cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.31175398.v1
title: A computer vision methodology for pollen classification using SEM: a case study with medicinal plant species

description: Pollen grains of plant species have unique morphological characteristics. The characteristics, such as variability in pollen shape, size, and microscopic surface features, can be effectively used in the identification of plant species. This approach can be helpful in the identification of medicinal plant species that have a rich biodiversity. This study presents a computer vision-driven framework designed for the segmentation and classification of pollen images acquired through scanning electron microscopy (SEM). This framework has broad applications in palynological fields, including taxonomy, paleoecology, and biodiversity monitoring. While the methodology is universally applicable, we illustrate its effectiveness using a representative dataset consisting of SEM images from 28 medicinal plant species, selected for their morphological diversity and availability. The dataset features 269 images dedicated to segmentation and 5842 images for classification across 28 distinct classes, which have been compiled into an open-access resource titled MPalyn (Medicinal Pollen and Palynology SEM Database). This study demonstrates a broad application in offering a scalable and adaptable tool for automated pollen analysis, which has the potential to advance research in different fields of palynology.
DOI: 10.6084/m9.figshare.31175398
title: A computer vision methodology for pollen classification using SEM: a case study with medicinal plant species

description: Pollen grains of plant species have unique morphological characteristics. The characteristics, such as variability in pollen shape, size, and microscopic surface features, can be effectively used in the identification of plant species. This approach can be helpful in the identification of medicinal plant species that have a rich biodiversity. This study presents a computer vision-driven framework designed for the segmentation and classification of pollen images acquired through scanning electron microscopy (SEM). This framework has broad applications in palynological fields, including taxonomy, paleoecology, and biodiversity monitoring. While the methodology is universally applicable, we illustrate its effectiveness using a representative dataset consisting of SEM images from 28 medicinal plant species, selected for their morphological diversity and availability. The dataset features 269 images dedicated to segmentation and 5842 images for classification across 28 distinct classes, which have been compiled into an open-access resource titled MPalyn (Medicinal Pollen and Palynology SEM Database). This study demonstrates a broad application in offering a scalable and adaptable tool for automated pollen analysis, which has the potential to advance research in different fields of palynology.
DOI: 10.5061/dryad.fxpnvx15q
title: Data from: Structural and epistatic regulatory variants cause hallmark white spotting in cattle

description: Genotype and phenotype data underlying analyses presented in the
 manuscript "Structural and epistatic regulatory variants cause
 hallmark white spotting in cattle". This package contains data
 required to recreate analyses presented in that paper, specifically genome
 wide association analyses of the 'splotchy' and
 'speckly' coat pattern phenotypes.
description: # Data from: Structural and epistatic regulatory variants cause hallmark
 white spotting in cattle Dataset DOI:
 [10.5061/dryad.fxpnvx15q](10.5061/dryad.fxpnvx15q) ## Description of the
 data and file structure Two filesets are included in this package,
 representing the genotypes and phenotypes used for 'Splotchy
 face' and 'Speckly coat' genome-wide association analyses.
 Both filesets consist of Plink binary format files (.bed, .bim, .fam) and
 a phenotype file, also directly loadable using Plink software. Splotchy
 face dataset: splotchy_phenos.txt splotchy_GWAS_geno_set.bed
 splotchy_GWAS_geno_set.bim splotchy_GWAS_geno_set.fam Speckly coat
 dataset: speckled_phenos.txt speckling_GWAS_geno_set.bed
 speckling_GWAS_geno_set.bim speckling_GWAS_geno_set.fam ### Files and
 variables #### File: speckling_GWAS_geno_set.bed **Description:** Plink
 format binary file for genome-wide genotypes for Speckly association
 analysis #### File: speckling_GWAS_geno_set.fam **Description:** Plink
 format animal ID file for Speckly association analysis #### File:
 speckled_phenos.txt **Description:** Phenotype for Speckly association
 analysis ##### Variables * FID: Family ID * IID: Individual ID *
 speckles_on_coat: Phenotypic class #### File: speckling_GWAS_geno_set.bim
 **Description:** Plink format variant ID file for Speckly association
 analysis #### File: splotchy_phenos.txt **Description:** Phenotype for
 Speckly association analysis ##### Variables * FID: Family ID * IID:
 Individual ID * Splotchy: Phenotypic class #### File:
 splotchy_GWAS_geno_set.fam **Description:** Plink format animal ID file
 for Splotchy face association analysis #### File:
 splotchy_GWAS_geno_set.bim **Description:** Plink format variant ID file
 for Splotchy face association analysis #### File:
 splotchy_GWAS_geno_set.bed **Description:** Plink format binary file for
 genome-wide genotypes for Splotchy face association analysis ##
 Code/software Plink software, various current and older versions
DOI: 10.15468/dl.jntn7j
title: Occurrence Download

description: A dataset containing 392 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Piabarchus stramineus"
 ]
}

 The dataset includes 392 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004439-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.m37pvmdfk
title: Rediscovery of Primula cooperi Balf.f. (Primulaceae), a species endemic to Sikkim, Eastern Himalaya

description: In this study, we report the rediscovery of Primula cooperi Balf.f. whose
 existence was seen as a mystery until now. It was first collected in the
 year 1913 from North Sikkim by Roland Edgar Cooper. Since its first
 discovery, it has not been rediscovered again. It was declared extinct as
 its type locality had been repeatedly surveyed without success. Based on
 our recent rediscovery, characteristics of the species is updated
 supported by photographs and measurements. The latest IUCN Red List
 categorised its conservation status as Critically Endangered. Lastly, a
 phylogenetic analysis revealed P. cooperi as a member of P. sect.
 Proliferae of the sub-genus Aleuritia with P. prenantha being its closest
 sister taxon. Morphologically, it has close affinities with P. brachystoma
 and P. polonensis.
description: # Rediscovery of Primula cooperi Balf.f. (Primulaceae), a species endemic
 to Sikkim, Eastern Himalaya Dataset DOI:
 [10.5061/dryad.m37pvmdfk](10.5061/dryad.m37pvmdfk) ## Description of the
 data and file structure Fresh leaves of the *P.cooperi* leaves were used
 to extract DNA. After extraction, the DNA was amplified and sequenced
 using ITS primer. The forward and the reverse readings obtained were
 manually edited using BioEdit software and a consensus sequence was
 developed. ITS sequences of the closely related Primula species were
 downloaded from NCBI. The sequences were assembled, aligned and analyzed
 to get the phylogeny. ### Files and variables #### File:
 IMG_20250418_114713.jpg **Description:** Herbarium specimen image ####
 File: Primula_cooperi_ITS_Sikkim.txt **Description:** ITS sequence
DOI: 10.5061/dryad.n8pk0p37j
title: Reduce revenue vs. increase expenditure: Fires and plant invasion drive soil carbon loss with different mechanisms in a Mediterranean shrubland

description: Fires and plant invasions pose substantial threats to Mediterranean
 ecosystems, particularly in the context of a changing climate. Our study
 utilized a data-model integration approach to assess the response of soil
 organic carbon (SOC) to fires and plant invasion under three Shared
 Socio-Economic Pathway (SSP) scenarios (SSP1-26, SSP2-45, and SSP5-85). We
 parameterized the CLM-Microbe model and then investigated the individual
 and interactive impacts of fires and plant invasion on soil C by comparing
 factorial simulations of initialization (fire/no wildfire in 2021), fire
 module on/off, and with and without plant invasion during 2023-2100 in a
 Mediterranean ecosystem. The simulations indicated a marked C loss due to
 the 2021 wildfire, projected fires, and plant invasion across all future
 climate scenarios. Specifically, the 2021 wildfire, projected fires, and
 plant invasion reduced the SOC (0-30 cm) by 0.12, 0.26, and 0.15 kg C m-2
 under SSP1-26, 0.12, 0.30, and 0.12 kg C m-2 under SSP2-45, and 0.12,
 0.24, and 0.13 kg C m-2 under SSP5-85, respectively. However, fires and
 plant invasion decreased SOC through distinct mechanisms. The effects of
 the 2021 wildfire occurred due to its negative legacy on the soil
 microbial community and, thus, litter accumulation, suppressing the
 formation of soil carbon via decomposition. Influences of projected fires
 occur via consuming fuel, suppressing carbon input to soils. In contrast,
 the impacts of plant invasions were due to enhanced microbial respiration,
 leading to C loss. These findings emphasize the need for tailored C
 sequestration strategies considering the disparate impacts of fires and
 plant invasions in the Mediterranean climate.
description: # Reduce revenue vs. increase expenditure: Fires and plant invasion drive
 soil carbon loss with different mechanisms in a Mediterranean shrubland
 Dataset DOI: [10.5061/dryad.n8pk0p37j](10.5061/dryad.n8pk0p37j) ##
 Description of the data and file structure Supplementary data and code
 used to create figures in our JGR publication,
 doi: [10.1029/2025JG008964](https://doi.org/10.1029/2025JG008964
 "Opens in new tab") Data included in each file: *
 Supplementary_information_S2.csv: NDVI in both control and fire-burned
 plots included in this study for analysis * code.zip: Code used to produce
 figures in this study * data.zip: Model output for simulations of with and
 without wildfire in 2021 (ctrl vs. burn as named in output), projected
 fires (noire vs. fire as named in output), and plant invasion (noinv vs.
 inv as named in output) during 2023-2100 forced by three models (CESM,
 EC-Earth3, and BCC-CSM2-MR as named in output) under three climate
 scenarios (SSP1-26, SSP2-45, and SSP5-85 as named as ssp126, and ssp245,
 and ssp585, respectively, in output). ## Code/software R, netcdf, and
 Excel. ## Access information NA
DOI: 10.5061/dryad.m905qfvdz
title: Herbarium-based dataset of <em>Clematis</em> (Ranunculaceae) species native to Brazil

description: This dataset compiles information from specimens of the
 genus Clematis (Ranunculaceae) deposited in herbaria,
 focusing on species native to Brazil and including additional records from
 neighboring South American countries. It was developed as part of a
 comprehensive taxonomic revision of the genus in Brazil. The dataset is
 provided as an Excel file and contains 1,435 records, representing a total
 of 1,986 examined specimens when duplicates are considered. Each record
 includes standardized information on collection locality, elevation,
 geographic coordinates, date of collection, presence of flower/fruit,
 collector's name and number, and herbarium voucher. All
 records originate from publicly accessible herbarium collections, and no
 sensitive or legally restricted information is included.
description: # Herbarium-based dataset of *Clematis* (Ranunculaceae) species native to
 Brazil Dataset DOI: [10.5061/dryad.m905qfvdz](10.5061/dryad.m905qfvdz) ##
 Description of the data and file structure This spreadsheet contains data
 from all examined specimens deposited in herbaria, organized
 alphabetically. When collector numbers were unavailable, herbarium
 accession numbers or barcodes were provided. The data were obtained from
 specimens deposited in several herbaria, examined either physically or
 through digital images. Each specimen was identified, and information from
 the labels was converted and inserted into the spreadsheeet. Months are
 indicated using Roman numerals; geographic coordinates are given in
 decimal degrees; reproductive stage and flower type are provided in
 abbreviated form. ### Files and variables #### File:
 SYSBOT-D-25-00021_ExaminedSpecimens.xlsx **Description:**  ##### Variables
 * species: (character) The name of the species (binomial). * country:
 (character) The name of the country. * state: (character) The name of the
 primary administrative division (e.g., state, province, department). *
 locality: (character) The specific locality. * elevation: (numeric) The
 elevation above sea level, in meters (m). * latitude: (numeric) The
 latitude in decimal degrees, WGS84. * longitude: (numeric) The longitude
 in decimal degress, WGS84. * date (alphanumeric) The date, with months
 represented by roman numerals. * flower, fruit (character) The
 reproductive stage and flower type (abbreviations: fl = flower; fr =
 fruit; perf. fl. = perfect flower; pist. fl = pistillate flower; stam. fl.
 = staminate flower). * collector name (character) The name of the
 collector(s). * collector number (numeric) The number of the collector. *
 herbarium (character) The standard herbarium acronym, which may be
 followed by the specimen's accession number or barcode. Data type:
 alphanumeric, character, numeric Missing data value: blank cells
DOI: 10.5281/zenodo.18408169
title: Refactoring Knwoledge base
DOI: 10.15468/dl.cfyh7q
title: Occurrence Download

description: A dataset containing 22128 records in GBIF matching the query:
SELECT
 '518' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 51.21395264452012
 AND decimalLatitude &lt;= 56.135291543055025
 AND decimalLongitude &gt;= 73.49581818030033
 AND decimalLongitude &lt;= 86.34612226022934
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 22128 records were derived from 74 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004430-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.myza76
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dicyemennea eledones",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 6 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004440-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2zyajh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dicyemennea gracile",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004441-260126135527185/datasets/export for details.
DOI: 10.5281/zenodo.16955858
title: Inter-SSE GPS displacement vectors

description: This file contains the coordinates of the GPS stations and the GPS displacement vectors (in meters per year) used for the inversion of plate interface coupling in the Mexican subduction zone. This analysis was performed by Cruz-Atienza et al. (JGR, 2025).
DOI: 10.5281/zenodo.16955859
title: Inter-SSE GPS displacement vectors

description: This file contains the coordinates of the GPS stations and the GPS displacement vectors (in meters per year) used for the inversion of plate interface coupling in the Mexican subduction zone. This analysis was performed by Cruz-Atienza et al. (JGR, 2025).
DOI: 10.5061/dryad.4qrfj6qpr
title: Efficacy of using environmental DNA (eDNA) to detect alligator snapping turtles

description: Raw data of abiotic factors recorded from ten sites across east Texas,
 surveyed monthly from March 2023 to February 2024, showing positive (+)
 and negative (−) environmental DNA (eDNA) detection results for the
 alligator snapping turtle (Macrochelys temminckii).
description: # Dryad dataset Dataset DOI:
 [10.5061/dryad.4qrfj6qpr](10.5061/dryad.4qrfj6qpr) ## Description of the
 data and file structure The outlined objectives of this research were
 performed by repeated eDNA surveys across ten sites that included both
 reservoir and riverine habitats. Each site was previously surveyed for
 alligator snapping turtles using hoop nets and eDNA in 2020 and 2021.
 These sites were surveyed an additional twelve times to test the efficacy
 of using eDNA in surveying alligator snapping turtles. These repeated site
 surveys across seasons, allowed us to assess detectability of this species
 using this non-invasive survey method. We collected local habitat
 covariates (e.g., temperature and current velocity) to further evaluate
 the potential environmental factors that influence eDNA detectability thus
 providing explanatory power to variability in detection of threatened and
 endangered species. ### Files and variables #### File: AST_eDNA_data.pdf
 **Description:**  Month - 3-letter month abbreviation Collection Date -
 M/D/YYYY format Time - 24-hour Site - 10 sites with 3 samples collected at
 each site (1 = farthest downstream, 3 = farthest upstream): * BOC -
 Bonaldo Creek * BOS - Boggy Slough * BUS - Buzzard Slough * CAL - Caddo
 Lake * ESJ - East Fork San Jacinto River * GUE - Gus Engeling Wildlife
 Management Area * HAB - Harrison Bayou * NAR - Navasota River * RAL -
 Ratcliff Lake * SJB - Swede Johnson Bayou Latitude - In decimal degrees
 Longitude - In decimal degrees Stream Flow - * Lotic - Flowing-water site
 * Lentic - Still-water site Surface Current Velocity (m/sec) - Linear
 velocity measured at water surface Benthic Current Velocity (m/sec) -
 Linear velocity measured at water bottom Water Temp (C) - Temperature in
 Celsius measured at water surface pH - pH of water at surface DO (mg/L) -
 Dissolved oxygen of water at surface DO (%) - Percent dissolved oxygen
 calculated using elevation and temperature Conductivity (μS/cm) - Measured
 at water surface TDS (ppm) - Total dissolved solids measured at water
 surface Salinity (ppt) - Measured at water surface Surface Turbidity (NTU)
 - Measured at water surface Water Sample Volume Filtered (mL) - Total
 volume of sampled water that was filtered within 4-hour time frame eDNA
 Detection - Positive (+) or negative (−) detection of alligator snapping
 turtle environmental DNA ND - No data Shallow - water too shallow to
 measure Blanks - No data recorded DRY - Sampling location had no water ##
 Access information Other publicly accessible locations of the data: *
 Texas Natural Diversity Database (TxNDD)
DOI: 10.5061/dryad.v9s4mw77n
title: Data from: The drivers of respiration shift from soil nutrients to water with the increase in temperature

description: The underlying mechanisms by which different levels of warming affect
 respiration are likely to vary. Identifying the drivers of respiration
 across varying levels of warming is essential for more accurately
 predicting changes in carbon processes under future warming
 scenarios.  This study conducted a long-term warming experiment
 in an alpine meadow ecosystem to investigate diurnal respiration dynamics.
 We analyzed diurnal and nocturnal ecosystem respiration changes under five
 warming gradients and investigated the mechanisms behind these
 changes.  Our results show that warming significantly decreased
 diurnal respiration. Moreover, with increasing warming intensity, the
 limiting factor for respiration transitioned from nutrient to water
 scarcity. Low-level warming decreases soil respiration, mainly by reducing
 soil nutrient pools. High-level warming mainly reduces soil respiration by
 decreasing soil moisture. Warming significantly reduces aboveground
 biomass, leading to a corresponding decrease in respiration. We also
 observed that nocturnal respiration exhibited a pronounced and more
 complicated response compared to daytime respiration under warming
 conditions. Our results emphasize the critical roles of nutrients and
 water in modulating CO2 emission flux under climate warming. Therefore,
 soil resource management is crucial for enhancing carbon sequestration in
 alpine grasslands.
description: # Data from: The drivers of respiration shift from soil nutrients to water
 with the increase in temperature Dataset DOI:
 [10.5061/dryad.v9s4mw77n](10.5061/dryad.v9s4mw77n) ## Description of the
 data and file structure ST： soil temperature （℃） AT: air temperature （℃）
 AM： relative humidity （%） P： precipitation （mm） block： "Block"
 represents the number of replicates for each treatment. "Cover"
 refers to the vegetation coverage (%) above the ground in the community. 
 NER: nocturnal ecosystem respiration (μmol CO₂ m⁻² s⁻¹ ) NSR: nocturnal
 soil respiration (μmol CO₂ m⁻² s⁻¹ ) DER： daytime ecosystem respiration
 (μmol CO₂ m⁻² s⁻¹ ) DSR: daytime soil respiration (μmol CO₂ m⁻² s⁻¹ )
 T1-T4 represent the warming gradients from low to high warming.
 CK represent the ambient temperature. In the soil_temperature file, the
 empty values of ST indicate that data loss or anomalies have occurred due
 to certain factors.