cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6073/pasta/6e10e4d00c1b0c84c2275eafc1d3844f
title: Physiochemical water column parameters and hydrographic time series from river, lagoon, and open ocean sites along the Alaska Beaufort Sea coast, 2018-ongoing

description: To understand circulation and seasonality as part of the Beaufort Lagoon Ecosystem Long Term Ecological Research program, temperature, conductivity, salinity, pressure, depth, and current velocity are recorded hourly in situ, starting August 2018 in lagoons across the Beaufort Sea coast (Elson Lagoon, Kaktovik Lagoon, and Jago Lagoon). Moorings include combinations of 1) RBR Concerto CTDs with temperature, conductivity, and pressure sensors; 2) StarOddi CTs with temperature and conductivity sensors; and 3) Lowell TCM-1 Tilt Current meters with MAT-1 Data Loggers for velocity and bearing. In addition, during BLE LTER's annual sampling, water column physiochemical parameters (chlorophyll a, dissolved oxygen, phycoerythrin concentration, pH, temperature, conductivity, salinity) are measured by hand with a YSI data sonde at river, lagoon, and open ocean sites along the Beaufort Sea coast. Here we provide both quality controlled in situ mooring data and all YSI sonde data.
DOI: 10.25976/zu5d-w808
title: RAEON Community Science

description: Located at the University of Windsor, the Real-Time Aquatic Ecosystem Observation Network (RAEON) supports researchers seeking to improve our understanding of the mechanisms and processes underpinning freshwater ecosystems to better manage, rehabilitate, and conserve them. RAEON is part of the Global Water Futures Observatories (GWFO), that operates 64 instrumented water observation sites in lakes, rivers, wetlands, glaciers, and drainage basins across Canada. Focused primarily in the Great Lakes region, RAEON provides environmental sensing instruments that address significant gaps in research and knowledge. RAEON also facilitates community-based water monitoring in the Western basin of Lake Erie, as part of an initiative funded by the Canada Water Agency. This monitoring program is in an early phase. Some sites may not be monitored consistently, and some parameters may not be monitored consistently.
description: A YSI multimeter probe (ProDSS) is used to collect data at all sampling locations. Additional data (chloride, chlorine, alkalinity, hardness), are collected with community science test kits created and provided by Water Rangers.
DOI: 10.15468/dl.5cahha
title: Occurrence Download

description: A dataset containing 505 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-105.7188 22.19913, -105.5688 22.19913, -105.5688 22.34913, -105.7188 22.34913, -105.7188 22.19913))"
 ]
}

 The dataset includes 505 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033981-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/13736212
title: India Customer Financial Profiles & Transactions
DOI: 10.6084/m9.figshare.30601580
title: <b>Phylogenomic and Functional Insights into </b><b><i>Staphylococcus shinii</i></b><b> from Blueberry Production Environments: Intra-species Structure, Probiotic Traits, and Antimicrobial Resistance</b>

description: This study provides the first comprehensive, high-resolution genomic characterization of <i>Staphylococcus shinii</i> from agricultural environments, revealing extensive intra-species diversity, conserved beneficial traits, and variable antimicrobial resistance. By identifying distinct genomovars with differing resistance profiles, our findings underscore the importance of intra-species level resolution for safety assessments and open new avenues for the biotechnological application of <i>S. shinii</i> in food and environmental systems.© 2025 His Majesty the King in Right of Canada, as represented by the Minister of Agriculture and Agri-Food Canada, 2024. Submitted for possible open access publication under the terms and conditions of the Creative Commons Attribution (CC BY) license.
DOI: 10.6084/m9.figshare.30601580.v2
title: <b>Phylogenomic and Functional Insights into </b><b><i>Staphylococcus shinii</i></b><b> from Blueberry Production Environments: Intra-species Structure, Probiotic Traits, and Antimicrobial Resistance</b>

description: This study provides the first comprehensive, high-resolution genomic characterization of <i>Staphylococcus shinii</i> from agricultural environments, revealing extensive intra-species diversity, conserved beneficial traits, and variable antimicrobial resistance. By identifying distinct genomovars with differing resistance profiles, our findings underscore the importance of intra-species level resolution for safety assessments and open new avenues for the biotechnological application of <i>S. shinii</i> in food and environmental systems.© 2025 His Majesty the King in Right of Canada, as represented by the Minister of Agriculture and Agri-Food Canada, 2024. Submitted for possible open access publication under the terms and conditions of the Creative Commons Attribution (CC BY) license.
DOI: 10.6084/m9.figshare.30601580.v1
title: <b>Phylogenomic and Functional Insights into </b><b><i>Staphylococcus shinii</i></b><b> from Blueberry Production Environments: Intra-species Structure, Probiotic Traits, and Antimicrobial Resistance</b>

description: This study provides the first comprehensive, high-resolution genomic characterization of <i>Staphylococcus shinii</i> from agricultural environments, revealing extensive intra-species diversity, conserved beneficial traits, and variable antimicrobial resistance. By identifying distinct genomovars with differing resistance profiles, our findings underscore the importance of intra-species level resolution for safety assessments and open new avenues for the biotechnological application of <i>S. shinii</i> in food and environmental systems.
DOI: 10.5281/zenodo.17541050
title: Test databases
DOI: 10.6084/m9.figshare.30625160
title: chronograms

description: In order to determine the evolutionary history of each COG of interest identified above, we first had to create a tree of life that is representative of the diversity of life on Earth, and anchor this tree in time to create a molecular clock. For this analysis, we used the phylogenetic tree and molecular clock previously described in Timing the evolution of phosphorus-cycling enzymes through geological time using phylogenomics (Boden et al.). Briefly, the tree includes 865 different genomes chosen to represent the full diversity of bacteria and archaea. We used sixteen ribosomal genes that have been used previously to reconstruct the evolutionary history of life to create the alignment that served as the basis for the final tree, as implemented in GToTree. The tree was created using maximum likelihood methodology implemented in IQ-Tree 2.2.0.3. A relaxed Bayesian molecular clock was implemented in PhyloBayes 4.1 with eight calibration points and a uniform root prior between 4.4 and 3.5 Ga.
DOI: 10.6084/m9.figshare.30625160.v1
title: chronograms

description: In order to determine the evolutionary history of each COG of interest identified above, we first had to create a tree of life that is representative of the diversity of life on Earth, and anchor this tree in time to create a molecular clock. For this analysis, we used the phylogenetic tree and molecular clock previously described in Timing the evolution of phosphorus-cycling enzymes through geological time using phylogenomics (Boden et al.). Briefly, the tree includes 865 different genomes chosen to represent the full diversity of bacteria and archaea. We used sixteen ribosomal genes that have been used previously to reconstruct the evolutionary history of life to create the alignment that served as the basis for the final tree, as implemented in GToTree. The tree was created using maximum likelihood methodology implemented in IQ-Tree 2.2.0.3. A relaxed Bayesian molecular clock was implemented in PhyloBayes 4.1 with eight calibration points and a uniform root prior between 4.4 and 3.5 Ga.
DOI: 10.15468/dl.mfu3wv
title: Occurrence Download

description: A dataset containing 2516 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-105.5688 22.19913, -105.4188 22.19913, -105.4188 22.34913, -105.5688 22.34913, -105.5688 22.19913))"
 ]
}

 The dataset includes 2516 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033982-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kvks6w
title: Occurrence Download

description: A dataset containing 529 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is United States of America",
 "Geometry POLYGON((-114.59371707097496 39.73469095955916,-110.59371707097496 39.73469095955916,-110.59371707097496 43.73469095955916,-114.59371707097496 43.73469095955916,-114.59371707097496 39.73469095955916))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Bromus tectorum"
 ]
}

 The dataset includes 529 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033983-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5kkknb
title: Occurrence Download

description: A dataset containing 283 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation, Material sample, Living Specimen, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Anomaluridae"
 ]
}

 The dataset includes 283 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033984-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.36bpcg
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Plethodon cinereus",
 "Country is United States of America",
 "Geometry POLYGON ((-124.762779 24.520416, -124.762779 49.383297, -66.948891 49.383297, -66.948891 24.520416, -124.762779 24.520416))",
 "CoordinateUncertaintyInMeters is less than 5000"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033976-251025141854904/datasets/export for details.
DOI: 10.15468/dl.fke5w7
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((-109.6188 22.34913, -109.4688 22.34913, -109.4688 22.49913, -109.6188 22.49913, -109.6188 22.34913))"
 ]
}

 The dataset includes 27 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033985-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q6ap4v
title: Occurrence Download

description: A dataset containing 135856 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Foeniculum vulgare"
 ]
}

 The dataset includes 135856 records from 1541 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033942-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.1rn8pk0tk
title: Intraspecific genetic variation in Dendroctonus alters efficacy of molecular approaches to population suppression

description: Genetic variability among geographically distinct populations of widely
 distributed insect species is commonplace and, in the case of southern
 pine beetle (SPB), Dendroctonus frontalis, has been well documented. This
 genetic variability could have consequences for beetle susceptibility to
 an emerging molecular approach to population suppression: RNA interference
 (RNAi). The use of RNAi for gene silencing in forest pest management is in
 its infancy, but its effectiveness in SPB has been demonstrated. RNAi is a
 naturally occurring anti-viral response which disrupts translation of
 mRNAs into proteins. The approach is highly species-specific, requiring an
 exact match of at least 16 nucleotides for successful induction of the
 RNAi pathway. Given the specificity of RNAi and the genetic variability in
 SPB populations, investigating the extent to which this variation may
 affect the RNAi response is warranted. Overall, we evaluated two
 classifications of native populations as well as an invasive SPB
 population for their susceptibility to dsRNAs designed to target the hsp,
 shi, and iap genes. We demonstrate differences in response between and
 within geographically distinct endemic and invading populations,
 highlighting the need for a deeper understanding of the genetic
 complexities of SPB before RNAi can be considered as a potential
 management strategy for SPB. 
description: Raw qPCR data evaluating gene silencing in southern pine
 beekle, <em>Dendroctonus frontalis, </em>collected from two
 gepgrahically distinct locations: Long Island, NY and Cañadas de
 Nanchititla, State of Mexico.
DOI: 10.5061/dryad.7h44j0ztm
title: Retinotopic organization of visual cortex in human infants

description: Vision develops rapidly during infancy, yet how visual cortex is organized
 during this period is unclear. In particular, it is unknown whether
 functional maps that organize the mature adult visual cortex are present
 in the infant striate and extrastriate cortex. Here we test the functional
 maturity of infant visual cortex by performing retinotopic mapping with
 fMRI. Infants aged 5–23 months had retinotopic maps, with alternating
 preferences for vertical and horizontal meridians indicative of area
 boundaries from V1 to V4, and an orthogonal gradient of preferences from
 high to low spatial frequencies. The presence of multiple visual maps
 throughout visual cortex in infants indicates a greater maturity of
 extrastriate cortex than previously appreciated. The areas showed subtle
 age-related fine-tuning, suggesting that early maturation undergoes
 continued refinement. This early maturation of area boundaries and tuning
 may scaffold subsequent developmental changes. 
description: Please refer to the manuscript for details.
 Citation: Ellis, C. T., Yates, T. S., Skalaban, L. J., Bejjanki,
 V. R. Arcaro, M. J., & Turk-Browne, N. B., (2021). Retinotopic
 organization of visual cortex in human infants. Neuron
description: Please refer to the README for guidance on how to use this
 data. Note from Aug 19th, 2021: Note that the burn-in
 information for each of the raw runs was not previously provided. This has
 now also been uploaded. The README was edited to include this information
 but otherwise, nothing else was changed.<br>
DOI: 10.25338/b82w5z
title: Phylogeny, Evolution, and Biogeography of the North American Trapdoor Spider family Euctenizidae (Araneae: Mygalomorphae) and the discovery of a new ‘Endangered Living Fossil’ along California’s Central Coast

description: We report here the discovery of a remarkable new monotypic mygalomorph
 spider genus, known only from one geographical location along the central
 coast of California. The single relict species comprising Cryptocteniza
 kawtakn. gen. n. sp., is morphologically distinct and geographically
 isolated from other related genera, with its closest phylogenetic
 relatives found much further to the east in New Mexico and Arizona. Using
 a phylogenomic approach employing anchored hybrid enrichment, we
 reconstruct the evolutionary history of the family Euctenizidae Raven,
 1985 to explore relationships among genera, affirmatively place previously
 undescribed taxa, explore rates of diversification, and reconstruct the
 group’s biogeography. A biogeographic analysis shows that extinction
 likely played a significant role in shaping the observed disjunct
 modern-day distribution of Cryptocteniza and its sister taxa. Our
 extinction hypothesis is further bolstered by a diversification rate
 analysis identifying considerably higher rates of speciation in other
 euctenizid lineages like AptostichusSimon, 1891. Consequently, changes in
 environmental conditions (or other related biotic and/or abiotic factors)
 may have spurred an adaptive radiation in related genera now widely
 distributed across the California Floristic Province biodiversity hotspot,
 with concomitant extinction in Cryptocteniza following the Miocene and
 establishment of a Mediterranean climate. Owing to its phylogenetic
 distinctiveness, incredibly narrow distribution and age, we show that
 Cryptocteniza meets all the criteria of an ‘Endangered Living Fossil’ and
 is consequently of grave conservation concern.
DOI: 10.5061/dryad.xsj3tx9fk
title: Dispersal distances of radio-tracked cane toads in French Guiana

description: Like most invasive species, cane toads have attracted less research in
 their native range than in invaded areas. We radio-tracked 34 free-ranging
 toads in French Guiana, a source region for most invasive populations,
 across two coastal and two rainforest sites. Coastal toads generally
 sheltered in pools of fresh or brackish water but nocturnally foraged on
 beaches, whereas rainforest toads sheltered in forested habitats, moving
 into open areas at night. Over five days of monitoring, native toads
 frequently re-used shelters and moved little between days (means = 10–63
 m/site) compared to invasion-front toads from Australia (~250 m). Larger
 toads moved less between days, but displaced in more consistent
 directions. At night, foraging toads travelled up to 200 m before
 returning to shelters. Foraging distance was related to body condition at
 coastal sites, with toads in poorer body condition travelling farther.
 Rain increased the probability of coastal toads sheltering in the dry
 habitats where they foraged. Dispersal and rainfall were lower at coastal
 sites, and the strategies utilized by coastal toads to minimize water loss
 resembled those of invasive toads in semi-desert habitats. This global
 invader already exhibits a broad environmental niche and substantial
 behavioural flexibility within its native range.
description: We captured adult cane toads in the field in four sites in French
 Guiana, within the species' native rnage. We atatched transmitters
 with waistbelts, and located the toads by day and by night for 5 days. We
 recorded distances moved per dispalcement,a nd cumulatively, and whether
 or not the toad returned to the same diurnal shelter on successive
 days.
description: The file "cane toad tracking dataset" contains expanded
 headiongs to explain all variables
DOI: 10.5061/dryad.wh70rxwnh
title: Female reproductive mode shapes allometric scaling of male traits in livebearing fishes (family Poeciliidae)

description: Reproductive mode is predicted to influence the form of sexual selection.
 The viviparity driven conflict hypothesis posits that a shift from
 lecithotrophic (yolk-nourished) to matrotrophic (mother-nourished or
 placental) viviparity drives a shift from pre-copulatory toward
 post-copulatory sexual selection. In lecithotrophic species, we predict
 that pre-copulatory sexual selection will manifest as males exhibiting a
 broad distribution of sizes, and small and large males exhibiting
 contrasting phenotypes (morphology and coloration); conversely, in
 matrotrophic species an emphasis on post-copulatory sexual selection will
 preclude these patterns. We test these predictions by gathering data on
 male size, morphology, and coloration for five sympatric Costa Rican
 poeciliid species that differ in reproductive mode (i.e. lecithotrophy vs
 matrotrophy). We find tentative support for these predictions of the
 viviparity driven conflict hypothesis, with some interesting caveats and
 subtleties. In particular, we find that the three lecithotrophic species
 tend to show a broader distribution of male sizes than matrotrophic
 species. Furthermore, large males of such species tend to exhibit
 proportionately large dorsal and caudal fins and short gonopodia relative
 to small males, while these patterns are expressed to a lesser extent in
 the two matrotrophic species. Finally, large males in some of the
 lecithotrophic species exhibit darker fins relative to small males, a
 pattern not evident in either matrotrophic species. One unexpected finding
 was that even in the matrotrophic species Poeciliopsis retropinna and
 Poeciliopsis paucimaculata, which lack courtship and dichromatic
 coloration, some morphological traits exhibit significant allometric
 relationships, suggesting that even in these species pre-copulatory sexual
 selection may be present and shaping size-specific male phenotypes in
 subtle ways.
DOI: 10.5061/dryad.15dv41nxg
title: Short-term exposure to silicon rapidly enhances plant resistance to herbivory

description: Silicon (Si) can adversely affect insect herbivores, particularly in
 plants that evolved the ability to accumulate large quantities of Si. Very
 rapid herbivore-induced accumulation of Si has recently been demonstrated,
 but the level of protection against herbivory this affords plants remains
 unknown. Brachypodium distachyon, a model Si hyperaccumulating grass, was
 exposed to the chewing herbivore, Helicoverpa armigera, and grown under
 three conditions: supplied Si over 34 days (+Si), not supplied Si (-Si),
 or supplied Si once herbivory began (-Si→+Si). We evaluated the
 effectiveness of each Si treatment at reducing herbivore performance and
 measured Si-based defenses and phenolics (another form of defense often
 reduced by Si). Although Si concentrations remained lower, within 72 hr of
 exposure to Si, -Si→+Si plants were as resistant to herbivory as +Si
 plants. Both +Si and -Si→+Si treatments reduced herbivore damage and
 growth, and increased mandible wear compared to -Si. After 6 hr, herbivory
 increased filled Si cell density in -Si→+Si plants, and within 24 hr,
 -Si→+Si plants reached similar filled Si cell densities to +Si plants,
 although decreased phenolics only occurred in +Si plants. We demonstrate
 that plants with short-term Si exposure can rapidly accumulate Si-based
 anti-herbivore defenses as effectively as plants with long-term exposure.