cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.59zw3r26d
title: The earlier the better? Nesting timing and reproductive success in subalpine cavity-nesting bees

description: 1. Reproductive timing can affect an organism’s production of offspring
 and its offspring’s success, both of which contribute to its overall
 fitness. In seasonal environments, the timing of reproductive activity may
 be restricted to short periods of the year owing to numerous potential
 selective pressures such as variation in daylength, weather, food
 availability, predation, or competition. 2. We documented the
 relationships between reproductive timing and individual reproductive
 success (total reproductive output and offspring success) in subalpine
 populations of five cavity-nesting solitary bee species. We also examined
 the relationships between bee reproductive success and environmental
 variables that are likely ultimate drivers of bee phenology in subalpine
 environments (i.e., seasonality of floral resource abundance and
 temperature). 3. Over six years, we recorded solitary bee nesting timing,
 egg production, and offspring success using artificial nesting structures
 (“trap-nests”) established at multiple study sites. We also quantified
 floral resources and recorded temperature throughout growing seasons. 4.
 Bees nesting earlier in the season exhibited greater reproductive success.
 Reproductive output generally increased with floral abundance, although
 this relationship was weak and only significant for some bee species.
 Elevated temperatures were associated with increased nest construction
 rate, but not in greater reproductive output. These contrasting effects of
 temperature may have been driven by the negative relationship between
 temperature and bee longevity. Bees who nested for shorter durations of
 time (a proxy for longevity) produced fewer offspring, and individuals
 exhibiting the shortest nesting durations were also those that began
 nesting late in the season. 5. Overall, bees who initiated nesting early
 and sustained activity for a long duration had the highest reproductive
 output. This work documents the relationship between reproductive
 phenology and fitness in wild insect populations and highlights the ways
 in which organisms can cope with the challenges of living in seasonal and
 highly variable environments.
description: Usage notes are detailed in the ReadMe files (separate ReadMe
 files for raw data and R scripts)
DOI: 10.5061/dryad.xsj3tx9ds
title: Taxonomic abundance of bacterial community of Bactrocera dorsalis as affected by antibiotics treatments and eggs disinfection

description: In order to understand the role of symbionts for their insect hosts, it is
 customary to treat them with antibiotics or to sterilize eggs
 (treatments), resulting in aposymbiotic and axenic insects, respectively.
 Such axenic insects can then be compared to untreated controls. Fruit
 flies often bear complex communities which are greatly reduced by such
 treatments. However, the bacterial community is not completely eliminated.
 Here, we examine the effect of these procedures on the structure of the
 remaining bacterial communities of Bactrocera dorsalis (Diptera:
 Tephritidae) and on the insect longevity. The antibiotics (Norfloxacin and
 Ceftazedime) were administered to 1 day old adult flies through sugar meal
 for seven days, and eggs were surface sterilized and dechorionated to
 produce axenic lines. The flies were starved from protein before they were
 offered full diets or diets containing non-essential amino acids only.
 Antibiotic and egg disinfection treatments resulted in significant
 reduction of the vast majority of gut bacterial populations, especially
 Proteobacteria, Firmicutes and Bacteroidetes. On the other hand, it
 allowed the persistence of Actinobacteria, Cyanobacteria and Acidobacteria
 populations. In untreated control flies, longevity was extended
 irrespective of diet quality in comparison to treated flies. Conversely,
 when gut bacteria were largely reduced (aposymbiotic and axenic flies),
 longevity was reduced in the non-essential amino acids diet treatment
 versus slightly improved in the presence of a protein diet. We discuss
 these results in an ecological–life history perspective.
description: The data were collected from bioassays from symbiotic,
 aposymbiotic and axenic flies and statistically analyzed used SPSS
 software and bioinformatics tools for metagenomics data.
DOI: 10.5281/zenodo.18396534
title: ArcMol Enables Task-Adaptive Spherical Representation Learning for Molecular Property Prediction

description: ArcMol, a task-adaptive spherical representation learning framework for molecular property prediction. ArcMol integrates multiple molecular representations and adaptively selects and fuses them in a task-driven manner, organizing molecular embeddings within a hyperspherical latent space to support angular-based task discrimination.
DOI: 10.5281/zenodo.18373813
title: ArcMol Enables Task-Adaptive Spherical Representation Learning for Molecular Property Prediction

description: ArcMol, a task-adaptive spherical representation learning framework for molecular property prediction. ArcMol integrates multiple molecular representations and adaptively selects and fuses them in a task-driven manner, organizing molecular embeddings within a hyperspherical latent space to support angular-based task discrimination.
DOI: 10.5061/dryad.w9ghx3fnw
title: Latitudinal variation in the diversity-disturbance relationship demonstrates the context-dependency of disturbance impacts

description: Aim: The shape of the diversity-disturbance relationship is
 context-dependent, but the mechanisms driving this context-dependency are
 unclear due to limited standardised empirical assessments across different
 environmental and ecological settings. At seven sites and over 20o of
 latitude, spanning both temperate and tropical systems, we measured
 community response to a fine-scale experimental disturbance gradient in
 communities of benthic invertebrates. Location: East coast of Australia
 (16.48oS – 36.43oS) Time period: 66 weeks (August 2012 – November 2013)
 Major taxa studied: Benthic marine invertebrates Methods: Communities were
 grown on acrylic tiles and subjected to four experimental disturbance
 events over a 66-week period. At the end of this period, the effect of
 increasing disturbance extent (0-100% community clearance) on alpha and
 beta-diversity measures were assessed. Results: In the tropics, richness
 and diversity increased with disturbance as the creation of free space
 allowed for the colonisation of new recruits. In temperate communities,
 increasing disturbance led to a monotonic loss in species richness and a
 more hump-shaped relationship in evenness and diversity. In the tropics
 compositional change with increasing disturbance was driven by changes in
 species identities and abundances as the cover of rare species increased.
 In temperate regions, however, changes in species abundances were
 primarily responsible for compositional changes, reflecting the shift to
 algal dominance under conditions of high disturbance. Main conclusions:
 The shape of the diversity-disturbance relationship changed over latitude
 indicating that the concept of “intermediate” disturbance differs amongst
 these communities. Faster rates of increases in bare space, loss of
 species richness and a shift to algal dominance suggest that, in these
 systems, higher latitude communities are more susceptible to negative
 outcomes of high levels of disturbance than lower latitude communities. We
 discuss how differences in community dynamics, including competition,
 regional diversity and availability of propagules, help explain this
 pattern.
DOI: 10.15468/dl.bg5t3z
title: Occurrence Download

description: A dataset containing 7457 records in GBIF matching the query:
SELECT
 '454' AS fish_cell,
 GBIF_MGRSCode(1000, decimalLatitude, decimalLongitude, 0) AS cell, -- NO randomization
 COUNT(DISTINCT speciesKey) AS species_richness
 FROM occurrence
 WHERE hasCoordinate = TRUE
 AND speciesKey IS NOT NULL
 AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE')
 AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID')
 AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH')
 AND decimalLatitude &gt;= 41.89415215079384
 AND decimalLatitude &lt;= 46.479780028101516
 AND decimalLongitude &gt;= 107.89334554252557
 AND decimalLongitude &lt;= 119.59356374412798
 AND "year" &gt;= 2015
 AND "year" &lt;= 2026
 AND (coordinateUncertaintyInMeters &lt;= 100 OR coordinateUncertaintyInMeters IS NULL)
 GROUP BY fish_cell, cell

 The dataset's 7457 records were derived from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002795-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.tqjq2bvz5
title: Abundance, distribution and substrate association of Hong Kong stag beetles (Coleoptera: Lucanidae) in secondary forests

description: Ecological studies conducted on lucanids in Asia are limited, resulting in
 considerable knowledge gaps in the fundamental ecology of these
 charismatic species (e.g. larval substrate associations), despite their
 potential importance in wood decomposition. We conducted 25 transect
 surveys in secondary forest sites in Hong Kong and sampled wood parameters
 and site-level wood availability data to test whether these habitat
 features significantly affected abundance or occurrence of lucanids. Out
 of 412 wood fragments sampled, we found two species: Prosopocoilus oweni
 was broadly distributed across sites (but still uncommon at the level of
 wood fragments occurring in 6.07%) while Nigidius sinicus was
 comparatively rarer (occurring in 0.73% of examined wood fragments). The
 dominant species P. oweni was more likely to appear in wood fragments in
 later decay stages and can be classified as a secondary forest generalist
 with respect to wood resource utilization. The surveys failed to detect
 four additional lucanid species known in Hong Kong (Neolucanus sinicus, E.
 gracilis, P. biplagiatus, and Aegus chelifer) potentially because of their
 rarity or usage of other habitats or microhabitats. Protection of existing
 secondary forests in Hong Kong is recommended to secure supply of suitable
 habitat and resources. Results obtained by standardized surveys can
 furthermore serve as a baseline for future assessment of lucanid
 population change. This study provides ecological insights into lucanids
 within secondary forest ecosystems of subtropical and tropical Asia.
DOI: 10.5061/dryad.z34tmpgcq
title: Rare missense functional variants at COL4A1 and COL4A2 in sporadic intracerebral hemorrhage

description: Objective To test the genetic contribution of rare missense variants in
 COL4A1 and COL4A2 in which common variants are genetically associated with
 sporadic intracerebral hemorrhage (ICH), we performed rare variant
 analysis in multiple sequencing data for the risk for sporadic ICH.
 Methods We performed sequencing across 559Kbp at 13q34 including COL4A1
 and COL4A2 among 2,133 individuals (1,055 ICH cases; 1,078 controls) in
 US-based and 1,492 individuals (192 ICH cases; 1,300 controls) from
 Scotland-based cohorts, followed by sequence annotation, functional impact
 prediction, genetic association testing, and in silico thermodynamic
 modeling. Results We identified 107 rare nonsynonymous variants in
 sporadic ICH, of which 2 two missense variants, rs138269346 (COL4A1I110T)
 and rs201716258 (COL4A2H203L), were predicted to be highly functional and
 occurred in multiple ICH cases but not in controls from the US-based
 cohort. The minor allele of rs201716258 was also present in Scottish ICH
 patients, and rs138269346 was observed in two ICH-free controls with a
 history of hypertension and myocardial infarction. Rs138269346 was
 nominally associated with non-lobar ICH risk (P=0.05), but not with lobar
 ICH (P=0.08), while associations between rs201716258 and ICH subtypes were
 non-significant (P&gt;0.12). Both variants were considered pathogenic
 based on minor allele frequency (&lt;0.00035 in EUR), predicted
 functional impact (deleterious or probably damaging), and in silico
 modeling studies (substantially altered physical length and thermal
 stability of collagen). Conclusions We identified rare missense variants
 in COL4A1/A2 in association with sporadic ICH. Our annotation and
 simulation studies suggest that these variants are highly functional and
 may represent targets for translational follow-up.
DOI: 10.5061/dryad.sqv9s4n3d
title: 7848 alignments with Gblocks of cetaceans

description: Cetaceans (whales, dolphins, and porpoises) have undergone a radical
 transformation from the typical terrestrial mammalian body plan to a
 streamlined one while exhibited dramatic inter-specific size
 ranges. However, the molecular
 mechanisms underlying the diversifying evolution of
 cetacean body size are largely unknown. Here, by using genome and
 phenotypic data from 22 cetaceans,
 we seek to investigate the genome-wide
 gene-phenotype correlation and to explore the genetic
 basis under the high diversity of body size in cetaceans. Results
 of the functional enrichment showed that body size-related genes
 in cetaceans were enriched in pathways associated with immunity, cell
 growth, and metabolism, suggesting their potential roles in the
 diversifying evolution of body size in cetaceans. A series
 of genes was also found coevolution with body size that are
 mainly involved in immune surveillance, tumor suppression function, and
 development of ‘cheater’ tumors. This in turn suggests that the
 genes play a role in tumor control and thus resolve
 Peto’s paradox, a finding that the expansion in body size and thereby cell
 number does not correlate with increases in cancer incidence in larger
 whales. The present study could provide novel insights into the
 evolution of great body size variation in cetaceans.
description: All the gene sets were aligned at the codon level using the Prank
 program (Löytynoja 2014) with the option ‘-codon.’ All alignments have
 been deposited at Dryad. After the alignments were generated, the Gblocks
 program (Castresana 2000) was used to trim potentially unreliable and gap
 regions. The parameters used were relatively strict to obtain as many
 bases as possible with the sequence type being codon (‘-t = c -b1=5 -b2=6
 -b3=8 -b4=5 -b5’). The *htm file showed the trim detail for each
 gene.
DOI: 10.5061/dryad.n02v6wwwf
title: Data from: Biomass partitioning in response to intraspecific competition depends on nutrients and species characteristics: a study of 43 plant species

description: Competition simultaneously limits the availability of above- and
 below-ground resources for plants. How plants respond to density with
 changes in patterns of biomass allocation is poorly understood. Previous
 studies had inconsistent results, but emphasised increased biomass
 allocation to stems in response to density. However, the response of
 plants to density may depend on environmental conditions and on
 characteristics of the species. We grew 43 herbaceous plant species at
 three densities (1, 8, and 64 individuals per pot) and two nutrient levels
 in a common garden and measured biomass allocation to roots (RMF), leaves
 (LMF) and stems (SMF), and specific root (SRL) and shoot length (SSL). The
 species differed in functional group (grasses, forbs and legumes),
 lifespan and realised niche with respect to nutrients (Ellenberg's
 nutrient indicator value). Intraspecific competition and self-thinning
 increased with nutrient supply. Overall, plants increased their RMF with
 density independent of nutrient level, indicating that competition was
 mainly for below-ground resources. However, characteristics of the species
 influenced their responses to density and nutrients in terms of biomass
 allocation, SRL and SSL. At high densities, legumes were more productive
 than the other functional groups and hardly changed their allocation
 patterns, suggesting that they were less nutrient-limited due to their
 mutualism with nitrogen-fixing rhizobia. The SRL of perennials was lower
 and their RMF was higher and increased more strongly in response to
 density than that of annuals, which could be interpreted as mechanisms to
 increase survival. The realised niche of species with respect to nutrients
 influenced the response to density and nutrients in terms of SMF, LMF, SRL
 and SSL in line with adaptations to both nutrient availability and
 competition for light in the typical habitats. Synthesis. We found that
 intraspecific competition was mainly for below-ground resources, which may
 be typical for many species growing in moderately nutrient-rich but
 high-light habitats. Our results show that growth conditions, species
 characteristics and their interactions influence patterns of biomass
 allocation and plant morphology.
description: See manuscript for more information.
description: See manuscript for more information. Data on chlorophyll content
 of leaves and specific leaf area have not been published as part of the
 manuscript, but are available on request.
DOI: 10.5061/dryad.s1rn8pk73
title: Phenotypic plasticity can reverse the relative extent of intra and interspecific variability across a thermal gradient

description: Intra and interspecific variability can both ensure ecosystem functions.
 Generalizing the effects of individual and species assemblages requires
 understanding how much within and between species trait variation is
 genetically-based or results from phenotypic plasticity. Phenotypic
 plasticity can indeed lead to rapid and important changes of trait
 distributions, and in turn community functionality, depending on
 environmental conditions, which raises a crucial question: could
 phenotypic plasticity modify the relative importance of intra and
 interspecific variability along environmental gradients? We quantified the
 fundamental niche of five genotypes in monocultures for each of five
 ciliate species along a wide thermal gradient in standardized conditions
 to assess the importance of phenotypic plasticity for the level of
 intraspecific variability compared to differences between species. We
 showed that phenotypic plasticity strongly influences trait variability
 and reverses the relative extent of intra and interspecific variability
 along the thermal gradient. Our results show that phenotypic plasticity
 may lead to either increase or decrease of functional trait variability
 along environmental gradients, making intra and interspecific variability
 highly dynamic components of ecological systems.
description: We quantified the fundamental niche of five genotypes in
 monocultures for each of five ciliate<i> </i>species along a
 wide thermal gradient in standardized conditions to assess the importance
 of phenotypic plasticity for the level of intraspecific variability
 compared to differences between species.
DOI: 10.5061/dryad.2jm63xsp0
title: Responses of Manduca sexta larvae to heat waves

description: Climate change is increasing the frequency of heat waves and other extreme
 weather events experienced by organisms. How does the number and
 developmental timing of heat waves affect survival, growth and development
 of insects? Do heat waves early in development alter performance later in
 development? We addressed these questions using experimental heat waves
 with larvae of the Tobacco Hornworm, Manduca sexta. The experiments used
 diurnally fluctuating temperature treatments differing in the number (0-3)
 and developmental timing (early, middle and/or late in larval development)
 of heat waves, in which a single heat wave involved three consecutive days
 with a daily maximum temperature of 42 C. Survival to pupation declines
 with increasing number of heat waves. Multiple (but not single) heat waves
 significantly reduced development time and pupal mass; the best models for
 the data indicated that both the number and developmental timing of heat
 waves affected performance. In addition, heat waves earlier in development
 significantly reduced growth and development rates later in larval
 development. Our results illustrate how the frequency and developmental
 timing of sublethal heat waves can have important consequences for life
 history traits in insects.
description: Data in file
 Kingsolveretal.JEB2021.Msexta.lab.HeatWave.Experiments.finaldata.Dryad.Feb2021.xls include all data used in the analyses and figures in the associated paper. See the paper for methodological details. The experiments used Manduca sexta from a laboratory colony maintained at UNC in Chapel Hill NC; larvae were reared on standard artificial diet.  The experimental design is shown in Fig. 1 of the paper.
description: See associated Readme file. All processing and analyses were done
 using R.  Data fields are defined in a separate worksheet in the datafile.
 Missing values are indicated by NA.
DOI: 10.15468/dl.26qgqe
title: Occurrence Download

description: A dataset containing 10156 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Xerochrysum bracteatum"
 ]
}

 The dataset includes 10156 records from 175 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002798-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.j6q573nd3
title: Experimental data in steeply inclined multiseam mining

description: Ground surface damage caused by steeply inclined coal seam mining is
 widely distributed in China, but there is little research on the failure
 process and movement mechanism of strata induced by steeply inclined
 multi-seam mining. In this paper, a physical model test is carried out to
 study the failure process and movement mechanism of overburden in steeply
 inclined multi-seam stepwise mining. The results show that at the initial
 stage, the main failure of the rock mass is the small-scale collapse at
 the open-off cut and the roof (stability stage of the rock mass). After
 the roof is exposed over a certain range, the rock mass in the downhill
 direction slips into the goaf and gradually destroys the interburdens of
 the goaf, similar to the displacement effect of dominoes (severe failure
 stage of the rock mass). When the structure of the goaf fails, the
 overburden subsides, causing extensive damage to the ground surface. The
 surface damage directly above the goaf is mainly caused by serious
 subsidence deformation, while the surface damage in the downhill direction
 is dominated by cracks.
DOI: 10.34740/kaggle/dsv/14645437
title: Egypt Gold Prices | Daily Updated