cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1404581.10fu
title: SH1404581.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404584.10fu
title: SH1404584.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404585.10fu
title: SH1404585.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404586.10fu
title: SH1404586.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404588.10fu
title: SH1404588.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404589.10fu
title: SH1404589.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404592.10fu
title: SH1404592.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404596.10fu
title: SH1404596.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1404601.10fu
title: SH1404601.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.cv8uqa
title: Occurrence Download

description: A dataset listing the 334073 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Living Specimen, Occurrence evidence)",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 334073 records were derived from 8339 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0211370-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25921/yvfv-mz35
title: NOAA/WDS Paleoclimatology - Touchan - Tadkaline - CDAT - ITRDB MAR042

description: The first large-scale network of tree-ring chronologies from the western Mediterranean (WM; 32°N–43°N, 10°W–17°E) is described and analyzed to identify the seasonal climatic signal in indices of annual ring width. Correlation and rotated empirical orthogonal function analyses are applied to 85 tree-ring series and corresponding gridded climate data to assess the climate signal embedded in the network. Chronologies range in length from 80 to 1129 years. Monthly correlations and partial correlations show overall positive associations for Pinus halepensis (PIHA) and Cedrus atlantica (CDAT) with winter (December–February) and spring (March–May) precipitation across this network. In both seasons, the precipitation correlation with PIHA is stronger, while CDAT chronologies tend to be longer. A combination of positive correlations between growth and winter–summer precipitation and negative partial correlations with growing season temperatures suggests that chronologies in at least part of the network reflect soil moisture and the integrated effects of precipitation and evapotranspiration signal. The range of climate response observed across this network reflects a combination of both species and geographic influences. Western Moroccan chronologies have the strongest association with the North Atlantic Oscillation.
DOI: 10.25921/y8sm-w309
title: NOAA/WDS Paleoclimatology - Wiles - Tebenkof Glacier Update - TSME - ITRDB AK208

description: Ring-width (RW) records from the Gulf of Alaska (GOA) have yielded a valuable long-term perspective for North Pacific changes on decadal to longer timescales in prior studies but contain a broad winter to late summer seasonal climate response. Similar to the highly climate-sensitive maximum latewood density (MXD) proxy, the blue intensity (BI) parameter has recently been shown to correlate well with year-to-year warm-season temperatures for a number of sites at northern latitudes. Since BI records are much less labour intensive and expensive to generate than MXD, such data hold great potential value for future tree-ring studies in the GOA and other regions in mid- to high latitudes. Here we explore the potential for improving tree-ring-based reconstructions using combinations of RW- and BI-related parameters (latewood BI and delta BI) from an experimental subset of samples at eight mountain hemlock (Tsuga mertensiana) sites along the GOA. This is the first study for the hemlock genus using BI data. We find that using either inverted latewood BI (LWBinv) or delta BI (DB) can improve the amount of explained temperature variance by > 10 % compared to RW alone, although the optimal target season shrinks to June–September, which may have implications for studying ocean–atmosphere variability in the region. One challenge in building these BI records is that resin extraction did not remove colour differences between the heartwood and sapwood; thus, long term trend biases, expressed as relatively warm temperatures in the 18th century, were noted when using the LWBinv data. Using DB appeared to overcome these trend biases, resulting in a reconstruction expressing 18th–19th century temperatures ca. 0.5 °C cooler than the 20th–21st centuries. This cool period agrees well with previous dendroclimatic studies and the glacial advance record in the region. Continuing BI measurement in the GOA region must focus on sampling and measuring more trees per site (> 20) and compiling more sites to overcome site-specific factors affecting climate response and using subfossil material to extend the record. Although LWBinv captures the inter-annual climate signal more strongly than DB, DB appears to better capture long-term secular trends that agree with other proxy archives in the region. Great care is needed, however, when implementing different detrending options and more experimentation is necessary to assess the utility of DB for different conifer species around the Northern Hemisphere.
DOI: 10.25921/yfp3-kz54
title: NOAA/WDS Paleoclimatology - Western Pacific Warm Pool Sea Surface Temperature Reconstruction and Biomarker and Geochemistry Data for the past 10 million years

description: While high latitude amplification is seen in modern observations, paleoclimate records, and climate modeling, better constraints on the magnitude and pattern of amplification would provide insights into the mechanisms that drive it, which remain actively debated. Here we present multi-proxy multi-site paleotemperature records over the last 10 million years from the Western Pacific Warm Pool (WPWP) – the warmest endmember of the global ocean that is uniquely important in the global radiative feedback change. These sea surface temperature records, based on lipid biomarkers and seawater Mg/Ca-adjusted foraminiferal Mg/Ca, unequivocally show warmer WPWP in the past, and a secular cooling over the last 10 million years. Compiling these data with existing records reveals a persistent, nearly stationary, extratropical response pattern in the Pacific in which high latitude (~50°N) temperatures increase by ~2.4° for each degree of WPWP warming. This relative warming pattern is also evident in model outputs of millennium-long climate simulations with quadrupling atmospheric CO2, therefore providing a strong constraint on the future equilibrium response of the Earth System.
description: Data related to the publication "Persistent high latitude amplification of the Pacific Ocean over the past 10 million years" is available at Figshare - https://doi.org/10.6084/m9.figshare.21183769
DOI: 10.25921/y4ze-v512
title: NOAA/WDS Paleoclimatology - Subpolar North Atlantic Planktic and Benthic Foraminiferal Isotope and Abundance Records during the last 1,200 years

description: Instrumental observations of subsurface ocean warming imply that ocean heat uptake has slowed 20th-century surface warming. We present high-resolution records from subpolar North Atlantic sediments that are consistent with instrumental observations of surface and deep warming/freshening and in addition reconstruct the surface-deep relation of the last 1200 years. Sites from ~1300 meters and deeper suggest an ~0.5 degrees celsius cooling across the Medieval Climate Anomaly to Little Ice Age transition that began ~1350 ± 50 common era (CE), whereas surface records suggest asynchronous cooling onset spanning ~600 years. These data suggest that ocean circulation integrates surface variability that is transmitted rapidly to depth by the Atlantic Meridional Ocean Circulation, implying that the ocean moderated Earth’s surface temperature throughout the last millennium as it does today.
DOI: 10.25921/y16r-p307
title: NOAA/WDS Paleoclimatology - Andrus - Trillium - THPL - ITRDB WA166

description: Aim: Forest dieback is increasing in many forest ecosystems from unfavorable climate conditions. Western redcedar (WRC)–a culturally, ecologically, and economically important species–has recently experienced anomalously high mortality rates and partial canopy dieback. We investigated how WRC tree radial growth and dieback responded to climate variability and drought using tree-ring methods. Location: Pacific Northwest, USA. Taxon: western redcedar (Thuja plicata). Methods: We collected tree cores from three tree health status groups (no canopy dieback, partial canopy dieback, and dead trees) at 11 sites in coastal (maritime climate) and interior (continental climate) WRC populations as well as previously published climate and weather data. From growth rates, we computed four growth indices evaluating the resilience to drought. Results: Warmer and drier climate conditions in May and June that extend the annual July-to-September dry season reduced radial growth in 9 of 11 sites (1975-2020). WRC trees recovered radial growth to pre-drought rates within three years when post-drought climate conditions were average or cooler/wetter than average. However, recovery from drought was slower or absent when conditions were warmer/drier during the post-drought recovery period, which appeared to lead to the widespread mortality event across the coastal populations. WRC tree mortality was portended by 4-5 years of declining radial growth. Annually-resolved tree mortality in coastal populations predominately occurred in 2017-2018 (80% of sampled dead trees) and coincided with exceedingly hot temperatures and the longest regionally dry period from May to September (1970-2020). In interior populations, tree mortality was dispersed among years but associated with warmer and drier conditions from August to September. Main conclusions: Our findings forewarn that a warming climate and more frequent and severe summer droughts, especially in consecutive years, will likely increase the vulnerability of WRC to canopy dieback and mortality and possibly other drought-sensitive trees in one of the world’s largest carbon sinks.
DOI: 10.25921/ybf7-zt97
title: NOAA/WDS Paleoclimatology - Schneider - Berlin Trusepark den01 - FREX - ITRDB DEU305

description: Using dendroclimatological techniques this study investigates whether inner city tree-ring width (TRW) chronologies from eight tree species (ash, beech, fir, larch, lime, sessile and pedunculate oak, and pine) are suitable to examine the urban heat island of Berlin, Germany. Climate-growth relationships were analyzed for 18 sites along a gradient of increasing urbanization covering Berlin and surrounding rural areas. As a proxy for defining urban heat island intensities at each site, we applied urbanization parameters such as building fraction, impervious surfaces, and green areas. The response of TRW to monthly and seasonal air temperature, precipitation, aridity, and daily air-temperature ranges were used to identify climate-growth relationships. Trees from urban sites were found to be more sensitive to climate compared to trees in the surrounding hinterland. Ring width of the deciduous species, especially ash, beech, and oak, showed a high sensitivity to summer heat and drought at urban locations (summer signal), whereas conifer species were found suitable for the analysis of the urban heat island in late winter and early spring (winter signal). The summer and winter signals were strongest in tree-ring chronologies when the urban heat island intensities were based on an area of about 200 m to 3000 m centered over the tree locations, and thus reflect the urban climate at the scale of city quarters. For the summer signal, the sensitivity of deciduous tree species to climate increased with urbanity. These results indicate that urban trees can be used for climate response analyses and open new pathways to trace the evolution of urban climate change and more specifically the urban heat island, both in time and space.
description: NOAA Template Raw Measurements file added 2022-05-31. July 2024: Elevation added by WDS-Paleo using get_elev_point() from the elevatr R package with the AWS Terrain Tiles (aws) and WGS 84 reference frame.
DOI: 10.25921/y2ev-as51
title: NOAA/WDS Paleoclimatology - Hartl - Simplon RCS01 - LADE - ITRDB CHE417

description: Tree ring data from the International Tree Ring Data Bank and World Data Center for Paleoclimatology archives.  Most data sets include raw treering measurements (most are annual ring width, with some collections of earlywood or latewood width or wood density), plus chronologies (standardized growth indices for a site compiled from multiple treering samples). Reconstructions of climate variables are included with some of these data sets.  Each data type is stored in a separate data file; the data type is coded into the file name. For details please see: http://www.ncdc.noaa.gov/paleo/treeinfo.htmll