cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27300957
title: Supplementary Material for: Delineating the W sex chromosome in the clam shrimp, Eulimnadia texana

description: Introduction: Sex chromosomes have evolved independently across various lineages, often showing convergent degradation of the sex-limited chromosome. While extensively studied in model organisms with ancient sex chromosomal systems, the evolution of early-stage sex chromosomes remains poorly understood. Eulimnadia texana, a freshwater crustacean with a unique androdioecious breeding system (ZZ, ZW, and viable WW genotypes), provides a rare opportunity to study early sex chromosome evolution. This study examines E. texana's W chromosome for evidence of a small localized non-recombining region, characterized by a transposable element (TE) "hotspot", low gene density, and low GC content. Methods: Sex-linked markers were mapped onto the W chromosome (Scaffold 1). TEs in the WW genome were identified using RepeatModeler and RepeatMasker. Statistical analyses compared TE distribution between the genome and Scaffold 1, which was then divided into 20 equal-sized "bins" for finer-scale statistical analyses. Gene density and GC content were analyzed across these bins. Results: While no significant TE accumulation was found across the entire W chromosome compared to the remaining genome, a specific region (6.6-8.8 Mb, fourth bin) showed significantly higher TE accumulation. This region also exhibited low gene density and low GC content, indicative of reduced recombination. Conclusion: Our findings suggest that E. texana's W chromosome contains a smaller region of crossover suppression, supporting the hypothesis that it is in a proto-sex chromosome in early evolutionary development. This study provides valuable insights into early sex chromosome evolution and establishes E. texana as an ideal model for further investigation of evolutionary processes driving proto-sex chromosome differentiation.
DOI: 10.15156/bio/1281531
title: Full UNITE+INSD dataset for Fungi

description: This FASTA file ("UNITE+INSDC") comprises “all” fungal ITS sequences of the UNITE and INSDC databases present in UNITE Species Hypotheses, updated and released some four times a year. Locked UNITE sequences and low quality (and overly short) INSDC sequences are however excluded.
DOI: 10.5281/zenodo.10555223
title: Monthly near-surface air temperatures over Arctic sea ice based on satellite observations

description: Monthly gap-free (i.e. Level 4) near-surface air temperatures (T2m) over Arctic sea ice based on satellite observations. The dataset is provided on a 0.05 regular latitude/longitude grid and covers the period 198201-202105. The T2m are derived from the sea and sea-ice surface temperature climate data record presented in Nielsen-Englyst et al. 2023, using the relationship model derived in Nielsen-Englyst et al., 2021. It also includes a multi-source sea ice concentration product (also described in Nielsen-Englyst et al., 2023), which has been used to evaluate the capability of the DMI sea ice operational forecast system in Ponsoni et al., 2023. In Tian et al., 2024, the monthly mean T2m data has been converted to a 1-degree grid and used as a benchmark for assessing near-surface air temperatures from the ERA5 reanalysis and the CMIP6 model simulations.

 

Nielsen-Englyst, P., Høyer, J. L., Kolbe, W. M., Dybkjær, G., Lavergne, T., Tonboe, R. T., Skarpalezos, S., & Karagali, I. (2023). A combined sea and sea-ice surface temperature climate dataset of the arctic, 1982–2021. Remote Sensing of Environment, 284, 113331.

 

Nielsen-Englyst, P., Høyer, J. L., Madsen, K. S., Tonboe, R. T., Dybkjær, G., & Skarpalezos, S. (2021). Deriving arctic 2 m air temperatures over snow and ice from satellite surface temperature measurements. The Cryosphere, 15(7), 3035–3057.

 

Ponsoni, L., Ribergaard, M. H., Nielsen-Englyst, P., Wulf, T., Buus-Hinkler, J., Kreiner,M. B., & Rasmussen, T. A. S. (2023). Greenlandic sea ice products with a focus on an updated operational forecast system. Frontiers in Marine Science, 10, 979782.

 

Tian, T., Yang, S., Høyer, J. L., Nielsen-Englyst, P., &  Singha, S (2024).  Cooler Arctic surface temperatures simulated by climate models are closer to satellite-based data than the ERA5 reanalysis. Commun. Earth Environ., 5, 111.
DOI: 10.5281/zenodo.11173005
title: Contrasting Responses of Particulate and Mineral-Associated Organic Carbon to Afforestation Potentially Obscure Soil Carbon Accumulation [Dataset]

description: This is the data repository for the manuscript “Contrasting Responses of Particulate and Mineral-Associated Organic Carbon to Afforestation Potentially Obscure Soil Carbon Accumulation” submitted to Global Biogeochemical Cycles.
DOI: 10.5281/zenodo.12696715
title: Data for "The influence of fault geometrical complexity on surface rupture length"

description: This repository contains the data generated in and some data from the FDHI database (Sarmiento et al., 2021) required to run the scripts used in our publication "The effect of fault geometrical complexity on surface rupture length".

 

Table of contents:




File/directory
File type
Notes
References (if applicable)


geometrical_complexity_shapefiles_v1.zip
Shapefiles


Shapefiles for the breached and unbreached geometrical features in Rodriguez Padilla et al. 202X. The name of each file is the geometrical feature, followed by whether the feature is breached or unbreached, followed by the name of the event the feature was mapped from.

Example: stepover_breached_Borrego.shp

Note some shapefiles are empty because that feature type was not observed for a given event. 



Rodriguez Padilla et al. (202X)

Sarmiento et al. (2021) https://www.risksciences.ucla.edu/nhr3/fdhi/databases



Regional_maps.zip
Shapefiles
Shapefiles for each regional fault map (Qfaults for US, NZAFD for New Zealand, AFEAD for Asia and the Middle East, and GEM for remaining regions)
USGS and CGS, Langridge et al. (2016), Bachmanov et al. (2021), Styron and Pagani (2020)


event_rupture_shp.zip
Shapefiles
Shapefiles with the primary ruptures for each of the events as mapped in the FDHI database


Sarmiento et al. (2021) https://www.risksciences.ucla.edu/nhr3/fdhi/databases



data_FDHI.xlsx
Spreadhsheet
Event information, including magnitude, date, displacement distribution, etc. from the FDHI database. The data that is compiled in the spreadsheet can be accessed from the appendices of the FDHI database.


Sarmiento et al. (2021)

https://www.risksciences.ucla.edu/nhr3/fdhi/databases



reflines_FDHI.zip
Shapefiles


ECS reference lines for each event from the FDHI database (Sarmiento et al., 2021) in shapefile format



Sarmiento et al. (2021)

https://www.risksciences.ucla.edu/nhr3/fdhi/databases



geometries.csv
Spreadsheet


Feature geometries, including lengths, widths, angles, and other measured attributes, generated using the Matlab code measure_EQgates.m in Github repository https://github.com/absrp/passing_probabilities_EQgates

This csv file also serves as the input for the Jupyter Notebook for estimating passing probabilities and event likelihoods.

Rodriguez Padilla et al. (202X)
DOI: 10.5281/zenodo.13329558
title: Visualisation Scripts: Predictability of the 2020 strong vortex in the Antarctic stratosphere and the role of ozone

description: NCL (https://www.ncl.ucar.edu/) scripts to generate Figures 1-15 and Supplementary Figures S1-S7.
DOI: 10.5281/zenodo.13739429
title: Dataset_urea oxidaiton in the oligotrophic ocean
DOI: 10.5281/zenodo.13831366
title: raw data for "Elucidating ATP's Role as Solubilizer of Biomolecular Aggregate"

description: It contains 4 raw trajectories corresponding to the two proteins Trp-cage (prod_trpcage_ATP0M_REMD_303K_a99SBdisp.xtc and prod_trpcage_ATP0M_REMD_303K_a99SBdisp.xtc) and Aβ40 (prod_trpcage_ATP0M_REMD_303K_a99SBdisp.xtc) proteins in absence and in presence of ATP (0.5 M). The replica exchange molecular dynamics trajectories corresponding to 303 K temperature have been included for each cases. The trajectory (.xtc) and topology (.tpr) files are labeled as "prod_protein-name_ATP-concentration_simulation_temperature_forcefield".

The raw data employed in constructing each of the plots provided in manuscript are included in the respective zip files.The data corresponding to the experimental results are included in the associated zip file, named according to the specific figure referenced in the manuscript. Also some GROAMCS command lines are also provided in the respective data files. For any further inquiries or requests for additional data, please contact jmondal@tifrh.res.in.
DOI: 10.5281/zenodo.3804164
title: LAPSE-RATE ground-based Doppler lidar datasets from Univ Colorado Boulder

description: This dataset includes measurements obtained using the University of Colorado Windcube v1 lidars during the 2018 LAPSE-RATE (Lower Atmospheric Profiling Studies at Elevation - a Remotely-piloted Aircraft Team Experiment) field campaign. This campaign took place in the San Luis Valley of Colorado between 14-21 July, 2018. On 14 July, both lidars were co-located at the Saguache site for intercomparison. WC49 (here named DPLR2) was moved to the Moffat School site late in the day on the 14th. Moffat School data starts on the 15th. Bad or missing data is set to -9999.0 for all fields. The a1 and the a2 datafiles are identical except that the a2 files include beam information (0, 90, 180, or 270) that was omitted from the a1 files.
description: Funding supported by the US National Science Foundation under grant AGS-1554055.
DOI: 10.5439/1973911
title: mwacr (a1)

description: The Marine W-Band (95 GHz) ARM Cloud Radar measures cloud properties, including radar Doppler and radar reflectivity. This instrument is a zenith-pointing W-Band ARM Cloud Radar (WACR) mounted on a stabilized platform for use aboard ships.
DOI: 10.5439/1984008
title: wsacrvpt (a1)

description: ARM's scanning cloud radars are fully coherent dual-frequency, dual-polarization Doppler radars mounted on a common scanning pedestal. Each pedestal includes a Ka-band radar (2kW peak power) and the deployment location determines whether the second radar is a W-band (WSACR; 1.7 kW peak power) or X-band (XSACR; 20 kW peak power). Beamwidths at Ka and W bands are roughly matched at 0.3 degrees. Due to the narrow antenna beamwidth, ARM’s scanning cloud radars use scanning strategies that are unlike typical weather radars. Rather than focusing on plan position indicator, or PPI, scans, the Ka-SACR uses range height indicator, or RHI, scans at numerous azimuths to obtain cloud volume data. Measurements collected with the W-SACR are copolar and cross-polar radar reflectivity, Doppler velocity, spectra width and spectra when not scanning, and linear depolarization ration.
DOI: 10.5439/1984770
title: kazrge (b1)

description: The Ka-band ARM Zenith Radar (KAZR) remotely probes the extent and composition of clouds at millimeter wavelengths. The KAZR is a zenith-pointing Doppler radar that operates at a frequency of approximately 35 GHz. The main purpose of this radar is to determine the first three Doppler moments (reflectivity, vertical velocity, and spectral width) at a range resolution of approximately 30 meters from near-ground to nearly 20 kilometers in altitude. The KAZR replaces the millimeter-wavelength cloud radar (MMCR) and uses a new digital receiver that provides higher spatial and temporal resolution than the MMCR. In addition, spectral artifacts in the data are significantly reduced in the KAZR, allowing researchers to study cloud dynamics much more closely than with the MMCR. KAZR data from the 2018–2019 Cloud, Aerosol, and Complex Terrain Interactions (CACTI) field campaign in Argentina are now available as b1-level products. Building on the original CACTI operational data, the b1-level products feature improved data quality resulting from extensive analyses and corrections. The data are cross-calibrated to a common point, datastreams are corrected for operational issues that occurred during the campaign, and several data quality masks and basic derived products are incorporated. For more information, read the CACTI radar b1-level processing report.
DOI: 10.5439/1984772
title: kazrge (a1)

description: The Ka-band ARM Zenith Radar (KAZR) remotely probes the extent and composition of clouds at millimeter wavelengths. The KAZR is a zenith-pointing Doppler radar that operates at a frequency of approximately 35 GHz. The main purpose of this radar is to determine the first three Doppler moments (reflectivity, vertical velocity, and spectral width) at a range resolution of approximately 30 meters from near-ground to nearly 20 kilometers in altitude. The KAZR replaces the millimeter-wavelength cloud radar (MMCR) and uses a new digital receiver that provides higher spatial and temporal resolution than the MMCR. In addition, spectral artifacts in the data are significantly reduced in the KAZR, allowing researchers to study cloud dynamics much more closely than with the MMCR. KAZR data from the 2018–2019 Cloud, Aerosol, and Complex Terrain Interactions (CACTI) field campaign in Argentina are now available as b1-level products. Building on the original CACTI operational data, the b1-level products feature improved data quality resulting from extensive analyses and corrections. The data are cross-calibrated to a common point, datastreams are corrected for operational issues that occurred during the campaign, and several data quality masks and basic derived products are incorporated. For more information, read the CACTI radar b1-level processing report.
DOI: 10.5676/eum_saf_cm/combi/v001
title: A combined high resolution global TCWV product from microwave and near infrared imagers - COMBI

description: The global total column water vapour (TCWV) data record combines microwave and near-infrared
 imager based TCWV over the ice-free ocean and over land, coastal ocean as well as sea-ice,
 respectively. The data record relies on microwave observations from SSM/I, SSMIS, AMSR-E and
 TMI, partly based on a fundamental climate data record (Fennig et al., 2020; Fennig et al.,
 2017) and on near-infrared observations from MERIS (3rd reprocessing), MODIS-Terra (collection
 6.1) and OLCI (1st reprocessing). Details of the retrieval are described in Andersson et al.
 (2010) and ATBD HOAPS for the microwave imagers as well as in Lindstrot et al. (2012),
 Diedrich et al. (2015) and ABTD NIR Level 2 for the near-infrared imagers. The water vapour of
 the atmosphere is vertically integrated over the full column and given in units of kg/m². The
 microwave and near-infrared data streams are processed independently and combined afterwards
 by not changing the individual TCWV values and their uncertainties. The combined data record
 has a spatial resolution of 0.5°x0.5° and 0.05°x0.05°, with the near-infrared based data being
 averaged and the microwave-based data being oversampled to match the lower and higher spatial
 resolution, respectively. The product is available as daily and monthly means and covers the
 period July 2002 – December 2017.
DOI: 10.15468/dl.v7empg
title: Occurrence Download

description: A dataset containing 7441 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-10000.0",
 "Geometry POLYGON((-11 28,45 28,45 72,-11 72,-11 28))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 {
 "or" : [
 "TaxonKey is Haemaphysalis sulcata Canestrini & Fanzago, 1878",
 "TaxonKey is Haemaphysalis punctata Canestrini & Fanzago, 1878",
 "TaxonKey is Rhipicephalus bursa Canastrini & Fanzago, 1878",
 "TaxonKey is Rhipicephalus annulatus Say, 1821",
 "TaxonKey is Rhipicephalus sanguineus Latreille, 1806",
 "TaxonKey is Hyalomma marginatum C.L.Koch, 1844",
 "TaxonKey is Dermacentor marginatus Sulzer, 1776",
 "TaxonKey is Dermacentor reticulatus Fabricius, 1794",
 "TaxonKey is Ixodes persulcatus Schulze, 1930",
 "TaxonKey is Ixodes frontalis Panzer, 1798",
 "TaxonKey is Ixodes ricinus Linnaeus, 1758",
 "TaxonKey is Ixodes hexagonus Leach, 1815"
 ]
 },
 "Year 1952-2021"
 ]
}

 The dataset includes 7441 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121373-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ytw7up
title: Occurrence Download

description: A dataset containing 126031 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Mosquito Occurrence Dataset"
 ]
}

 The dataset includes 126031 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081590-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sj523a
title: Occurrence Download

description: A dataset containing 761311 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is CSIC-Real Jardín Botánico-Colección de Plantas Vasculares (MA)"
 ]
}

 The dataset includes 761311 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0111165-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g6kp39
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-83.0230308000000008 42.3883739999999989, -83.0230308000000008 42.3892518299999992, -83.0230308000000008 42.3904039700000013, -83.0230308000000008 42.3917207200000021, -83.0230308000000008 42.3928179999999983, -83.0230308000000008 42.3934215100000031, -83.0230308000000008 42.3944090600000010, -83.0230308000000008 42.3949576999999991, -83.0230308000000008 42.3960549900000032, -83.0230308000000008 42.3967682199999985, -83.0230308000000008 42.3977557799999971, -83.0230308000000008 42.3985238699999982, -83.0230308000000008 42.3995662900000028, -83.0230308000000008 42.4001698000000005, -83.0217700799999960 42.4001698000000005, -83.0201256600000050 42.4001698000000005, -83.0193034499999953 42.4001698000000005, -83.0175493999999929 42.4001698000000005, -83.0175493999999929 42.3992371100000014, -83.0175493999999929 42.3983044200000023, -83.0175493999999929 42.3971522699999994, -83.0175493999999929 42.3959452599999977, -83.0175493999999929 42.3949028400000003, -83.0175493999999929 42.3938604200000029, -83.0175493999999929 42.3924888100000032, -83.0175493999999929 42.3913366700000012, -83.0175493999999929 42.3900199300000011, -83.0175493999999929 42.3891969599999996, -83.0175493999999929 42.3883739999999989, -83.0185908699999970 42.3883739999999989, -83.0201256600000050 42.3883739999999989, -83.0216604499999988 42.3883739999999989, -83.0230308000000008 42.3883739999999989))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1932",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Observation, Specimen, Machine Observation)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0150675-210914110416597/datasets/export for details.
DOI: 10.15468/dl.hio78p
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "Issue is Geodetic datum assumed WGS84",
 "TaxonKey is Ceratozamia miqueliana H.Wendl."
 ]
}

 The dataset includes 38 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003512-180730143533302/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ubgdq9
title: Occurrence Download

description: A dataset containing 214 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Machine Observation"
 ]
 },
 "Country is Germany",
 "Year 1970-2020",
 "Geometry POLYGON((-10 1.25,170 1.25,170 78,-10 78,-10 1.25))",
 "HasCoordinate is true",
 "TaxonKey is Carassius auratus (Linnaeus, 1758)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 214 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021914-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vcwffi
title: Occurrence Download

description: A dataset containing 11003 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Australia",
 "Year 2013-2018",
 "HasCoordinate is true",
 "TaxonKey is Phascolarctos cinereus (Goldfuss, 1817)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 11003 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003512-180824113759888/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tfmw4v
title: Occurrence Download

description: A dataset containing 1147 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Inga sertulifera DC."
 ]
}

 The dataset includes 1147 records from 73 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0337060-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vjbp6a
title: Occurrence Download

description: A dataset containing 245913 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "not" : {
 "PublishingCountry" : [
 "is Norway"
 ]
 }
 },
 "Country is Svalbard and Jan Mayen"
 ]
}

 The dataset includes 245913 records from 507 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0081592-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tovvx4
title: Occurrence Download

description: A dataset containing 37202 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Megaptera novaeangliae (Borowski, 1781)"
 ]
}

 The dataset includes 37202 records from 162 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003512-180925134338326/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nrjnev
title: Occurrence Download

description: A dataset containing 34652719 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Observation",
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Unknown evidence"
 ]
 },
 "Geometry POLYGON((-88.42236 40.72062,-81.81299 40.72062,-81.81299 47.04617,-88.42236 47.04617,-88.42236 40.72062))",
 "HasCoordinate is true",
 "TaxonKey is Aves",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 34652719 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0026655-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.