine the microbial dynamics leading to self-acidification of slurry. A fresh cattle slurry was amended 10% brewing sugar and stored over 30 days. This fermentable carbon source promoted self-acidification of the slurry from pH 7.0 to 4.7 within four days, and was associated with the accumulation of lactic acid and a reduction in methane and relative ammonia emissions. A metagenomics approach through next generation sequencing (NGS) using an Illumina MiSeq platform was used to determine the microbial diversity and dynamics (bacteria and archaea) in the stored amended slurry. 16S ribosomal ribonucleic acid (rRNA) sequence data revealed the presence of the Order of <i>Lactobacillales</i> was associated with the lactic acid production. The operational taxonomic units (OTUs) abundance indicates that the methanogenic community was dominated by hydrogenotrophic methanogens from the member Order of <i>Methanobacteriales</i>, <i>Methanomicrobiales</i>, and <i>Methanosarcinales</i>. The decrease in tolerance by the methanogens in the self-acidified slurry was probably the main reason for the reduced methane emission. These results confirm, at the microbial level, the mechanism of inhibiting methane production via self-acidification during storage period.
DOI: 10.6084/m9.figshare.11439990
title: Diversity of Fungi in Soils with Different Degrees of Degradation in Germany and Panama

description: Soil degradation can have an impact on the soil microbiota, but its specific effects on soil fungal communities are poorly understood. In this work, we studied the impact of soil degradation on the richness and diversity of communities of soil fungi, including three different degrees of degradation in Germany and Panama. Soil fungi were isolated monthly using the soil-sprinkling method for 8 months in Germany and 3 months in Panama, and characterized by morphological and molecular data. Soil physico-chemical properties were measured and correlated with the observed values of fungal diversity. We isolated a total of 71 fungal species, 47 from Germany, and 32 from Panama. Soil properties were not associated with fungal richness, diversity, or composition in soils, with the exception of soil compaction in Germany. The geographic location was a strong determinant of the soil fungal species composition although in both countries there was dominance by members of the orders Eurotiales and Hypocreales. In conclusion, the results of this work do not show any evident influence of soil degradation on communities of soil fungi in Germany or Panama.
DOI: 10.6084/m9.figshare.11439990.v1
title: Diversity of Fungi in Soils with Different Degrees of Degradation in Germany and Panama

description: Soil degradation can have an impact on the soil microbiota, but its specific effects on soil fungal communities are poorly understood. In this work, we studied the impact of soil degradation on the richness and diversity of communities of soil fungi, including three different degrees of degradation in Germany and Panama. Soil fungi were isolated monthly using the soil-sprinkling method for 8 months in Germany and 3 months in Panama, and characterized by morphological and molecular data. Soil physico-chemical properties were measured and correlated with the observed values of fungal diversity. We isolated a total of 71 fungal species, 47 from Germany, and 32 from Panama. Soil properties were not associated with fungal richness, diversity, or composition in soils, with the exception of soil compaction in Germany. The geographic location was a strong determinant of the soil fungal species composition although in both countries there was dominance by members of the orders Eurotiales and Hypocreales. In conclusion, the results of this work do not show any evident influence of soil degradation on communities of soil fungi in Germany or Panama.
DOI: 10.6084/m9.figshare.11439951
title: Code and data for measuring multipolygon similarity

description: Data and code for measuring multipolygon similarity in paper "Measuring similarity between multipolygons using convex hulls and position graphs"<br>
DOI: 10.6084/m9.figshare.11439471
title: Metadata record for: United States wildlife and wildlife product imports from 2000-2014

description: This dataset contains key characteristics about the data described in the Data Descriptor United States wildlife and wildlife product imports from 2000-2014. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11439471.v2
title: Metadata record for: United States wildlife and wildlife product imports from 2000-2014

description: This dataset contains key characteristics about the data described in the Data Descriptor United States wildlife and wildlife product imports from 2000-2014. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11439471.v1
title: Metadata record for: United States wildlife and wildlife product imports from 2000-2014

description: This dataset contains key characteristics about the data described in the Data Descriptor United States wildlife and wildlife product imports from 2000-2014. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.11439357
title: Source experimeantal data for the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity"

description: This Source Data file provides the corresponding experimental data files for the figures in the main text of the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity", including the data within figures 2b-e, figures 3a-f, figures 4a-c and figure 5a.
DOI: 10.6084/m9.figshare.11439357.v1
title: Source data of figure 4c for the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity"

description: 1. This "Source Data" folder provides the corresponding experimental data files for figure 4c in the main text, including the figure, the raw data, the processed data, a source file of the figure, etc.<br>2. The "Source Data\raw data" folder includes the experimental results for the output intensity of chiral Raman laser under different linear coupling strengths of the Raman mode, namely the splitting of the doublet. The file name indicates the corresponding linear coupling strength, for example, the "2g_6.7584" file stands for the results with the mode splitting of 6.7584 MHz.<br>The file folder ("2g_***") is loaded with the repeated measurements under the same linear coupling strength. Each data file (data****.txt) contains two collection channels as the binary format from an oscilloscope: the first channel records the output intensity of the counter-clockwise Raman laser and the Raman mode transmission spectrum simultaneously, and the second channel records the output intensity of the clockwise Raman laser.<br>The specific data is the signal on the oscilloscope with the unit of volt, where 100 mV corresponds to the power of 17.379 microwatts for the Raman laser signal. Besides, the signal of the first (second) channel has an offset being 2.8 mV (31.5 mV).<br>3. The dependence of the chiral threshold power of the Raman laser on the Raman mode splitting can be extracted from the raw data and is shown in the "processed data.xlsx", as well as a modified standard deviation in each case. Here the standard deviation is obtained by considering the deviation from the mean value with a small distribution in the threshold region in each measurement. <br><br>
DOI: 10.6084/m9.figshare.11439357.v2
title: Source experimeantal data for the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity"

description: This Source Data file provides the corresponding experimental data files for the figures in the main text of the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity", including the data within figures 2b-e, figures 3a-f, figures 4a-c and figure 5a.
DOI: 10.6084/m9.figshare.11439357.v3
title: Source experimeantal data for the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity"

description: This Source Data file provides the corresponding experimental data files for the figures in the main text of the paper "Reconfigurable symmetry-broken laser in a symmetricmicrocavity", including the data within figures 2b-e, figures 3a-f, figures 4a-c and figure 5a.
DOI: 10.6084/m9.figshare.11439159
title: Does renal mass biopsy influence multidisciplinary treatment recommendations?

description: <b>Purpose:</b> To examine how a multidisciplinary team approach incorporating renal mass biopsy (RMB) into decision making changes the management strategy. <b>Methods:</b> A multidisciplinary team comprised of a radiology proceduralist, a pathologist and urologists convened monthly for renal mass conference with a structured presentation of patient demographics, co-mborbidities, tumor pathology, laboratory and radiographic features. Biopsy protocol was standardized to an 18-gauge core needle biopsy using a sheathed apparatus under renal ultrasound guidance. Biopsy diagnostic rate, and concordance with nephrectomy specimens were summarized. Descriptive statistics were used to evaluate influence of RMB on management decisions. <b>Results:</b> A total of 83 patients with a ≤4 cm mass were discussed, and 66% of patients underwent RMB. Of those, 87% were diagnostic with 9% of core biopsies showing benign pathology. Active surveillance (AS) was recommended for 34% of patients with biopsy data as compared to 64% of those without biopsy. Ablation was recommended for 38% of the biopsy cohort compared to 7% without biopsy. Partial nephrectomy rates were similar for both cohorts, approximately 17% and 22%, respectively. Our complication rate was 1.5%, with only 1 Clavien-Dindo Grade 2 complication. Histology was concordant in 93% of patients that ultimately underwent partial nephrectomy after biopsy. <b>Conclusions:</b> Over half of our SRM patients underwent a RMB that provided a diagnosis in 85% of cases. RMB aided in shared decision making by providing insight into the biology of renal masses, which helps to guide multidisciplinary management and consideration of nephron sparing options.
DOI: 10.6084/m9.figshare.11439159.v1
title: Does renal mass biopsy influence multidisciplinary treatment recommendations?

description: <b>Purpose:</b> To examine how a multidisciplinary team approach incorporating renal mass biopsy (RMB) into decision making changes the management strategy. <b>Methods:</b> A multidisciplinary team comprised of a radiology proceduralist, a pathologist and urologists convened monthly for renal mass conference with a structured presentation of patient demographics, co-mborbidities, tumor pathology, laboratory and radiographic features. Biopsy protocol was standardized to an 18-gauge core needle biopsy using a sheathed apparatus under renal ultrasound guidance. Biopsy diagnostic rate, and concordance with nephrectomy specimens were summarized. Descriptive statistics were used to evaluate influence of RMB on management decisions. <b>Results:</b> A total of 83 patients with a ≤4 cm mass were discussed, and 66% of patients underwent RMB. Of those, 87% were diagnostic with 9% of core biopsies showing benign pathology. Active surveillance (AS) was recommended for 34% of patients with biopsy data as compared to 64% of those without biopsy. Ablation was recommended for 38% of the biopsy cohort compared to 7% without biopsy. Partial nephrectomy rates were similar for both cohorts, approximately 17% and 22%, respectively. Our complication rate was 1.5%, with only 1 Clavien-Dindo Grade 2 complication. Histology was concordant in 93% of patients that ultimately underwent partial nephrectomy after biopsy. <b>Conclusions:</b> Over half of our SRM patients underwent a RMB that provided a diagnosis in 85% of cases. RMB aided in shared decision making by providing insight into the biology of renal masses, which helps to guide multidisciplinary management and consideration of nephron sparing options.
DOI: 10.6084/m9.figshare.11438976
title: Exploring 2D-QSAR for prediction of beta-secretase 1 (BACE1) inhibitory activity against Alzheimer’s disease

description: We have developed a robust quantitative structure–activity relationship (QSAR) model employing a dataset of 98 heterocycle compounds to identify structural features responsible for BACE1 (beta-secretase 1) enzyme inhibition. We have used only 2D descriptors for model development purpose thus avoiding the conformational complications arising due to 3D geometry considerations. Following the strict Organization for Economic Co-operation and Development (OECD) guidelines, we have developed models using stepwise regression analysis followed by the best subset selection, while the final model was developed by partial least squares regression technique. The model was validated using various internationally accepted stringent validation parameters. From the insights obtained from the developed model, we have concluded that heteroatoms (nitrogen, oxygen, etc.) present within to an aromatic nucleus and the structural features such as hydrophobic, ring aromatic and hydrogen bond acceptor/donor are responsible for the enhancement of the BACE1 enzyme inhibitory activity. Moreover, we have performed the pharmacophore modelling to unveil the structural requirements for the inhibitory activity against the BACE1 enzyme. Furthermore, molecular docking studies were carried out to understand the molecular interactions involved in binding, and the results are then correlated with the requisite structural features obtained from the QSAR and pharmacophore models.
DOI: 10.6084/m9.figshare.11438991
title: Source Data of figure 4c for "Reconfigurable symmetry-broken laser in a symmetricmicrocavity"

description: 1. This "Source Data" folder provides the corresponding experimental data files for figure 4c in the main text, including the figure, the raw data, the processed data, a source file of the figure, etc.<br>2. The "Source Data\raw data" folder includes the experimental results for the output intensity of chiral Raman laser under different linear coupling strengths of the Raman mode, namely the splitting of the doublet. The file name indicates the corresponding linear coupling strength, for example, the "2g_6.7584" file stands for the results with the mode splitting of 6.7584 MHz.<br>The file folder ("2g_***") is loaded with the repeated measurements under the same linear coupling strength. Each data file (data****.txt) contains two collection channels as the binary format from an oscilloscope: the first channel records the output intensity of the counter-clockwise Raman laser and the Raman mode transmission spectrum simultaneously, and the second channel records the output intensity of the clockwise Raman laser.<br>The specific data is the signal on the oscilloscope with the unit of volt, where 100 mV corresponds to the power of 17.379 microwatts for the Raman laser signal. Besides, the signal of the first (second) channel has an offset being 2.8 mV (31.5 mV).<br>3. The dependence of the chiral threshold power of the Raman laser on the Raman mode splitting can be extracted from the raw data and is shown in the "processed data.xlsx", as well as a modified standard deviation in each case. Here the standard deviation is obtained by considering the deviation from the mean value with a small distribution in the threshold region in each measurement. <br><br>