cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.nk98sf7z7
title: Data from: Zero- to ultralow-field relaxometry of chemical and biological fluids

description: NMR relaxometry is an analytical technique that provides information about
 the molecular environment by analyzing the properties of NMR signals
 versus the magnitude of the longitudinal field. In this work, we present
 NMR relaxometry at zero and ultra-low magnetic fields (ZULFs). Operation
 under ZULFs allows us to investigate many slow (bio)chemical processes,
 whose timescale (milliseconds-seconds) coincides with a timescale of spin
 evolution. In contrast to their high-field NMR, ZULF NMR measurements can
 be performed with atomic magnetometers. Here, we share the dataset
 obtained from ZULF NMR relaxometry measurements of (bio)chemical compounds
 containing 1H 13C, 1H-15N, and 1H-31P spin pairs, human whole-blood and
 blood-plasma.
description: ZULF NMR signals arising from various (bio)chemical compounds,
 human whole-blood and blood-plasma were detected using atomic
 magnetometers. This dataset consists of raw ZULF NMR data.
DOI: 10.5061/dryad.wpzgmsbt3
title: Sample extraction and SNP sequencing data for: Identification of sex-linked SNP markers in wild populations of monomorphic birds

description: Single-nucleotide polymorphism (SNP) analyses are a powerful tool for
 population genetics, pedigree reconstruction and phenotypic trait mapping.
 However, the untapped potential of SNP markers to discriminate the sex of
 individuals in species with reduced sexual dimorphism or of individuals
 during immature stages remains a largely unexplored avenue. Here, we
 develop a novel protocol for molecular sexing of birds based on the
 detection of unique Z- and W-linked SNP markers. Our method is based on
 the identification of two unique loci, one in each sexual chromosome.
 Individuals are considered males when they show no calls for the W-linked
 SNP and are heterozygotic or homozygotic for the Z-linked SNP, while
 females show both Z- and W-linked SNP calls. We validated the method in
 the Jackdaw (Corvus monedula). The reduced sexual dimorphism in this
 species makes it difficult to sex individuals in the wild. We assessed the
 reliability of the method using 36 individuals of known sex and found that
 their sex was correctly assigned in 100% of cases. The sex-linked markers
 also proved to be widely applicable to discriminate males and females from
 a sample of 927 genotyped individuals of different maturity stages with an
 accuracy of 99.5%. Given that SNP markers are increasingly used in
 quantitative genetic analyses of wild populations, the approach we propose
 has a great potential to be integrated into broader genetic research
 programmes without the need for additional sexing techniques.
DOI: 10.5061/dryad.t1g1jwt7m
title: Grazing intensity effects on herbaceous community composition in burned sagebrush-steppe

description: There is limited knowledge on grazing impacts to long-term plant community
 dynamics following fire in sagebrush steppe, This study evaluated
 vegetation response to different intensities of deferred rotation cattle
 grazing over 16 years (2007–2022) on burned Wyoming big sagebrush steppe
 in eastern Oregon. Treatments were applied in a randomized complete block,
 including on grazing on burned (Non-use, n=5) and unburned (Control, n=5)
 steppe; and cattle grazing at low (Low, n=4), moderate (Moderate, n=4),
 and high (High, n=4) intensities on burned steppe. Vegetation dynamics
 were evaluated by repeated measures analysis of canopy cover and density
 of shrub and herbaceous species and functional groups. Herbaceosus
 functional groups were an early season bunchgrass (one species, Sandberg
 bluegrass), tall perennial bunchgrass, perennial forbs, annual grass (one
 species, cheatgrass) and annual forbs. Tall perennial bunchgrass, Sandberg
 bluegrass, and perennial forb cover and density did not differ among the
 treatments but did decrease over time in all treatments. Cover of several
 tall bunchgrass species were generally less in the High treatment, mainly,
 Idaho fescue, and Thurber's needlegrass. Cover of cheatgrass and
 annual forbs varied across years but were greater among the burned grazed
 and Non-use treatments than the Control. Native plant cover in the burned
 treatments (grazed and Non-use) represented 77 to 85 % of total herbaceous
 cover versus the Control where natives comprised 91% of the total.
  Annual weather variability appears to account for most of the
 compositional dynamics measured in the various grazed and ungrazed
 treatments.
description: Vegetation sampling: Collected June 2002,
 2007, 2012, and 2022. Six permanent 50-m
 transects. Herbaceous canopy cover (species),
 bareground/rock, moss, lichen, and litter were estimated visually inside
 40X50 cm frames.  Frames were placed every 3-m along the transect lines
 (starting at 3-m and ending at 45-m). 15 frames per transect
 line. Perennial herbaceous density (species) was
 measured by counting all rooted plants within the 40X50 cm
 frames. Herbaceous species richness was estimated by
 counting species presence for a 10-minute period per plot.
 Shrub canopy cover was measured by line intercept along each 50-m
 transect line. Shrub density was measured by belt
 transect by counting all rooted individuals within a 2X50-m area (1-m on
 each side of transect line) along each transect line. 
 Data Processing: Data was entered and
 summarized using Microsoft Excel. Cover, density, and richness (species
 and functional group) were analyzed using SAS 9.4 using the PROC MIXED
 procedure for a randomized complete block study design. An auto-regressive
 order one covariance structure was used as it provided the best fit for
 analysis.
DOI: 10.15468/dl.5dfxjw
title: Occurrence Download

description: A dataset containing 695 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lagenorhynchus cruciger"
 ]
}

 The dataset includes 695 records from 50 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003577-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.8sf7m0cv3
title: Data from: Drivers of plant community (in)stability along a sea-inland gradient

description: Global change pressures are highlighting the need to better understand the
 mechanisms driving the temporal stability of natural communities under
 different environmental conditions. There is ample evidence that species
 richness helps communities to withstand environmental fluctuations and
 stabilise over time. However, it is still debated whether richness
 promotes stability through the diversity of species functional traits,
 phylogenetic lineages, and ecological strategies in the community or
 because of the likelihood of including stable species. Further, it is
 unclear whether the positive effect of diversity on stability is
 maintained in conditions of strong environmental fluctuations (e.g.
 frequent disturbances and stress).  To address these questions,
 we analysed long-term monitoring data of 84 permanent plots in coastal
 dune plant communities distributed along a gradient of natural stress and
 disturbance, with communities closer to the sea subject to greater stress
 and more frequent disturbances. Specifically, we used structural equation
 models to disentangle the relative influence of the environmental gradient
 and the different diversity components (species richness, functional and
 phylogenetic diversity; SR, FD, and PD), as well as of the dominant
 ecological strategy (captured by species lifespan) on community stability,
 through their effect on two key stability mechanisms (population stability
 and species asynchrony).  We found that the sea-inland
 environmental gradient was the main driver of stability mechanisms. Stress
 and disturbance decreased both population stability and species
 asynchrony, but also reduced species richness, which thus exerted a
 stabilising effect only on the communities in more favourable
 environmental conditions.   Surprisingly, we did not
 find an effect of FD and PD on community stability, neither directly nor
 via asynchrony. However, the dominance of perennial species mitigated the
 instability generated by stress and disturbance. Perennial species were on
 average more stable than annuals and displayed a wider range of species
 fluctuations, including compensatory dynamics among species (i.e.
 asynchrony).   Synthesis: Overall, our results highlight
 the importance of accounting for the environmental context when examining
 mechanisms of community stability. Species richness remains a useful
 direct predictor of community stability. Species ecological strategies,
 like the acquisitive-conservative trade-off connected to lifespan,
 however, should also be routinely considered as drivers of both population
 stability and compensatory dynamics.
DOI: 10.25574/cdc.535
title: Chandra X-ray Observatory Chandra Data Collection for request #535

description: Chandra Data Collection for request #535
DOI: 10.5061/dryad.0p2ngf265
title: Single parentage dataset for Chinook salmon

description: ObjectiveParentage analysis is a routine methodology in fisheries
 research, but study systems exist where it is impractical to sample both
 parents. The ability to reliably assign offspring to a single parent is
 beneficial in these situations. We apply single-parentage assignments to a
 naturally spawning population of Chinook Salmon Oncorhynchus tshawytscha
 to quantify production of anadromous returns by unsampled precocial males.
 Methods We use an approach that addresses two important aspects of
 parentage analyses: 1.) addressing the presence of family structure within
 the sampled parents and 2.) controlling for false-positive and
 false-negative assignments. Result Results indicate that 30% of
 reproductively successful males were precocials which produced 20% of the
 returning anadromous offspring. Conclusion This study provides a framework
 for applying single-parent assignments in a salmonid study system while
 explicitly addressing sources of assignment errors.
description: # Single Parentage in Chinook Salmon --- ## Description of the data and
 file structure This dataset contains genotypes for the Chinook salmon
 study system analyzed for single parentage. It contains one collection of
 parents (OtsPAHS12S) and six collections of potential offspring that could
 have possibly originated from these parents. The six collections of
 offspring include (OtsPAHS15S, OtsPAHS16S, OtsPAHS17S) which are fish
 sampled at the Pahsimeroi weir and then passed above the weir and
 (OtsPAHH15S, OtsPAHH16S, OtsPAHH16S) which are fish sampled at the
 Pahsimeroi weir and then used in the Pahsimeroi broodstock. Offspring of
 interest in this study could be found in either scenario. Offspring
 returned as 3, 4, or 5-year-olds and the collections reflect this timing.
 Additional data include: 'Sample date' and 'Marks'.
 The 'Marks' data indicate whether a fish was ad-clipped (AD) or
 ad-intact (AI). Missing meta-data in these fields are denoted with
 'N/A'. A summary column labeled 'Data Category'
 indicates if the sample was of a parent or potential offspring and whether
 the offspring received a 2-parent or a single-parent assignment. The
 genotype data are from 298 SNP loci. An additional diagnosetic SNP was
 used to determine the sex of the sample and is in the 'Genetic
 Sex' column. Missing genetic data are denoted with a '0'.
DOI: 10.5061/dryad.vq83bk3zp
title: Multi-contact loco-manipulation trajectories for the ANYmal robot with a 6-DoF Arm

description: Loco-manipulation planning skills are pivotal for expanding the utility of
 robots in everyday environments. These skills can be assessed based on a
 system's ability to coordinate complex holistic movements and
 multiple contact interactions when solving different tasks. However,
 existing approaches have been merely able to shape such behaviors with
 hand-crafted state machines, densely engineered rewards, or pre-recorded
 expert demonstrations. Here, we propose a minimally-guided framework that
 automatically discovers whole-body trajectories jointly with contact
 schedules for solving general loco-manipulation tasks in pre-modeled
 environments. The key insight is that multi-modal problems of this nature
 can be modeled within the context of integrated Task and Motion Planning
 (TAMP), resulting in a tractable bilevel optimization formulation. An
 effective bilevel search strategy is achieved owing to the fusion of
 domain-specific rules with the well-established strengths of different
 planning techniques: trajectory optimization and informed graph search,
 coupled with sampling-based planning. We showcase emergent behaviors for a
 quadrupedal mobile manipulator exploiting both prehensile and
 non-prehensile interactions to perform real-world tasks such as
 opening/closing heavy dishwashers and traversing spring-loaded doors.
 These behaviors are also deployed on the real system using a two-layer
 whole-body tracking controller.
description: This dataset was generated using the algorithm described in the
 article titled <em>"Versatile Multi-Contact Planning and
 Control for General Loco-Manipulation".</em>
DOI: 10.5061/dryad.73n5tb32z
title: Data from: Ablation of Hoxb3os in mouse polycystic kidney disease exacerbates cystogenesis

description: Autosomal dominant polycystic kidney disease (ADPKD) is a monogenic
 disorder characterized by the formation of cysts in the kidney and is
 primarily caused by mutations in two genes, PKD1 and PKD2. In this study,
 we investigated the role of the long noncoding RNA (lncRNA) Hoxb3os in
 ADPKD by ablating its expression in the mouse. Hoxb3os-null
 mice were viable and had grossly normal kidney morphology but
 displayed activation of mTOR/Akt signaling and subsequent increase in
 kidney cell proliferation. To determine the role of Hoxb3os in
 cystogenesis, we crossed the Hoxb3os-null mouse to two orthologous Pkd1
 mouse models: Pkhd1/Cre;Pkd1F/F (rapid cyst progression) and Pkd1RC/RC
 (slow cyst progression). Ablation of Hoxb3os exacerbated cyst growth in
 both models. To gain insight into the mechanism whereby Hoxb3os inhibition
 promotes cystogenesis, we performed proteomic analysis of mTOR/Akt pathway
 between Pkd1 single-knockout (SKO) and Pkd1-Hoxb3os double-knockout (DKO)
 mice. Compared to SKO, DKO mice presented with enhanced levels of total
 and phosphorylated Rictor. This was accompanied by increased
 phosphorylation of AktSer473, a known mTORC2 effector site.
 Physiologically, kidneys from DKO mice displayed between 40-50% increase
 in cell proliferation. Results from this study indicated that ablation of
 Hoxb3os in mouse PKD exacerbated cystogenesis and dysregulated mTORC2.
description: Data were collected from experiments that were performed in mouse
 kidneys. Kidneys were harvested from mice at diffrerent age groups and
 processed for histological or molecular analysis, as described in the
 manuscript. All histological and molecular assessments were performed by
 experienced technicians who are blinded to the experimental group of the
 animal.
description: All imaging data can be opened using the following programs:
 ImageJ, Adobe acrobat viewer, and Preview. Analyzed
 data can also be viewed using microsoft excel.
DOI: 10.6084/m9.figshare.31146055.v4
title: Database of Landforms linked to the Mapuche Myth of Trentrén and Caicai: Chile and Argentina | Base de Datos de Accidentes Geográficos Asociados al Mito Mapuche de Trentrén y Caicai: Chile y Argentina

description: This geomythological database catalogs and georeferences landforms linked to the Mapuche cosmogony of Trentrén and Caicai in Chile and Argentina. Moving beyond the traditional focus on oronyms, the inventory integrates diverse units such as plateaus, points, and islands, identified through a critical review of bibliographic and cartographic sources. This work spatializes ancestral knowledge for application in environmental geology, situated geomythology, and territorial management with cultural relevance. As an integral part of this database (available in Excel format), a KMZ file containing the spatial locations of the Trentrén and Caicai sites is attached. This work is related to the Undergraduate Thesis titled "Influencia de los Procesos Geológicos en la Cosmovisión Mapuche, entre Concepción y Chiloé" (Influence of Geological Processes on the Mapuche Worldview, between Concepción and Chiloé), available at the following link: https://repositorio.uchile.cl/handle/2250/175020.Esta base de datos geomitológica cataloga y georreferencia accidentes geográficos vinculados a la cosmogonía Mapuche de Trentrén y Caicai en Chile y Argentina. Superando el enfoque tradicional en orónimos, el inventario integra diversas unidades como mesetas, puntas e islas, identificadas mediante una revisión crítica de fuentes bibliográficas y cartográficas. El trabajo espacializa el conocimiento ancestral para su aplicación en geología ambiental, geomitología situada y gestión territorial con pertinencia cultural. Como parte integral de esta base de datos (disponible en formato Excel), se adjunta un archivo KMZ con la ubicación espacial de los sitios Trentrén y Caicai. Este trabajo está relacionado con la Memoria de Título "Influencia de los Procesos Geológicos en la Cosmovisión Mapuche, entre Concepción y Chiloé", disponible en el siguiente enlace: https://repositorio.uchile.cl/handle/2250/175020.
DOI: 10.5061/dryad.vdncjsz15
title: Evolutionary signatures of a trade-off in direct and indirect defenses across the wild grape genus Vitis

description: Evolutionary correlations between chemical defense and protection by
 mutualist bodyguards have been long predicted, but tests of these patterns
 remain rare. We use a phylogenetic framework to test for evolutionary
 correlations indicative of trade-offs or synergisms between direct defense
 in the form of plant secondary metabolism, and indirect defense in the
 form of leaf domatia, across 33 species in the wild grape genus, Vitis. We
 also performed a bioassay with a generalist herbivore to associate our
 chemical phenotypes with herbivore palatability. Finally, we tested
 whether defensive traits correlate with the average abiotic
 characteristics of each species’ contemporary range and whether these
 correlations were consistent with plant defense theory. We found a
 negative evolutionary correlation between domatia size and the diversity
 of secondary metabolites in Vitis leaf tissue across the genus, and also
 that leaves with a higher diversity and richness of secondary metabolites
 were less palatable to a generalist herbivore, consistent with a trade-off
 in chemical and mutualistic defense investment. Predictions from plant
 defense theory were not supported by associations between investment in
 defense phenotypes and abiotic variables. Our work demonstrates an
 evolutionary pattern indicative of a trade-off between indirect and direct
 defense strategies across the Vitis genus.
description: R programming language.
DOI: 10.15468/dl.cndecw
title: Occurrence Download

description: A dataset listing the 4139312 species recorded in GBIF matching the query:
{
 "OccurrenceStatus" : [
 "is Present"
 ]
}

 The dataset's 4139312 records were derived from 88404 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003518-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p73zah
title: Occurrence Download

description: A dataset containing 23550 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "GadmGid is COL.8_2",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 23550 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003580-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.s7h44j1cm
title: Sedimentary and geochemical data from JRD-S core at Zhuoshui River Delta, Taiwan

description: The Zhuoshui River drains the Taiwan orogen westward and is the largest
 river in terms of sediment discharge in Taiwan. The river-deposited
 fluvial successions were &gt;50 m thick during the Last Glacial in its
 present delta position, and these successions are thicker than even the
 Holocene deltaic/estuarine succession. The data sets contain the
 sedimentary and geochemical data from the Last Glacial fluvial and the
 present delta sediments within JRD-S core at Zhuoshui River Delta. The
 data include grain size, carbon proxies, mass accumulation rate of total
 organic carbon (MAR-TOC), n-alkane biomarkers, and ratios of lithic and
 higher plant n-alkane in the sediments within the JRD-S core. The
 measurement uncertainties for TOC and TN are ±3%, while that for δ13Corg
 is ±0.3‰. The repeated measurement (n=12) for n-alkane gave mean
 uncertainties between 0.60–5.75%.
description: # Title of Dataset *** Sedimentary and organic geochemistry data from
 JRD-S core at Zhuoshui River Delta, Taiwan ## Description of the data and
 file structure The files are data sets for the manuscript entitled:
 Millennial climate oscillations regulate organic yield from a young
 orogen. The data sets contain sedimentary and geochemistry data from the
 JRD-S core at Zhuoshui River Delta, Taiwan, including: 1. grain size and
 sand content; 2. carbon proxies, including total carbon (TC), total
 organic carbon (TOC), total inorganic carbon (TIC), total nitrogen (TN),
 ratio of TOC and TN (TOC/TN), and carbon stable isotope (13C); 3. mass
 accumulation rate of total organic carbon (MAR-TOC); 4. n-alkane
 biomarkers, including n-alkane ratio, average chain length (ACL), and
 aquatic plant n-alkane proxy (Paq); 5. lithic and higher plant n-alkane
 ratios; 6. bioshperic fracture of MAR-TOC (MAT-TOCbio); and 7. n-alkane
 measurement uncertainties. ## Sharing/Access information N/A ##
 Code/Software N/A