cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14698670
title: Interfacial structure and protein incorporation in sparsely tethered phospholipid membranes : Data

description: Abstract for the Article:

We describe herein a cell membrane mimicking system designed for bioanalytical applications. Our tethered bilayer lipid membrane (tBLM) is based on mixed self-assembled monolayers (SAMs) on gold terminated by linear hydrophobic tethers. Based on the previous studies, the latter are either randomly distributed over the SAM surface or phase-segregated into nanoclusters of at least 40 molecules. We have prepared and analyzed a series of tBLMs covering a range of conditions in terms of membrane phase (gel vs. fluid phases), type of substrate attachment (floating vs. tethered) and electrostatics (zwitterionic PC and negatively charged PG lipids). We studied the interfacial tBLM structure by employing neutron reflectometry (NR). In all cases, the NR analysis revealed formation of high coverage tBLMs where the lipid bilayer was separated from the SAM by a highly hydrated interlayer of 5-6 Å. Notably, the 1-stearoyl-2-oleoyl-sn-glycero-3-phosphocholine (SOPC) tBLM on a substrate presenting nanoscale tether clusters had a larger solution interlayer thickness around 12 Å. We relate this structural feature of the tBLM to the structural mismatch between the tether clusters and the kink in the oleoyl leg of the SOPC lipid. Further on, as a proof of concept we have successfully reconstituted the deuterated outer membrane protein F (OmpF) from E. coli into our tBLM system and confirmed the protein insertion by NR. Thus, the presented cell membrane mimicking platform is promising for quantitative studies of lipid and protein structures and interactions taking place at the cell membrane.

Here:

The Neutron Reflectometry data and data analysis scripts for the rascal software are found. As is the qaurtz crystal microbalance data.
DOI: 10.17632/t55b96p7bz.1
title: Samburu_RCT_Gender_Inclusive

description: Data used for the analysis in paper "Insuring those Who Bear the Risk: The Impact of Gender-inclusive Insurance in Kenya," 2024
DOI: 10.17632/k57h4ytkyf.1
title: Satisfacción y adherencia al tratamiento farmacológico sobre el control glucémico en adultos

description: Determinar la influencia de la satisfacción con el tratamiento farmacológico y su adherencia sobre el control glucémico en adultos con Diabetes Tipo 2, los hallazgos mostraron que la adherencia al tratamiento farmacológico sólo predijo el control de la glucosa, la diferencia de Hemoglobina Glucosilada entre las personas con adherencia al tratamiento versus las no adherentes es .22 menor.
Los datos se recopilaron mediante la aplicación de los cuestionarios Diabetes Treatment Satisfaction Questionnaire, Morisky Medication Adherence Scale MMAS-4, cédula de datos sociodemográficos y clínicos y medición de Hemoglobina Glucosilada.
Interpretación:
Satisfacción con el tratamiento farmacológico: 0-11 muy insatisfecho, 12-23 moderadamente satisfecho y 24-36 muy satisfecho.
Adherencia al tratamiento farmacológico: se considera que un paciente es adherente si responde NO/SI/NO/NO
Control glucémico: cifras de hemoglobina glucosilada &lt;7%
DOI: 10.17632/5wvcc54xpx.1
title: Aerial photography and machine learning for estimating extremely high flamingo numbers on the Makgadikgadi Pans, Botswana

description: Sophie Yang, Roxane J. Francis, Mike Holding, Richard T. Kingsford, Aerial photography and machine learning for estimating extremely high flamingo numbers on the Makgadikgadi Pans, Botswana, Global Ecology and Conservation, 2024, e03011, ISSN 2351-9894, https://doi.org/10.1016/j.gecco.2024.e03011. (https://www.sciencedirect.com/science/article/pii/S2351989424002154)

We developed a semi-supervised machine learning method for counting a large feeding concentration of flamingos (2 June 2019) in aerial photographs from northern Sua Pan of the Makgadikgadi Pans. We also analysed rainfall and flooding frequency and extent, using satellite imagery, estimating likely frequency of these flamingo concentrations. Our analysis successfully provided an estimate of 372,172 to 689,473 flamingos, with methods producing over 97% test accuracy. Uncertainty related primarily to data coverage and collection rather than methodology.

Code from Google Earth Engine has been provided in a JavaScript file, along with an example collage. To use the code, please copy and paste into Google Earth Engine scripts and upload relevant images as assets to be analysed.
DOI: 10.17632/3t5nvg7rcc.1
title: Computational study of An-O bonding in ThO2 bulk from hybrid density functional theory within an embedded cluster model

description: input files, orbital's png files
DOI: 10.17632/dnw2v82r8y.3
title: Raw dataset and R scripts for: Unravelling spatial drivers of topsoil total carbon variability in tropical paddy soils of Sri Lanka

description: This data set represents the raw dataset, raster files associated with the environmental covariates used for modelling, and the R script that describes the flow of analyses used for the research article entitled: Unravelling the spatial drivers of topsoil total carbon concentration variability in paddy-growing soils in tropical agro-ecosystems of Sri Lanka. This study specifically aimed at identifying the spatial drivers and estimates of total carbon (TC) concentration in topsoil (0-15 cm) across the paddy-growing regions in tropical climates using Sri Lanka as a case study. Two distinct sampling strategies were used to collect soil samples for model calibration and validation purposes. For model calibration, a total of 888 sampling locations were sampled using a conditioned Latin Hypercube sampling approach. Additionally, 99 sampling sites were selected using a design-based stratified random strategy for independent evaluation of the developed models. Total carbon concentration (%) was analysed using an automated dry combustion method via a 2400 Series II CHN Elemental Analyser. Geospatial modelling of TC concentration was carried out through two distinct random forest models using a variety of environmental covariates. The environmental covariates used for the current analyses includes; mean annual rainfall (Rainfal_N), annual average mean temperature (Temp_N), annual average minimum temperature (Temp_Min_N), annual average maximum temperature (Temp_Max_N), vapour pressure deficient (VPD_N), MODIS enhanced vegetation index (Modis_N), SAGA wetness index (SAGA_WI_N), slope angle (Slope_d_N) and elevation (DEM_N). All environmental covariates were resampled to a spatial resolution of 100 m prior to spatial analysis. Furthermore, we deployed a novel area of applicability (AOA) calculation to quantify and identify regions where the current prediction is less reliable. In addition to AOA analysis, the uncertainty of TC prediction (%) was calculated at a 90% prediction interval. The influence of increasing the number of calibration sites on model prediction quality and reliability was assessed by using a user-defined sequence of calibration sites (e.g. n=200, n=300, n=400, n=500, n=600, n=700, n=800, n=888). For more information on the study area, sampling design, analytical data generation, modelling, and interpretation of the data, please refer to the Research article mentioned above.
DOI: 10.17632/xbv2z8pcf9.2
title: Daily soil moisture response to rainfall - Natural Forest and Exotic Pines

description: This data shows the daily soil moisture response to rainfall at a Natural Secondary Forest and Exotic Pine Planation in Trinidad and Tobago. The soil moisture is measured at 10, 20, 40 and 80 cm below the surface in each forest. The soil moisture at each depth is the determined from the average of three locations in each forest. The soil moisture is measured as the volumetric water content (%). The data also has the daily rainfall in mm.
DOI: 10.17632/xbv2z8pcf9.1
title: Daily soil moisture response to rainfall - Natural Forest and Exotic Pines

description: This data shows the daily soil moisture response to rainfall at a Natural Secondary Forest and Exotic Pine Planation in Trinidad and Tobago. The soil moisture is measured at 10, 20, 40 and 80 cm below the surface in each forest. The soil moisture at each depth is the determined from the average of three locations in each forest. The soil moisture is measured as the volumetric water content (%). The data also has the daily rainfall in mm.
DOI: 10.17632/f9wntyw39x.3
title: HEWES project extra and supplementary material

description: Extra and supplementary materials for the Heisenberg-Euler Weak-Field Expansion Simulator (HEWES) project.
DOI: 10.17632/cswb6k9brn.1
title: Heterogeneity in the Motivations for Punishment: An Experimental Study

description: We explores the motivations behind costly punishment in social dilemmas, specifically focusing on reciprocity and inequality aversion. To distinguish these motivations, we introduce uncertainty into the payoff function of a public goods game, preventing participants from predicting others' contributions based on their payoffs. In this situation, participants should choose between others' contributions and others' payoffs as the criterion for their punishment. We also include a random income game to test the plausibility of our classification by removing intentionality from the contribution decisions. Our results show heterogeneity in the motivations to punish, leading to different types of punishers: the self-interested type, the reciprocal type, the inequality-averse type, and the ``other" type who is inconsistent. Furthermore, in the random income game, overall punishment tends to be lower, but only reciprocal punishment decreases with the existence of intention. Additionally, the reciprocal type strongly punishes free-riding behaviors but also imposes some punishment for payoff inequality. These findings reveal that inequality aversion is a critical motivation for punishment---that is, that a significant number of individuals rely on inequality aversion as their sole motivation for punishment while others incorporate it into their punishment based on reciprocity.
DOI: 10.17632/kpxxc62pyz.1
title: Metagenomic sequencing of gut microbiota at the genus level in ketamine-addicted Sprague-Dawley rats

description: In this data, we hypothesize that ketamine addiction leads to significant changes in the composition and function of gut microbiota in rats, and these changes are associated with addictive behavior and related physiological indicators. By conducting metagenomic sequencing of gut microbiota in ketamine addicted rats, we obtained detailed microbiome data and revealed differences in microbial composition between different experimental groups. Important findings include significant changes in the abundance of certain key microbial genera in the gut of ketamine addicted rats. Data analysis suggests that ketamine addiction may affect brain function and addictive behavior by regulating gut microbiota, providing a new perspective for understanding the role of the gut brain axis in addiction mechanisms.
DOI: 10.17632/6jdvfwdbrw.1
title: 16S rRNA dataset of non-lactic acid bacteria cultures originating from traditional lait caillé in Burkina Faso

description: The objective of this investigation was to provide information on the identity of non-lactic acid bacteria originating from traditional lait caillé and capable of growing abundantly on the standard media used for dairy LAB isolation. Specifically, Gram positive catalase positive and Gram negative bacteria growing on MRS and M17 agar were considered for molecular identification
MRS and M17 agar plates previously inoculated with traditional lait caillé were used to screen for Gram positive catalase positive and Gram negative bacteria. Successive streaking were performed to purify colonies. Culture purity, cells morphology were analysed by microscopy. Gram and catalase tests were done to select Gram negative and Gram positive catalase positive bacteria. (GTG)5-based rep-PCR fingerprint followed by cluster analysis, sequencing of 16S rRNA gene and database search in GenBank were performed to identify the isolates. 
Data showed a predominance of Klebsiella pneumoniae/K. quasipneumoniae/K. variicola among Gram negative bacteria and a variety of species among Gram positive catalase positive bacteria such as Kocuria spp., Bacillus cereus group species, Macrococcus caseoliticus, Clostridium bifermentans, Staphylococcus hominis. 
These data are useful as they gave some information on the presence of bacteria associated with emerging public health risks such as Klebsiella pneumonia species complex, Bacillus cereus group species, Kocuria spp. occurring in a traditional spontaneously fermented milk product. They also gave further insights for a broader investigation on non-lactic acid bacteria occurring in traditional fermentation of unpasteurised milks and for evaluation and development of selective media for Lactic acid bacteria growth.
DOI: 10.17632/6jdvfwdbrw.2
title: 16S rRNA dataset of non-lactic acid bacteria cultures from lait caillé in Burkina Faso reveals predominantly bacteria associated with emerging risks to public health

description: The objective of this investigation was to provide information on the identity of non-lactic acid bacteria originating from traditional lait caillé and capable of growing abundantly on the standard media used for dairy LAB isolation. Specifically, Gram positive catalase positive and Gram negative bacteria growing on MRS and M17 agar were considered for molecular identification
MRS and M17 agar plates previously inoculated with traditional lait caillé were used to screen for Gram positive catalase positive and Gram negative bacteria. Successive streaking were performed to purify colonies. Culture purity, cells morphology were analysed by microscopy. Gram and catalase tests were done to select Gram negative and Gram positive catalase positive bacteria. (GTG)5-based rep-PCR fingerprint followed by cluster analysis, sequencing of 16S rRNA gene and database search in GenBank were performed to identify the isolates. 
Data showed a predominance of Klebsiella pneumoniae/K. quasipneumoniae/K. variicola among Gram negative bacteria and a variety of species among Gram positive catalase positive bacteria such as Kocuria spp., Bacillus cereus group species, Macrococcus caseoliticus, Clostridium bifermentans, Staphylococcus hominis. 
These data are useful as they gave some information on the presence of bacteria associated with emerging public health risks such as Klebsiella pneumonia species complex, Bacillus cereus group species, Kocuria spp. occurring in a traditional spontaneously fermented milk product. They also gave further insights for a broader investigation on non-lactic acid bacteria occurring in traditional fermentation of unpasteurised milks and for evaluation and development of selective media for Lactic acid bacteria growth.
DOI: 10.17632/6jdvfwdbrw.3
title: 16S rRNA dataset of non-lactic acid bacteria cultures from lait caillé in Burkina Faso reveals predominantly bacteria associated with emerging risks to public health

description: The objective of this investigation was to provide information on the identity of non-lactic acid bacteria originating from traditional lait caillé and capable of growing abundantly on the standard media used for dairy LAB isolation. Specifically, Gram positive catalase positive and Gram negative bacteria growing on MRS and M17 agar were considered for molecular identification
MRS and M17 agar plates previously inoculated with traditional lait caillé were used to screen for Gram positive catalase positive and Gram negative bacteria. Successive streaking were performed to purify colonies. Culture purity, cells morphology were analysed by microscopy. Gram and catalase tests were done to select Gram negative and Gram positive catalase positive bacteria. (GTG)5-based rep-PCR fingerprint followed by cluster analysis, sequencing of 16S rRNA gene and database search in GenBank were performed to identify the isolates. 
Data showed a predominance of Klebsiella pneumoniae/K. quasipneumoniae/K. variicola among Gram negative bacteria and a variety of species among Gram positive catalase positive bacteria such as Kocuria spp., Bacillus cereus group species, Macrococcus caseoliticus, Clostridium bifermentans, Staphylococcus hominis. 
These data are useful as they gave some information on the presence of bacteria associated with emerging public health risks such as Klebsiella pneumonia species complex, Bacillus cereus group species, Kocuria spp. occurring in a traditional spontaneously fermented milk product. They also gave further insights for a broader investigation on non-lactic acid bacteria occurring in traditional fermentation of unpasteurised milks and for evaluation and development of selective media for Lactic acid bacteria growth.
DOI: 10.17632/6jdvfwdbrw.4
title: 16S rRNA gene sequencing of non-lactic acid bacteria cultures from lait caillé in Burkina Faso reveals predominance of Klebsiella pneumoniae complex and Micrococcaceae family

description: The objective of this investigation was to provide information on the identity of non-lactic acid bacteria originating from traditional lait caillé and capable of growing abundantly on the standard media used for dairy LAB isolation. Specifically, Gram positive catalase positive and Gram negative bacteria growing on MRS and M17 agar were considered for molecular identification
MRS and M17 agar plates previously inoculated with traditional lait caillé were used to screen for Gram positive catalase positive and Gram negative bacteria. Successive streaking were performed to purify colonies. Culture purity, cells morphology were analysed by microscopy. Gram and catalase tests were done to select Gram negative and Gram positive catalase positive bacteria. (GTG)5-based rep-PCR fingerprint followed by cluster analysis, sequencing of 16S rRNA gene and database search in GenBank were performed to identify the isolates. 
Data showed a predominance of Klebsiella pneumoniae/K. quasipneumoniae/K. variicola among Gram negative bacteria and a variety of species among Gram positive catalase positive bacteria such as Kocuria spp., Bacillus cereus group species, Macrococcus caseoliticus, Clostridium bifermentans, Staphylococcus hominis. 
These data are useful as they gave some information on the presence of bacteria associated with emerging public health risks such as Klebsiella pneumonia species complex, Bacillus cereus group species, Kocuria spp. occurring in a traditional spontaneously fermented milk product. They also gave further insights for a broader investigation on non-lactic acid bacteria occurring in traditional fermentation of unpasteurised milks and for evaluation and development of selective media for Lactic acid bacteria growth.
DOI: 10.17632/5dvzpv5f8c.1
title: Data S1_Torres et al_Cell_Mining human microbiomes reveals an untapped source of peptide antibiotics

description: Data S1. (a) List of 323 smORF-encoded candidate peptides with predicted antimicrobial activity, related to Figure 1. (b) BLASTn results of the 323 predicted SEPs top hits organisms based on highest percent identity for every query as the putative source organism. (c) List of SEPs identified as transcribed and translated based on normalized read coverage of the SEP coding region in RNA-seq and MetaRibo-seq.
DOI: 10.17632/f9gnk9vkdd.2
title: Canopy-forming macroalgae can adapt to marine heatwaves

description: This data set is the result of a laboratory experiment carried out as a part of research activities supported by the European Community within the EASME – EMFF (Sustainable Blue Economy) Project AFRIMED (http://afrimed-project.eu/, grant agreement N. 789059), 
To test the effect of MHWs on recruits of G. barbata, a two fixed factorial design with asymmetrical controls was used. A control condition not exposed to MHWs was compared against two orthogonal factors: i) MHWs duration, fixed factor with two levels: short MHW and long MHW; ii) MHWs timing, fixed factor with two levels: an early (summer) MHW and a late (summer) MHW. Every treatment was replicated in three separate tanks with three stones each, apart from the control condition where an additional tank with two stones was used. At the beginning of the experiment, the number of individuals (i.e., replicates) per treatment ranged between 35 and 46 (Fig. 1). The experiment lasted from the 14th of July to the 12th of September 2021. After two acclimation days in which all tanks were at 25 °C, temperature for the control condition was set following the seasonal average trend registered at La Strea lagoon from 1982 to 2021, ranging between 25,5 and 26,5 °C. Accordingly, temperatures simulating MHWs were set increasing by 2 °C the average values based on the detection of historical MHWs events. Thus, they ranged between 27,5 and 28,5° C respectively for the early and late MHWs. The duration of the MHWs was set to 13 and 26 days respectively for the short and the long treatment, reproducing MHWs events that actually occurred in the summer season. Mean intensity (°C) and cumulative duration (days) of MHWs events were calculated using the R package ‘heatwaveR’. Daily data of Sea Surface Temperature (SST) from 1982 to 2021 were retrieved from the geoportal Copernicus (https://cds.climate.copernicus.eu/cdsapp#!/dataset/satellite-sea-surface-temperature?tab=overview). The Copernicus dataset provides global SST data in the raster format (NetCDF) based on multiple sensors with a spatial resolution of 0.05° x 0.05° and no spatial gaps. From each raster file, we extracted daily SSTs for the pixel corresponding to the lagoon of Porto Cesareo using the Open Source software QGIS (QGIS Development Team, 2022) QGIS Geographic Information System. O3.Open Source Geospatial Foundation; https://www.qgis.org/it/site/). Recruits length, PSII maximal photochemical efficiency (Fv/Fm), photosynthetic pigments content (total chlorophylls and total carotenoids), concentrations of antioxidant compounds (polyphenols, flavonoids and tannins) and total antioxidant activity (DPPH) were the response variables measured during the experiment. The present dataset is composed by the measured response variable.