cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25497/d7b01x
title: RECOVER MAP 3.3.3.10 Oyster HSI Derived Salinity and Flow for the Caloosahatchee River Estuary - 2000 - 2012

description: Oyster beds provide important habitat for numerous organisms and are indicators of a healthy estuary. Changes in the spatial extent and health of oyster beds in southeast Florida estuaries are key performance measures that will help assess the success of CERP. A baseline for oysters in each estuary is being established by mapping the existing distribution of reefs/beds, and density of living oysters (per square meter). Historical distributions, where available are being used to assist in identifying areas which may have suitable habitat conditions for reestablishment, given predictive changes in the salinity regime. The main objectives of this study are: (1) To set up long term program for monitoring oysters in the Caloosahatchee Estuary; (2) Determine if the restoration of beneficial patterns of freshwater inflow, salinity and water quality to the Caloosahatchee Estuary will achieve the expected distribution, community structure and viability of oysters; and (3) To identify areas suitable for the development and therefore potential restoration of oyster reefs. This study will provide the input data required by the Oyster HSI GIS application to assist in identifying areas suitable for the development of oyster reefs.
DOI: 10.25934/pr00010418
title: AMR Data Challenge combat_Eswatini

description: Title: Antibiotic resistance and the fight against infectious diseases: insights from the  (ATLAS)

Introduction
Antimicrobial resistance (AMR) as a result of numerous factors continues to be a perpetual challenge in the fight against infectious bacterial infections. More knowledge and innovation as informed by research is integral in this fight. The study will provide in depth insights from the ATLAS program on the epidemiology, determinants of antimicrobial resistance and further model the effect climate change might have on antimicrobial resistance.
Objectives
•	To discuss the epidemiology of antimicrobial resistance.
•	To determine the relationship climate change may have on antimicrobial resistance.
•	To identify determinants of antimicrobial resistance.
Methodology and justification
This will be a retrospective ecological study that will use a secondary dataset to elucidate the epidemiology of antimicrobial resistance in time, place and person, delving deeper to describe prevalence and related measure of occurrence. Statistical analysis techniques such as regression will be used to describe the relationship explanatory variables such as age, gender, global surface temperature have with antimicrobial resistance. The study will also use structural equation modelling (SEM) to determine direct and indirect determinants of antimicrobial resistance. The study will also use the International Monetary Fund climate change data to model the effects this would have on antimicrobial resistance. The study will contribute enormous knowledge on antimicrobial resistance globally using surveillance data, emphasize the need for AMR surveillance in countries and give an idea of how climate change fits in the AMR subject.  SEM will share insights on factors that contribute to AMR that may have been unknown if not overlooked.
Conclusion
While studies have been conducted on antimicrobial resistance, there’s still no assurance on the causes and determinants of microbial adaptability to available drugs. This study will contribute by adding information to inform intervention to the fight against this global threat.
DOI: 10.25497/d7kg6t
title: RECOVER MAP 3.2.3.6 Shoreline Fish Community Visual Assessment

description: The Shoreline Fish Community Visual Assessment (SFCVA) monitoring component, which is underway as part of the REstoration, COordination and VERification (RECOVER) program of the Comprehensive Everglades Restoration Plan (CERP). Specific objectives of the SFCVA monitoring component are: (1) to continue the seasonally-resolved, now 13.5- year visual fish monitoring effort that, for the most part, has focused on southern Biscayne Bay; (2) to expand this effort spatially to include sites in northern Biscayne Bay, Card Sound, and Barnes Sound; (3) to perform data analyses that evaluate variability in these fish communities before, during, and (ultimately) after CERP-realted changes to freshwater flow (and salinity) are implemented; and (4) to correlate changes in salinity regime with changes in the shoreline ichthyofauna. These objectives were met after performing power analyses to determine numbers of sample required to detect change, review of historicca; literature and existing datasets, collection of new data, and analyses of the "baseline conditions" of shoreline fish assemblages at both the community since the previous (seventh) annual report which analyzed data through the wet season of 2010. New data continue to be collected and will be incorperated into our database to gauge future impacts of CERP-related modifications to freshwater flow on shoreline fishes .
DOI: 10.5517/ccdc.csd.cc2jz0m5
title: CCDC 2352547: Experimental Crystal Structure Determination

description: Related Article: Boyu Liu, Xiaonan Wu, Qiang Liu, Youjin Gong, Songzhu Qi, Siqi Dong, Zhenghao Mao, Shunshun Xiong, Sheng Hu|2025|Sep.Purif.Technol.|354|128868|doi:10.1016/j.seppur.2024.128868
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2jz0p7
title: CCDC 2352549: Experimental Crystal Structure Determination

description: Related Article: Boyu Liu, Xiaonan Wu, Qiang Liu, Youjin Gong, Songzhu Qi, Siqi Dong, Zhenghao Mao, Shunshun Xiong, Sheng Hu|2025|Sep.Purif.Technol.|354|128868|doi:10.1016/j.seppur.2024.128868
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25497/d7q593
title: RECOVER MAP 3.2.3.5 and 3.2.4.5 South Florida Fish and Invertebrate Assessment Network (FIAN)

description: The South Florida Seagrass Fish and Invertebrate Assessment Network (FIAN) is an element of the Monitoring and Assessment Plan (MAP) a part of RECOVER, the Restoration, Coordination and Verification Program of the Comprehensive Everglades Restoration Plan (CERP). FIAN is an element of the Southern Coastal System module of MAP (MAP activities 3.2.3.5 and 3.2.4.5). FIAN monitors seagrass-associated fish and invertebrate (penaeid and caridean shrimp and crabs) communities present in shallow waters of South Florida; the pink shrimp, Farfantepenaeus duorarum, as an indicator of restoration success, is a species of special interest. FIAN represents the first region-wide view of these communities and the pink shrimp.

The FIAN monitoring component of the Southern Estuaries module of MAP is designed to support the four broad objectives of MAP: (1) to establish a pre-CERP reference state, including variability, for each of the performance measures; (2) to determine the status and trends in the performance measures; (3) to detect unexpected responses of the ecosystem to changes in stressors resulting from CERP activities; and (4) to support scientific investigations designed to increase ecosystem understanding, cause-and-effect, and interpretation of unanticipated results.

The data developed in FIAN will be used to evaluate the success of CERP by contributing to the assessment of the estuarine response to restoration-related modifications to upstream hydrology in the freshwater Everglades. At present, FIAN provides input to the pink shrimp performance measure (RECOVER, 2004; SFWMD 2005). The pink shrimp emerged as an ecosystem attribute to be monitored from the Florida and Biscayne Bay conceptual ecological models. More generally these data will be used to relate seagrass-associated faunal communities to habitat and environmental conditions in South Florida shallow water estuaries.

FIAN is closely coupled with the MAP seagrass monitoring project FHAP-SF and other seagrass monitoring programs in South Florida, e.g. DERM. Close coupling with seagrass monitoring recognizes the importance of shallow seagrass systems to the function of coastal waters and their vulnerability to anthropogenic change. Estuaries downstream from CERP projects will be affected by changes in the quantity, timing, and distribution of freshwater inflows. Associated changes in estuarine salinity regimes and subsequent, long-term, changes in benthic vegetation are anticipated. We hypothesize that abundance and diversity of seagrass-associated fish and invertebrates including the pink shrimp in nearshore waters of South Florida will increase as the overlap of favorable salinity conditions with favorable seagrass/algal habitat increase.
DOI: 10.25497/d74g6s
title: RECOVER MAP 3.3.3.4 SAV Quadrats Caloosahatchee 2012 -2015

description: RECOVER initiated this project as part of the Monitoring and Assessment Plan (MAP), to provide a long-term program for monitoring submerged aquatic vegetation (SAV) in the Caloosahatchee Estuary while examining the effects of variation in salinity. The premise is that RECOVER will ultimately determine if the restoration of beneficial patterns of freshwater inflow, salinity and water quality to the Caloosahatchee Estuary will improve the spatial and structural characteristics of SAV communities.

This long-term monitoring network has been successful in providing the start of a baseline dataset of existing SAV beds in the Caloosahatchee River and Estuary. A five-year continuation of the SAV Monitoring Network in the Caloosahatchee is recommended to ensure that an accurate evaluation is made of the effects of the C-43 Basin project storage facilities 

During the next five years of this project, additional data will be collected to understand and predict the effect of restoration activities influencing hydrologic changes and freshwater releases as the result of the implementation of the C-43 Basin project. 

In 2009, RECOVER standardized the method used to monitor SAV across all of the Northern Estuaries (east and west coast). The standardized method is referred to as the quadrat method. SAV species presence/absence, percent cover and canopy height was collected bi-monthly.
DOI: 10.15468/dl.y2pt8c
title: Occurrence Download

description: A dataset containing 1086 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Octopus bimaculoides Pickford & McConnaughey, 1949"
 ]
}

 The dataset includes 1086 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063205-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25934/pr00010421
title: Global Antimicrobial Resistance Burden in Children

description: This study leverages open-access antibiotic resistance data from the Pfizer Antimicrobial Testing Leadership and Surveillance (ATLAS) database and the WHO Global Antimicrobial Resistance Surveillance System (GLASS). We will summarize the global burden of antimicrobial resistance (AMR) in children from the above combined datasets. Utilizing the newly published WHO priority pathogen list (2024) and the WHO AWaRe (Access, Watch, and Reserve) antibiotic classification, we will apply the methodology developed by The Lancet's AMR report to analyse resistance burden including patterns and prevalence in paediatric populations across different regions.

The Lancet AMR methodology involves a multi-step process that includes data collation, cleaning, and standardization from diverse sources. This is followed by statistical modelling to estimate resistance prevalence and burden across various pathogens and regions. The analysis incorporates meta-regression techniques to account for variations in study design, population demographics, and diagnostic methods. We estimate attributable mortality and morbidity due to resistant infections by comparing outcomes in resistant versus susceptible cases using adjusted risk ratios. Additionally, we will apply our previous developed visualisation methods from our 2023 Vivli AMR data re-use challenge to show where these burdens are for children’s AMR and how severe it is.

Data from these sources may not be standardized to facilitate cross-comparison, and advanced statistical models will be employed to estimate the burden of AMR and its impact on child morbidity and mortality. Key bacterial pathogens will be chosen from the updated WHO priority list and the above dataset.

The expected findings will underscore the urgent need for targeted interventions to address the spread of resistant infections in children for certain regions. By integrating the WHO priority pathogen list and AWaRe categories, this analysis will provide a nuanced understanding of the paediatric AMR landscape, informing regional and global health strategies and policymaking.
DOI: 10.25497/d7hp4h
title: RECOVER MAP 3.1.3.6 Landscape Pattern - Ridge, Slough, and Tree Island function: Surfacewater-Groundwater Interaction in WCA3 TIs

description: This project is a component of the GE Wetland module of the CERP Monitoring and Assessment Plan (MAP) and is directly linked to the a) Ridge and Slough Landscape monitoring and research component of CERP, and b) Tree Island Stage Duration and the measurement of water depth on tree islands located in WCA 3A and 3B. It will significantly improve RECOVER and the SFWMD's ability to support Central Everglades Plan Process (CEPP), Everglades Forever Act, Minimum Flows and Levels (MFL), Regulatory Operations and CERP by: 1) developing a way to reverse the significant loss of tree island in WCA-2A (Worth 1988) and WCA-3 (Sklar and van der Valk 2002), 2) conduct environmental assessments for weekly SFWMD operational meetings, and 3) develop criteria to protect the flora and fauna that rely on the existence of Tree Islands.
This research monitoring will take place at four different tree islands located in the Water Conservation Area 3. This Statement of Work (SOW) includes the study objectives, a general description of the scope, a detailed listing of tasks to be undertaken and associated deliverables, and the timeframes citing the methodologies to be used by the contractor to perform assigned work efforts.

This project will compare the characteristics and dynamics of four Everglades tree islands such that hydraulic patterns and hydrogeochemical processes can be characterized. This monitoring project aims to understand how biogeochemical pattern and processes operating at inter-annual temporal and spatial scales can mediate tree island growth and patch maintenance through interaction of biological, geochemical, and climatic factors. It is hypothesized that water movement, mediated by hydraulic processes that are punctuated during the dry season by increased tree island evapotranspiration (ET), influence the lateral flux of nutrients to downstream components of the tree island ecosystem, thus concentrating phosphorus at the intersection between local and regional water pools. The objectives of this project are: 1) monitor and characterize spatial and temporal variability in diurnal ET patterns, 2) monitor and characterize temporal local and regional hydraulic patterns, and 3) characterize spatial and temporal hydro-chemical patterns in ions and nutrients among tree island plant communities and the adjacent deep water slough, and 4) design and implement a field experiment addressing questions linked to environmental conditions for soil development and feasibility of active management as a means to restore the structure and function of degraded tree islands.
DOI: 10.15468/dl.7xggur
title: Occurrence Download

description: A dataset containing 404 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-83.17264 9.50566,-82.92272 9.50566,-82.92272 9.78285,-83.17264 9.78285,-83.17264 9.50566))",
 "HasGeospatialIssue is false",
 "TaxonKey is Mammalia"
 ]
}

 The dataset includes 404 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063207-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.12820750
title: Impacts of on-road vehicular emissions on U.S. air quality: A comparison of two mobile emission models (MOVES and FIVE)

description: Here presented CMAQ outputs used for paper of "MImpacts of on-road vehicular emissions on U.S. air quality: A comparison of two mobile emission models (MOVES and FIVE)"
DOI: 10.15468/dl.2zm7df
title: Occurrence Download

description: A dataset containing 11424819 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Brassicales"
 ]
}

 The dataset includes 11424819 records from 7143 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0063175-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/fabgqq
title: Two new species of Pleroma (Melastomataceae) from Espírito Santo, Brazil

description: This dataset contains the digitized treatments in Plazi based on the original journal article Fraga, Claudio Nicoletti De, Guimarães, Paulo José Fernandes (2014): Two new species of Pleroma (Melastomataceae) from Espírito Santo, Brazil. Phytotaxa 166 (1): 77-84, DOI: 10.11646/phytotaxa.166.1.5, URL: http://dx.doi.org/10.11646/phytotaxa.166.1.5AbstractPleroma marinana and P. penduliflora, two new species of Pleroma (Melastomataceae) from the dry seasonal Atlantic forest of Espírito Santo, Brazil, are described and illustrated, with their affinities and diagnostic characters discussed. Pleroma marinana is similar to Tibouchina radula and T. oreophila while Pleroma penduliflora is similar to Pleroma heteromalla, Tibouchina bahiensis and T. formosa. According to the criteria of the IUCN Red List, T. marinana must be included in the vulnerable and T. penduliflora in the endangered category.
DOI: 10.5281/zenodo.18047114
title: Dataset for: Tracing plant invasions in freshwater habitats: spatial and temporal insights from herbarium data
DOI: 10.17632/834p2nf8g2.1
title: Alkaloids-dataset

description: This dataset contains 5,813 open-access scientific articles related to alkaloids. Articles were sourced from PubMed Central and ChemRxiv, focusing on literature suitable for NLP and QA system development in the chemistry domain. All PMC articles were filtered using "free full text" and downloaded only if a PMCID and open PDF were available. ChemRxiv articles were accessed through the official API and include only those with downloadable open-access PDFs.

Original PDF files are not included in this dataset due to file size and licensing constraints. Instead, each article is provided in plain-text format. Texts were extracted using the PyMuPDF library and lightly cleaned for consistency. Metadata is included for each article in JSON format, listing title, authors, publication year, source, DOI, and file paths.
The dataset is structured as follows:
1) metadata.json: metadata for all articles
2) extracted_texts/ :plain-text versions extracted from PDFs
3) README.md
The dataset supports research in question answering, information retrieval, summarization, and chemical entity recognition. This dataset is for non-commercial academic research only.
DOI: 10.17632/mkswhw4mt9.1
title: Global patterns and impacts of self- and abiotic-pollination on the spatial radiation and adaptation of angiosperms

description: This dataset supports the article "Global patterns and impacts of self- and abiotic-pollination on the spatial radiation and adaptation of angiosperms", including code and data generated and analyzed in this study.
DOI: 10.17632/mkswhw4mt9.2
title: Global biogeography of self- and abiotic-pollination: Drivers and impacts on angiosperm adaptations worldwide

description: The compressed file Pollination_Biogeography.zip contains the specified directories and relevant files detailed below:

1. WWF_ecoregions 
Biogeographic regionalization of the Earth's terrestrial biodiversity by the World Wildlife Fund (WWF) (Olson et al., 2001). The terrestrial landscape is divided into fourteen distinct biomes, further subdivided into 827 ecoregions.

2. List_of_species
A list of studied species in each biome and ecoregion.

3. Data_on_ecoregions 
The detailed data on PSP, PAP, and PAP&PSP species per ecoregion, which are used to draw the global distribution map of PSP, PAP, and PSP & PAP proportion, and to assess their correlation with eco-environmental variables.

4. Bootstrap_resampling
To ensure the robustness of the analysis, we employed two bootstrap resampling methods, Method I and Method II (as detailed in the Methods), to generate 1000 new datasets. This folder includes the list of all sampled species along with the corresponding results of statistical analysis.

5. Future_climate
Climate estimates for 2081-2100 from the UKESM1-0-LL model with a 30 arc-seconds resolution under four Shared Socio-economic Pathway (SSP) scenarios: SSP126, SSP245, SSP370, and SSP585.

6. Code 
The code used in this study.
DOI: 10.17632/mkswhw4mt9.3
title: The global biogeography of angiosperm mating systems and their future projection

description: The compressed file Pollination_Biogeography.zip contains the specified directories and relevant files detailed below:

1. WWF_ecoregions 
Biogeographic regionalization of the Earth's terrestrial biodiversity by the World Wildlife Fund (WWF) (Olson et al., 2001). The terrestrial landscape is divided into fourteen distinct biomes, further subdivided into 827 ecoregions.

2. List_of_species
A list of studied species in each biome and ecoregion.

3. Data_on_ecoregions 
The detailed data on PSP, PAP, and PAP&PSP species per ecoregion, which are used to draw the global distribution map of PSP, PAP, and PSP & PAP proportion, and to assess their correlation with eco-environmental variables.

4. Bootstrap_resampling
To ensure the robustness of the analysis, we employed two bootstrap resampling methods, Method I and Method II (as detailed in the Methods), to generate 1000 new datasets. This folder includes the list of all sampled species along with the corresponding results of statistical analysis.

5. Future_climate
Climate estimates for 2081-2100 from the UKESM1-0-LL model with a 30 arc-seconds resolution under four Shared Socio-economic Pathway (SSP) scenarios: SSP126, SSP245, SSP370, and SSP585.

6. Code 
The code used in this study.
DOI: 10.17632/mkswhw4mt9.4
title: Revisiting mating systems reveals the long-overlooked role of self- and abiotic pollination in global angiosperm radiation

description: The compressed file Pollination_Biogeography.zip contains the specified directories and relevant files detailed below:

1. WWF_ecoregions 
Biogeographic regionalization of the Earth's terrestrial biodiversity by the World Wildlife Fund (WWF) (Olson et al., 2001). The terrestrial landscape is divided into fourteen distinct biomes, further subdivided into 827 ecoregions.

2. List_of_species
A list of studied species in each ecoregion.

3. EBP_frequency_for_other_traits
Detailed data on EBP frequencies for Herbaceous, Deciduous, and Polyploid plants (Fig. 2C).

4. Future_climate
Climate estimates for 2081-2100 from the UKESM1-0-LL model with a 30 arc-seconds resolution under four Shared Socio-economic Pathway (SSP) scenarios: SSP126, SSP245, SSP370, and SSP585.

5. Code 
The code used in this study.