cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh0140605.10fu
title: SH0140605.10FU

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: 10.13145/bacdive153242.20241212.9.2
title: Streptococcus gallolyticus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive153242.20251217.10
title: Streptococcus gallolyticus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0140606.10fu
title: SH0140606.10FU

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: 10.3535/9ka-q95-y3z
title: Lypusidae Herrich-Schäffer, 1857

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/sth-bmj-lv8
title: Lypusidae Herrich-Schäffer, 1857

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.13145/bacdive153243.20241212.9.2
title: Streptococcus gallolyticus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive153243.20251217.10
title: Streptococcus gallolyticus

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0140607.10fu
title: SH0140607.10FU

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: 10.3535/g82-wn8-d4j
title: Lypusidae Herrich-Schäffer, 1857

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.3535/wbj-tct-6j1
title: Lypusidae Herrich-Schäffer, 1857

description: Digital Specimen for the physical specimen hosted at Finnish Museum of Natural History.
DOI: 10.13145/bacdive153244.20241212.9.2
title: Propionibacterium freudenreichii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive153244.20251217.10
title: Propionibacterium freudenreichii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0140608.10fu
title: SH0140608.10FU

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: 10.13145/bacdive153245.20241212.9.2
title: Propionibacterium freudenreichii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0140609.10fu
title: SH0140609.10FU

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: 10.13145/bacdive153245.20251217.10
title: Propionibacterium freudenreichii

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive153246.20241212.9.2
title: Streptococcus minor

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.15156/bio/sh0140610.10fu
title: SH0140610.10FU

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.ndxyh3
title: Occurrence Download

description: A dataset containing 518 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "OccurrenceStatus is Present",
 "TaxonKey is Amerotyphlops brongersmianus (Vanzolini, 1976)"
 ]
}

 The dataset includes 518 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004837-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25921/b313-wc58
title: NOAA/WDS Paleoclimatology - Katalekhor Cave, Iran Holocene Stalagmite Isotope and Trace Element Data

description: We explore Holocene climatic changes recorded by geochemical proxies in a single, well-dated, stalagmite from the northern Zagros Mountains of Iran, a region where stalagmite records have so far only provided short glimpses of Holocene climatic changes. Stalagmite KT-3 from Katalekhor Cave began growing ~9.5 ka under wet early Holocene conditions coincident with the timing of Sapropel 1. At this time d18O values were at or below -9.0 per mil, stalagmite growth diameter was at its maximum, 234U/238U0 activity values were low and trace element contents indicate flushing of the epikarst. Progressive reduction in winter precipitation amount after 7.0 ka, is recorded by increasing d18O and 234U/238U0 activity values and reduction in trace element contents and growth diameter until ~2.0 ka. These trends follow the reduction in summer insolation and agree with model-simulated changes in total rainfall and rainwater isotopes. Sub-centennial-scale variability is not a feature of the d18O or trace element records; this suggests a stable winter recharge regime, a feature that might militate against KT-3 d18O recording changes in the seasonality of rainfall. KT-3 d13C compositions are enriched relative to lower altitude stalagmites in the Levant, implying low soil CO2 contribution (thin montane soils). However, a broadly decreasing millennial-scale trend in d13C suggests that soil carbon contributions increased with time despite the progressive reduction in winter precipitation amount. The d13C changes probably reflect decreasing summer temperatures and less extreme wintertime coldness, driven by reducing summer - and increasing winter - insolation respectively. These combined effects decreased effective evaporation and improved soil-moisture availability favouring vegetation development during the growth season. The d13C values also show ~1.5 per mil centennial-scale variability with higher d13C values between 9.0 and 8.7 ka, 8.3-7.7 ka, 6.5-5.5 ka, 5.4-4.5 ka and ~4.3-2.0 ka: three of these correspond with Rapid Climate Change (RCC) events based on non-seasalt potassium (K+) in Greenland ice cores. Higher d13C values indicate poor soil development caused by aridity. The centennial-scale d13C anomaly (8.3-7.7 ka) is in part overprinted by the ~160 year-long, 8.2 ka cold/dry event, but culmination ~7.7 ka corresponds with other records suggesting an intensified Siberian High Pressure system affecting regional climate. The centennial-scale d13C anomaly between 4.3 and 2.0 ka overlaps the 2.65 to 2.50 ka 'Assyrian megadrought' evident in stalagmite stable isotope records in northern Iraq. The KT-3 record is key in better understanding Holocene climate change in the central Zagros region, representative of montane 'fertile crescent' environments.
description: Stalagmite stable isotope (d13C, d18O) and trace element (Mg, Sr, Ba) data from Katalekhor Cave, Zagros Mountains, Iran, for the past 9,300 years. Provided Keywords: Holocene, Iran, Zagros, Rapid climate change
DOI: 10.25921/bgq4-hx12
title: NOAA/WDS Paleoclimatology - Boyd - Interior Alaska Aspen Site SA1104 - PPTR - ITRDB AK184

description: Climate change-driven droughts and insect outbreaks are becoming more frequent and widespread, increasing forest vulnerability to mortality. By addressing the impacts of climate and insects on tree growth preceding death, we can better understand tree mortality risk under a changing climate. Here, we used tree stature and interannual growth (basal area increment; BAI) to assess processes leading to trembling aspen (Populus tremuloides) survival or mortality during an unprecedented leaf miner (Phyllocnistis populiella) outbreak in boreal North America. We identified eight sites (22 plots) in the longest running forest monitoring network in Alaska, spanning ~350 km of latitude, that experienced >=0.25 Mg ha-1 yr-1 aspen mortality during the outbreak. We compared the size and canopy position, growth patterns, and sensitivity to climate and leaf mining of aspen that survived (living; n = 84) vs. died (dying; n = 76) and linked the normalized difference vegetation index (NDVI) to plot-level aspen growth and stand biomass recruitment, growth, and mortality. Dying aspen were in the subcanopy, smaller in diameter, and after a drought in 1957 had lower growth than living aspen until death. Before the outbreak, growth of all trees was positively influenced by moisture and negatively by temperature, but only living trees maintained this climate response during the outbreak. Leaf mining reduced growth of both groups, exerting at least a twofold greater impact than climate. The NDVI captured plot-level tree growth and stand biomass growth and mortality, yet it was nearly two times more strongly associated with living than dying tree growth and 12 times more strongly associated with biomass growth than mortality. These differences suggest that NDVI may inadequately detect insect-driven dieback and dispersed mortality of aspen across the boreal biome. Our findings reveal that a historic drought triggered a multi-decadal growth decline that predisposed aspen to mortality during the leaf miner outbreak and that while aspen growth is influenced by moisture and temperature, it is more strongly affected by P. populiella. We conclude that as the climate warms and insect outbreaks increase in frequency and magnitude at high latitudes, we should expect to see persistent and greater declines in aspen growth and increases in mortality.
description: This data file contains raw ring-width chronologies of individual trees that died (dying) and survived (living) an insect oubreak of Phyllocnistis populiella (outbreak period: 1997-2013) in Interior Alaska.  Living trees have ring-width measurements up to 2015 and the tree names are preceded by TA whereas dying tree ring-width measurements end in 1997-2013 and the tree names are preceded by TM. NOAA Template Raw Measurements file added 2021-02-22
DOI: 10.25921/bsp6-am74
title: NOAA/WDS Paleoclimatology - Maxwell - Clear Fork Gorge - PIST - ITRDB OH008

description: Our understanding of the natural variability of hydroclimate before the instrumental period (ca. 1900 CE in the United States) is largely dependent on tree-ring-based reconstructions. Large-scale soil moisture reconstructions from a network of tree-ring chronologies have greatly improved our understanding of the spatial and temporal variability in hydroclimate conditions, particularly extremes of both drought and pluvial (wet) events. However, certain regions within these large-scale network reconstructions in the US are modeled by few tree-ring chronologies. Further, many of the chronologies currently publicly available on the International Tree-Ring Data Bank (ITRDB) were collected in the 1980s and 1990s, and thus our understanding of the sensitivity of radial growth to soil moisture in the US is based on a period that experienced multiple extremely severe droughts and neglects the impacts of recent, rapid global change. In this study, we expanded the tree-ring network of the Ohio River valley in the US, a region with sparse coverage. We used a total of 72 chronologies across 15 species to examine how increasing the density of the tree-ring network influences the representation of reconstructing the Palmer Meteorological Drought Index (PMDI). Further, we tested how the sampling date and therefore the calibration period influenced the reconstruction models by creating reconstructions that ended in the year 1980 and compared them to reconstructions ending in 2010 from the same chronologies. We found that increasing the density of the tree-ring network resulted in reconstructed values that better matched the spatial variability of instrumentally recorded droughts and, to a lesser extent, pluvials. By extending the calibration period to 2010 compared to 1980, the sensitivity of tree rings to PMDI decreased in the southern portion of our region where severe drought conditions have been absent over recent decades. We emphasize the need of building a high-density tree-ring network to better represent the spatial variability of past droughts and pluvials. Further, chronologies on the ITRDB need updating regularly to better understand how the sensitivity of tree rings to climate may vary through time.
description: Density of tree-ring network influence on drought reconstruction NOAA Template Raw Measurements file added 2021-12-29.
DOI: 10.25921/b5bm-bb25
title: NOAA/WDS Paleoclimatology - Dry Tortugas, Florida Younger Dryas Grain Size Data

description: The risk posed by intensification of North Atlantic hurricane activity remains controversial, in part due to a lack of available storm proxy records that extend beyond the relatively stable climates of the late Holocene. Here we present a record of storm-triggered turbidite deposition offshore the Dry Tortugas, south Florida, USA, that spans abrupt transitions in North Atlantic sea-surface temperature and Atlantic Meridional Overturning Circulation (AMOC) during the Younger Dryas (12.9-11.7 ka). Despite potentially hostile conditions for cyclogenesis in the tropical North Atlantic at that time, our record and numerical experiments suggest that strong hurricanes may have regularly affected Florida. Less severe surface cooling at mid-latitudes (~20-40N) than across much of the tropical North Atlantic (~10-20N) in response to AMOC reduction may best explain strong hurricane activity during the Younger Dryas near the Dry Tortugas and possibly along the entire southeastern coast of the United States.
description: Grain size data from core KNR166-2-25JPC collected near the Dry Tortugas, Southwest Florida margin, spanning the Younger Dryas interval (~13 - 10 kyr BP).
DOI: 10.25921/b0t5-vj52
title: NOAA/WDS Paleoclimatology - Brice - Dry Creek Update - PIED - ITRDB AZ605

description: Snowpack in the western U.S. is on the decline, largely attributed to increasing temperatures in the region. This is a critical issue for many Native American communities who disproportionately rely on local snow-fed water supplies. In light of a combined ongoing drought and limited climate information for the Navajo Nation, Navajo water managers face decision-making challenges complicated by past and future climate uncertainty. Developed in partnership with the Navajo Nation Water Management Branch, this study documents two snowpack reconstruction options to address Navajo concerns about the amount and variability of snowpack in the Chuska Mountains. We used two separate snowpack datasets with tree rings collected in northern Arizona to develop and evaluate reconstructions of Chuska snowpack and their potential relevance and usefulness to Navajo water managers' decision-making. We found that both reconstructions skillfully estimated snowpack, though there were differences that may have meaningful implications for water managers. Major snow droughts occurred roughly once per century over the last 300 years, with droughts in 1728-1744, 1818-1834, 1950-1977, and 1999-2006. Extremely dry individual years in each reconstruction punctuate multi-year drought periods in a way that has not been recognized from instrumental data alone and that can have a large influence on the overall intensity of a given drought. The reconstruction that is most representative of Chuska snowpack has less explanatory power than the regionally representative reconstruction, but the Chuska reconstruction effectively captures snowpack extremes and snow drought timing unique to the Chuska Mountains, and may hold greater relevance to Navajo water management.
description: Update to Dry Creek collection, ITRDB Site Code AZ517. Cores with IDs DCUxxx are 2016 update, measurement precision .001mm, series end flag -9999.
 Cores with IDs DCPxxx are original 1986 collection, measurement precision .01mm, series end flag 999 NOAA Template Raw Measurements file added 2021-08-05.
DOI: 10.25921/bvsa-7e52
title: NOAA/WDS Paleoclimatology - Lake El'gygytgyn, Russia 3.6 Million Year Sediment Biomarker Data

description: Isoprenoid glycerol dialkyl glycerol tetraethers (iGDGTs) are commonly preserved molecular biomarkers of archaea whose distributions can be used to reconstruct past temperature, and possibly, methane and nitrogen cycling. To date, iGDGT systematics have not been widely investigated in Arctic lacustrine environments. Here, we analyze iGDGTs in sediments of Lake El'gygytgyn, located in the Russian Arctic, to reconstruct the paleoenvironmental conditions from the Pliocene to today using TEX86 and other indices. The TEX86-inferred temperature history shows a long-term warming trend, in stark contrast to other Arctic records and other proxies from Lake El'gygytgyn, suggesting that non-temperature factors obfuscate the use of TEX86 at this site. Other GDGT-based indices including the BIT Index, Delta Ring Index, Methane Index, and the GDGT-0/crenarchaeol ratio suggest that TEX86 is strongly influenced by archaeal community changes. The most significant community shifts are observed circa 2.4 Ma and record an increase in methanotrophic Euryarchaeota production and/or a decrease in Thaumarchaeota production, which was driven by the establishment of permafrost and perennial lake ice during the early Pleistocene. Overall, this study demonstrates an important interpretative framework for iGDGTs in lacustrine systems and describes variations in Arctic climate and lake biogeochemistry over timescales of thousands to millions of years.
description: Fractional abundances of isoprenoid GDGTs, as well as calculated iGDGT indices, from 0-3.6 Ma at Lake El'gygytgyn, Far East Russia.