cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.qz612jm9r
title: Preservation of erniettomorph fossils in clay-rich siliciclastic deposits from the Ediacaran Wood Canyon Formation, Nevada

description: Three-dimensionally preserved Ediacaran fossils occur globally within
 sandstone beds. Sandy siliciclastic deposits of the Ediacaran Wood Canyon
 Formation (WCF) in the Montgomery Mountains, Nevada, contain two
 taphomorphs of erniettomorphs, soft-bodied organisms with uncertain
 taxonomic affinities. One taphomorph exhibits mm-scale ridges and a
 distinct lower boundary, the other is devoid of these diagnostic features
 but is similar in size and shape. We explore the cast-and-mould
 preservation of both taphomorphs by petrography, Raman spectroscopy, X-ray
 fluorescence microprobe, and X-ray diffraction. All fossils and the
 surrounding sedimentary matrix contain quartz grains, iron-rich chlorite
 and muscovite. The ridged fossils contain about 70% larger quartz grains
 compared to the ridgeless taphomorph, indicating a lower abundance of clay
 minerals in the ridged fossil. Chlorite and muscovite likely originated
 from smectite and kaolinite precursors that underwent lower greenschist
 facies metamorphism. Kaolinite and smectite are inferred to have been
 abundant in sediments around the ridged fossil, which enabled the
 preservation of a continuous, distinct, clay- and kerogen-rich bottom
 boundary. The prevalence of quartz in the ridged fossils of the WCF and in
 erniettomorphs from other localities also suggests a role for this mineral
 in three-dimensional preservation of erniettomorphs in sandstone and
 siltstone deposits.
DOI: 10.5061/dryad.q83bk3jf0
title: Efficient learning of quantum noise

description: Noise is the central obstacle to building large-scale quantum
 computers. Quantum systems with sufficiently
  uncorrelated and weak noise could be used to solve computational
 problems that are intractable with current digital
 computers. There has been substantial progress towards
 engineering such systems. However, continued progress depends on
 the ability to characterize quantum noise reliably and efficiently with
 high precision. Here we introduce a protocol that comprehensively
 and efficiently characterizes the error rates of quantum noise and we
 experimentally implement it on a 14-qubit superconducting quantum
 architecture. The method returns an estimate of the effective
 noise with relative precision and can detect arbitrary correlated
 errors. We show how to construct a quantum noise correlation
 matrix allowing the easy visualization of all pairwise correlated errors,
 enabling the discovery of long-range two-qubit correlations in the 14
 qubit device that had not previously been detected. These
 properties of the protocol make it exceptionally well suited for
 high-precision noise metrology in quantum information
 processors. Our results are the first implementation of a
 provably rigorous, full diagnostic protocol capable of being run on state
 of the art devices and beyond. These results pave the way for
 noise metrology in next-generation quantum devices, calibration in the
 presence of crosstalk, bespoke quantum error-correcting codes, and
 customized fault-tolerance protocols that can greatly reduce the overhead
 in a quantum computation.
description: Data was collected as a result of running a protocol on the IBM
 Quantum Experience (Melbourne). The results of runs are stored as python
 pickles. And is provided here, along with instructions as to how to read
 the pickles. Julia code showing how the data was
 analysed and plots in the paper were created is available from the authors
 on request. Also provided here is the Mathematica code
 used to generate the data for and create the plots in figure 4 of the
 paper.
DOI: 10.5061/dryad.tqjq2bvv4
title: Interactive effects of rising temperature and nutrient enrichment on aquatic plant growth, stoichiometry, and palatability

description: The abundance and stoichiometry of aquatic plants are crucial for nutrient
 cycling and energy transfer in aquatic ecosystems. However, the
 interactive effects of multiple global environmental changes, including
 temperature rise and eutrophication, on aquatic plant stoichiometry and
 palatability remain largely unknown. Here, we hypothesized that (1) plant
 growth rates increase faster with rising temperature in nutrient-rich than
 nutrient-poor sediments; (2) plant carbon (C): nutrient ratios (nitrogen
 (N) and phosphorus (P)) respond differently to rising temperatures at
 contrasting nutrient conditions of the sediment; (3) external nutrient
 loading to the water column limits the growth of plants and decreases
 plant C:nutrient ratios; and that (4) changes in plant stoichiometry
 affect plant palatability. We used the common rooted submerged plant
 Vallisneria spiralis as a model species to test the effects of temperature
 and nutrient availability in both the sediment and the water column on
 plant growth and stoichiometry in a full-factorial
 experiment. The results confirmed that plants grew faster in
 nutrient-rich than nutrient-poor sediments with rising temperature,
 whereas external nutrient loading decreased the growth of plants due to
 competition by algae. The plant C: N and C: P ratios responded differently
 at different nutrient conditions to rising temperature. Rising temperature
 increased the metabolic rates of organisms, increased the nutrient
 availability in the sediment and enhanced plant growth. Plant growth was
 limited by a shortage of N in the nutrient-poor sediment and in the
 treatment with external nutrient loading to the water column, as a
 consequence, the limited plant growth caused an accumulation of P in the
 plants. Therefore, the effects of temperature on aquatic plant C:nutrient
 ratios did not only depend on the availability of the specific nutrients
 in the environment, but also on plant growth, which could result in either
 increased, unaltered or decreased plant C:nutrient ratios in response to
 temperature rise. Plant feeding trial assays with the generalist consumer
 Lymnaea stagnalis (Gastropoda) did not show effects of temperature or
 nutrient treatments on plant consumption rates. Overall, our results
 implicate that warming and eutrophication might interactively affect plant
 abundance and plant stoichiometry, and therefore influence nutrient
 cycling in aquatic ecosystems.
description: Includes the original data for the main article and supplementary
 materials. Data were collected from the experiment.
DOI: 10.5061/dryad.n2z34tmsk
title: Ecological patterns of root nodule diversity in cultivated and wild rooibos populations: a community prediction approach

description: There is interest in understanding the factors behind the biogeography of
 root-associated bacteria due to the joint effects that plant host,
 climate, and soil conditions can have on bacterial diversity. For legume
 crops with remaining wild populations, this is of even more importance,
 because the effects of cropping on undisturbed root-associated bacterial
 communities can be addressed. Here, we used a community prediction
 approach to describe the diversity of the root nodule bacterial
 communities of rooibos (Aspalathus linearis), an endemic legume crop from
 South Africa. The goal was to reveal whether patterns of root nodule
 community composition in paired cultivated and wild rooibos populations
 could be related to geographical distance, plant traits, and plant
 population type (i.e. cultivated or uncultivated). We identified a core of
 dominant and widespread Mesorhizobium ZOTUs that each defined one of 4
 different root nodule community classes. Rooibos cultivation impacted root
 nodule bacterial diversity at regional and local scales, while the
 geographical origin of the root nodule communities was the strongest
 predictor of root nodule community structure. Beyond impacts of
 cultivation on root nodule bacterial diversity, this study suggests a
 mixture of dispersal limitation and ecological drift regionally, and
 selection by different plant populations locally, define the biogeography
 of rooibos root nodule bacterial
 communities.   
description: BAM data was de-multiplexed by bioinformatician (Weihong Qi ),
 via the Functional Genomics Center (FGC) in Zurich, the service that
 produced the reads. This individual is acknowledged in the manuscript
 related to this dataset.
DOI: 10.5061/dryad.qjq2bvqc6
title: Phylogenomic analysis sheds light on the evolutionary pathways towards acoustic communication in Orthoptera

description: Acoustic communication is enabled by the evolution of specialised hearing
 and sound producing organs. In this study, we performed a large-scale
 macroevolutionary study to understand how both hearing and sound
 production evolved and affected diversification in the insect order
 Orthoptera, which includes many familiar singing insects, such as
 crickets, katydids, and grasshoppers. Using phylogenomic data, we firmly
 establish phylogenetic relationships among the major lineages and
 divergence time estimates within Orthoptera, as well as the
 lineage-specific and dynamic patterns of evolution for hearing and sound
 producing organs. In the suborder Ensifera, we infer that forewing-based
 stridulation and tibial tympanal ears co-evolved, but in the suborder
 Caelifera, abdominal tympanal ears first evolved in a non-sexual context,
 and later co-opted for sexual signalling when sound producing organs
 evolved. However, we find little evidence that the evolution of hearing
 and sound producing organs increased diversification rates in those
 lineages with known acoustic communication.
DOI: 10.5061/dryad.41ns1rn9t
title: Maternity uncertainty in cobreeding beetles: females lay more and larger eggs and provide less care

description: Cobreeding, which occurs when multiple females breed together, is likely
 to be associated with uncertainty over maternity of offspring in the joint
 brood, preventing females from directing resources towards their own
 offspring. Cobreeding females may respond to such uncertainty by shifting
 their investment towards the stages of offspring development when they are
 certain of maternity and away from those stages where uncertainty is
 greater. Here we examined how uncertainty of maternity influences
 investment decisions of cobreeding females by comparing cobreeding and
 single breeding females in the burying beetle, Nicrophorus vespilloides; a
 species in which females can breed together on a single carcass but cannot
 recognise their own offspring. We found that cobreeding females shifted
 investment towards the egg stage of offspring development by laying more
 and larger eggs than females breeding alone. Furthermore, cobreeding
 females reduced their investment to post-hatching care of larvae by
 spending less time providing care than females breeding alone. We show
 that females can respond to the presence of a competitor by shifting
 allocation towards egg laying and away from post-hatching care, thereby
 directing resources to their own offspring. Our results demonstrate that
 responses to parentage uncertainty are not restricted to males, but that,
 unlike males, females respond by shifting their investment to different
 components of reproduction within a single breeding attempt. Such
 flexibility may allow individuals to cope with a variety of negative
 social or physical environments
DOI: 10.15468/3dggxa
title: Two new mites of Armascirus Den Heyer, 1978 (Trombidiformes, Cunaxidae) from Chinese fauna

description: This dataset contains the digitized treatments in Plazi based on the original journal article Chen, Jian-Xin, Yao, Mao-Yuan, Liu, Tian-Lei, Wu, You-Fang, Guo, Jian-Jun, Jin, Dao-Chao (2026): Two new mites of Armascirus Den Heyer, 1978 (Trombidiformes, Cunaxidae) from Chinese fauna. ZooKeys 1267: 255-271, DOI: 10.3897/zookeys.1267.172611AbstractIn this study, two new species, Armascirus kuandianensis Chen & Jin, sp. nov. and A. stellatus Chen & Jin, sp. nov. are described and illustrated based on females. Additionally, a key to adult females of Armascirus species of China is provided.
DOI: 10.5061/dryad.pzgmsbcgh
title: A combined approach of mitochondrial DNA and anchored nuclear phylogenomics sheds light on unrecognized diversity, phylogeny, and historical biogeography of the cascade frogs, genus Amolops (Anura: Ranidae)

description: Amolops is one of the most species-rich genera in Ranidae, with 59
 recognized species. This genus currently includes six species groups
 diagnosed mainly by morphology. Several recent molecular studies indicated
 that the classification of species groups within Amolops remains
 controversial, and key nodes in the phylogeny have been inadequately
 resolved. In addition, the diversity of cascade frogs remains poorly
 understood, especially for those from incompletely sampled regions.
 Herein, we investigate the species-level diversity within genus Amolops
 throughout southern China and Southeast Asia, and infer evolutionary
 relationships among the species using mtDNA data (16S, COI, and ND2).
 Molecular analyses indicate nine new unnamed species, mostly distributed
 in the Himalayas. We then utilized anchored hybrid enrichment to generate
 a dataset representing major mitochondrial lineages to resolve
 phylogenetic relationships, biogeography, and pattern of species
 diversification. Our resulting phylogeny strongly supports the monophyly
 of three previously identified species groups (the A. ricketti, A.
 daiyunensis, and A. hainanensis groups), the paraphyly of the A. mantzorum
 and A. marmoratus groups, as previously defined, and monophyly of the A.
 monticola group. We erect one new species group, the A. viridimaculatus
 group, and recognize Dubois (1992) ‘subgenus’ Amo as the A. larutensis
 species group. Biogeographic analysis suggests that Amolops originated on
 the Indo-Burma/Tai-Malay Peninsula at the Eocene/Oligocene boundary, and
 dispersed outward, exemplifying a common pattern observed for the origin
 of Asia’s biodiversity. The early divergence within Amolops coincides with
 the Himalayas uplift, and the lateral extrusion of Indochina at the
 Oligocene/Miocene boundary. Our results show that paleoclimatic and
 geomorphological events have profoundly influenced the pattern of lineage
 diversification within Amolops.
DOI: 10.5061/dryad.ttdz08ktg
title: From alpha to beta functional and phylogenetic redundancy

description: 1. Plot-level redundancy or alpha redundancy is usually defined as the
 fraction of species diversity not expressed by functional or phylogenetic
 diversity. Redundancy is zero when all species in one plot are maximally
 dissimilar from each other. By contrast, redundancy tends to its maximum
 if the functional or phylogenetic differences between species tend to be
 minimal. 2. To explore the ecological drivers of community assembly,
 ecologists also use dissimilarity measures between pairs of plots (a
 component of beta diversity). Traditional dissimilarity measures summarize
 compositional differences between pairs of plots based either on species
 presence and absence data or on species abundances, thus attributing equal
 distinctiveness between any two species. 3. In the last decades a number
 of dissimilarity measures which incorporate information on functional or
 phylogenetic differences among species have been proposed. Based on such
 improved measures, we can define an index of beta redundancy for a pair of
 plots as the fraction of species dissimilarity not expressed by functional
 or phylogenetic dissimilarity. 4. A necessary condition to get a
 meaningful index of beta redundancy is that for a given pair of plots, the
 functional or phylogenetic dissimilarity is always lower or equal to the
 corresponding species dissimilarity. However, many of the existing indices
 of functional or phylogenetic dissimilarity can lead to values greater
 than for species dissimilarity. 5. The aim of this paper is thus to
 introduce a new family of tree-based measures of phylogenetic and
 functional dissimilarity that conform to this requirement. To show the
 behavior of the proposed measures, a worked example with data on Alpine
 vegetation is used.
DOI: 10.5061/dryad.zgmsbcc70
title: Landscape context mediates the physiological stress response of birds to farmland diversification

description: 1. Farmland diversification practices are increasingly adopted to help
 reverse biodiversity declines in agroecosystems. However, evidence for the
 effectiveness of this approach often comes from documenting the species
 attracted to particular farming systems or landscapes, rather than their
 underlying physiological states that ultimately determine population
 growth or decline over the longer term. 2. Across 38 organic,
 mixed-produce farms spanning the U.S. west coast, we quantified three
 physiological biomarkers that are widely used to capture variation in
 short and long-term stress responses for nine bird species with diverse
 life-history traits. While controlling for other potentially confounding
 variables, we used multilevel models to examine the association between
 bird physiological conditions, landscape context and local farm management
 practices, including the integration of livestock, and cropland
 composition and configuration. 3. Birds generally had lower stress
 responses on more-locally-diverse farms and in landscapes with higher
 amounts of seminatural cover. However, interactions between farm diversity
 and landscape context suggested birds were less stressed on more diverse
 farms in simpler landscapes, but more stressed and in poorer condition on
 more diverse farms embedded within complex landscapes. 4. We found no
 differences in stress responses among birds in relation to their degree of
 human association (synanthropy), which suggests generality in our
 findings. 5. Synthesis and application. Birds were often less stressed on
 more diverse farms. However, these patterns were mediated by landscape
 context: birds were less stressed on more diverse farms in simplified
 landscapes, but more stressed on more diverse farms within complex
 landscapes. This means land managers might not see uniform effects of
 local diversification schemes across different landscape contexts. Our
 results underscore the need to consider responses related to physiological
 health status, in addition to species richness and abundance, to determine
 the effectiveness of farm management for biodiversity
 conservation.16-Jan-2020
description: README file describes the metadata for each of the data sets
 contained in this Dryad collection pertaining to the manuscript:
 "Landscape context mediates the physiological stress response of
 birds to farmland diversification". Please see the manuscript and
 supporting information for methods on how the data were collected. Please
 note: Names and other individual identifiers, including geographic
 coordinates of farm locations, were withheld to protect farmer
 privacy.
DOI: 10.5061/dryad.qz612jm9t
title: Data from: Down by the riverside: Riparian edge effects on three monkey species in a fragmented Costa Rican forest

description: Rivers represent natural edges in forests, serving as transition zones
 between landscapes. Natural edge effects are important to study to
 understand how intrinsic habitat variations affect wildlife as well as the
 impact of human-induced forest fragmentation. We examined the influence of
 riparian and anthropogenic edge on mantled howler, white-faced capuchin,
 Central American spider monkeys, and vegetation structure at La Suerte
 Biological Research Station (abbreviated as LSBRS), Costa Rica. We
 predicted lower monkey encounter rate, tree species richness, and median
 DBH at both edge types compared to interior, and that monkeys would show
 species-specific responses to edge based on size and diet. We expected
 large, folivorous-frugivorous howler monkeys and small, generalist
 capuchins would be found at increased density in the forest edge, while
 large, frugivorous spider monkeys would be found at decreased density in
 the forest edge. We conducted population and vegetation surveys along
 interior, riparian, and anthropogenic edge transects at LSBRS and used
 GLMM to compare vegetation and monkey encounter rate. Tree species
 richness and median DBH were higher in the forest interior than in the
 anthropogenic edge zones. Although spider monkey encounter rate did not
 vary between forest edges and interior, howler monkeys were encountered at
 highest density in riparian edge, while capuchins were encountered at
 highest density in anthropogenic edge. Our results indicate that diverse
 forest edges have varying effects on biota. Vegetation was negatively
 affected by forest edges, while monkey species showed species-specific
 edge preferences. Our findings suggest that riparian zones should be
 prioritized for conservation in Neotropical forests.
DOI: 10.5061/dryad.ttdz08kth
title: Education is associated with Aβ burden in preclinical familial and sporadic Alzheimer’s disease

description: Objective. To determine whether years of education and the ε4 risk allele
 at APOE influence β-amyloid pathology similarly in asymptomatic
 individuals with a family history of sporadic Alzheimer’s disease (AD) and
 pre-symptomatic autosomal dominant AD mutation carriers. Methods. We
 analyzed cross-sectional data from 106 asymptomatic individuals with a
 parental history of sporadic AD (PREVENT-AD cohort; age=67.28±4.72 years)
 and 117 pre-symptomatic autosomal dominant AD mutation carriers (DIAN
 cohort; age=34.00±9.43 years). All participants underwent structural MRI
 and β-amyloid PET imaging. In each cohort we investigated the influence of
 years of education, APOE-ε4 status and their interaction on β-amyloid PET.
 Results. Asymptomatic individuals with a parental history of sporadic AD
 showed increased β-amyloid burden associated with APOE-ε4 carriage and
 lower level of education, but no interaction between these.
 Pre-symptomatic mutation carriers of autosomal dominant AD showed no
 relation between APOE-ε4 and β-amyloid burden, but increasing level of
 education was associated with reduced β-amyloid burden. The association
 between educational attainment and β-amyloid burden was similar in the two
 cohorts. Conclusions. While the APOE-ε4 allele confers increased tendency
 toward β-amyloid accumulation in sporadic AD only, protective
 environmental factors, like increased education, may promote brain
 resistance against β-amyloid pathology   in
 both sporadic and autosomal dominant AD.
DOI: 10.15468/dl.hxa3vr
title: Occurrence Download

description: A dataset containing 501 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Amazona viridigenalis",
 "Year 2000-2026"
 ]
}

 The dataset includes 501 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002166-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.