cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7272/q6833q63
title: East Africa preterm birth initiative birth register data (March 2016 - October 2016)

description: Abstract Objective: Preterm birth is the primary driver of neonatal
 mortality worldwide, but it is defined by gestational age (GA) which is
 challenging to accurately assess in low-resource settings. In a commitment
 to reducing preterm birth while reinforcing and strengthening facility,
 routine data sources, the East Africa Preterm Birth Initiative (PTBi-EA)
 chose eligibility criteria that combined GA and birth weight. This
 analysis evaluated the quality of the GA data as recorded in maternity
 registers in PTBi-EA study facilities and the validity of the PTBi-EA
 eligibility criteria. Methods: We conducted a retrospective analysis of
 maternity register data from March – September 2016. GA data from 23 study
 facilities in Migori, Kenya and the Busoga Region of Uganda were evaluated
 for completeness (variable present), consistency (recorded versus
 calculated GA), and plausibility (falling within the 3rd and 97th birth
 weight percentiles for GA of the INTERGROWTH-21st Newborn Birth Weight
 Standards). Preterm birth rates were calculated using: 1) recorded GA
 &lt;37 weeks, 2) recorded GA &lt;37 weeks, excluding implausible
 GAs, 3) birth weight &lt;2500g, and 4) PTBi-EA eligibility criteria of
 &lt;2500g and between 2500g and 3000g if the recorded GA is &lt;37
 weeks. Results: In both countries, GA was the least recorded variable in
 the maternity register (77.6%). Recorded and calculated GA (Kenya only)
 were consistent in 29.5% of births. Implausible GAs accounted for 11.7% of
 births. The four preterm birth rates were 1) 14.5%, 2) 10.6%, 3) 9.6%, 4)
 13.4%. Conclusions: Maternity register GA data presented quality concerns
 in PTBi-EA study sites. The PTBi-EA eligibility criteria of &lt;2500g
 and between 2500g and 3000g if the recorded GA is &lt;37 weeks
 adjusted for these concerns by using both birth weight and GA, balancing
 issues of accuracy and completeness with practical
 applicability.
DOI: 10.5061/dryad.djh9w0vwj
title: Contrasting latitudinal clines of nematode diversity in Spartina alterniflora saltmarshes between native and introduced ranges

description: Aim: Introduced species may display or foster novel latitudinal clines
 because they are not well adapted to their new habitats. We tested the
 hypothesis that the latitudinal cline in nematode diversity in saltmarshes
 would differ between the native (United States) and introduced (China)
 ranges of Spartina alterniflora. Location: East Coasts of the United
 States (30.32°N to 43.33°N) and China (30.36°N to 39.14°N). Methods: We
 extracted nematodes from soil samples collected at 32 sites along the
 United States East Coast and 41 sites along the Chinese coast. We compared
 latitudinal patterns in nematode diversity and composition between the
 native and introduced ranges. Results: In the native range of S.
 alterniflora, nematode richness at lower latitudes was almost twice as
 high as that at higher latitudes. In contrast, we found no latitudinal
 pattern in nematode richness or diversity in the introduced range of S.
 alterniflora. Nematode genus richness at all sites in China was about half
 that at lower latitudes in the United States. Beta diversity of nematodes
 increased with geographic distance in the United States, but not China.
 Main conclusions: Nematode diversity did not show latitudinal clines in
 saltmarshes dominated by introduced S. alterniflora in China. A likely
 explanation is that the recently-introduced populations are still
 relatively genetically homogenous, whereas in the native range, genetic
 variation in plant populations across latitude drives different nematode
 communities. We suggest that future studies of introduced species will
 gain additional insights by taking an explicitly geographic perspective.
DOI: 10.5061/dryad.x69p8czf6
title: Fast diversification through a mosaic of evolutionary histories characterizes the endemic flora of ancient Neotropical mountains

description: Mountains are among the most biodiverse areas on the globe. In young
 mountain ranges, exceptional plant species-richness is often associated to
 recent and rapid radiations linked to the mountain uplift itself. In
 ancient mountains, however, orogeny vastly precedes the evolution of
 vascular plants, so species-richness has been explained by species
 accumulation during long periods of low extinction rates. Here we evaluate
 these assumptions by analyzing plant diversification dynamicsin thecampo
 rupestre, an ecosystem associated to pre-Cambrian mountaintops and
 highlands of eastern South America, areas where plant species-richness and
 endemism are among the highest in the world. Analyses of 15 angiosperm
 clades show that radiations of endemics present fastest rates of
 diversification during the climatically unstable period of the last 5
 million years. However, results from ancestral range estimations using
 different models disagree on the age of the earliest in
 situspeciation events and point to a complex floristic assembly. There is
 a general trend for higher diversification rates associated to these
 areas, but endemism may also increase or reduce extinction rates,
 depending on the group. Montane habitats, no matter their geological age,
 may lead to boosts in speciation rates by accelerating population
 isolation in archipelago-like systems, circumstances that can also result
 in higher extinction rates and fast species turnover, misleading age
 estimates of endemic lineages. 
description: 14.05.20 Updated Mimosa dataset table (now this dataset also
 includes GenBank accession numbers)
DOI: 10.5061/dryad.p2ngf1vmv
title: Data from: Climatic refugia boosted allopatric diversification in Western Mediterranean vipers

description: Abstract: Aim: to understand the role of climate in fostering
 diversification, this study reconstructs the historical biogeography of
 Western Mediterranean vipers Location: Western Mediterranean Basin Taxon:
 Vipera aspis and V. latastei-monticola complex Methods: phylogeographic
 analyses were performed over mitochondrial (three genes) and nuclear
 sequences (two genes), extensively covering species ranges. A total of
 4,056 records were assigned to genetic units, using interpolations of
 genetic data, to test phylogenetic niche conservatism, under a 3D
 hypervolume approach, and to perform paleoclimatic reconstructions for
 main lineages that diversified during the Pleistocene. Results: Bayesian
 inferences based on mtDNA recovered three Miocene clades and nine Pliocene
 lineages that distinctly diversified during the Pleistocene.
 Diversification until late Pliocene was mostly restricted to southern
 regions of Iberian and Italian Peninsulas, and north-western African
 mountains, expanding northwards during the Pleistocene. Accordingly,
 genetic diversity was higher in southern regions. Ecological niche tests
 support a general mode of allopatric diversification with niche
 conservatism, although niche shift was found for two divergence events.
 Paleoclimatic models identified particular requirements for the
 distribution of main lineages and distinct responses to the cooling and
 warm events of the Pleistocene. Areas of climatic stability during
 Pleistocene were identified for main lineages; however, climatic stability
 was weakly correlated to haplotype diversity. Main conclusions: our
 integrative approach enhances the understanding of the evolutionary and
 ecological dynamics occurred in the Western Mediterranean region,
 evidencing the paleo-tectonic and -climatic factors driving
 diversification since the Miocene in this biodiversity hotspot.
 Comparisons among patterns of diversification, haplotype diversity and
 climatic stability suggest that southern Iberian and Italian Peninsulas,
 and North-West African Mountains acted as refugia since the Pliocene,
 while some northern areas favoured population persistence during the
 Pleistocene.
description: Alignments of sequences (in fasta format) for 5 markers, 3
 mithocondrial (cytochrome b, Cytb; and NADH dehydrogenase subunits 2,
 ND2, and 4, ND4) and 2 nuclear (prolactin receptor, PRLR; Neurotoxin-3,
 NT3). Sequences, and data for each one, are available on
 GenBank. Occurrence data for V. aspis (VAS), V.
 latastei in Iberian Peninsula (VLA_Iberia) and V. latastei in North Africa
 [V. monticola included] (VLA_North-Africa). Data were retrieved from
 fieldwork, museum collections, publications and herpetological societies’
 databases (including AHE, Spain; SHF, France; info fauna - karch,
 Switzerland). Occurrence data were processed at 5x5 km resolution in
 WGS84.
DOI: 10.5061/dryad.2rbnzs7jj
title: Data from: Development time mediates the effect of larval diet on ageing and mating success of male antler flies in the wild

description: High-quality developmental environments often improve individual
 performance into adulthood, but allocating toward early life traits, such
 as growth, development rate and reproduction, may lead to trade-offs with
 late-life performance. It is, therefore, uncertain how a rich
 developmental environment will affect the ageing process (senescence),
 particularly in wild insects. To investigate the effects of early life
 environmental quality on insect life-history traits, including senescence,
 we reared larval antler flies (Protopiophila litigata) on four diets of
 varying nutrient concentration, then recorded survival and mating success
 of adult males released in the wild. Declining diet quality was associated
 with slower development, but had no effect on other life-history traits
 once development time was accounted for. Fast-developing males were larger
 and lived longer, but experienced more rapid senescence in survival and
 lower average mating rate compared to slow developers. Ultimately, larval
 diet, development time and body size did not predict lifetime mating
 success. Thus, a rich environment led to a mixture of apparent benefits
 and costs, mediated by development time. Our results indicate that ‘silver
 spoon' effects can be complex and that development time mediates the
 response of adult life-history traits to early life environmental quality.
description: <strong>survival-data.csv</strong> Data used for
 survival & actuarial ageing analysis. Each row represents
 an individual male.
 <strong>mating-success-data.csv</strong> Data used
 for mating rate & reproductive ageing analysis. Rows represent the
 status of a given male (i.e., absent/present, single/mating) at each
 observation period between his release and death.
 <strong>readme.txt</strong> Explanation of all
 variables.
DOI: 10.5061/dryad.tqjq2bvvh
title: Leptomeningeal metastasis from Adrenocortical carcinoma: a case report

description: Adrenocortical carcinoma (ACC) is an uncommon endocrine malignancy with
 limited treatment options. While overall 5-year survival rate in patients
 with ACC is 35%, the disease is often rapidly progressive with long-term
 survival in only 5% of patients. Although tumor stage, grade and excess
 hormonal activity predict unfavorable prognosis, additional biomarkers are
 needed to identify patients with aggressive disease. A 23-year-old woman
 presented with rapidly progressing signs and symptoms of Cushing’s
 syndrome, with associated abdominal pain and fullness. Evaluation revealed
 a large left adrenal mass which had developed over 8 months. En bloc
 surgical resection was performed by an endocrine surgeon, and pathology
 revealed adrenocortical carcinoma with Ki67 of 60%. Despite adjuvant
 treatment with mitotane and etoposide-doxorubicin-carboplatin
 chemotherapy, the patient had rapid disease progression with metastatic
 spread to liver, lung, bone, brain and leptomeningies and she died eleven
 months after the initial diagnosis. Subsequent analysis of patient’s tumor
 revealed mutations in TP53 and MEN1. RNA sequencing was compared against
 the The Cancer Genome Atlas data set and clustered with the high steroid,
 proliferative subtype, associated with the worst prognosis. The tumor also
 demonstrated a low BUB1B/PINK1 ratio as well as G0S2 hypermethylation,
 both predictive of very aggressive ACC. This case represents a subset of
 ACC characterized by rapid and fatal progression. Clinically available
 predictors as well as recently reported molecular signatures and
 biomarkers correlated with this tumor’s aggressiveness, suggesting that
 development and validation of combinations of biomarkers may be useful in
 guiding personalized approaches to patients with ACC.
description: Supplementary Methods; Supplemenatry Figure 1; Supplementary data
 RNAseq
DOI: 10.5061/dryad.2rbnzs7jk
title: Data from: Characterization of gut microbiota composition in hemodialysis patients with normal weight obesity

description: Background: Normal weight obesity (NWO), defined by a normal body mass
 index (BMI) but increased body fat percentage (BF%), is associated with an
 increased risk of cardiovascular disease and mortality. NWO is
 characterized by inflammation and muscle wasting in chronic kidney disease
 (CKD), but the underlying mechanisms remain largely unknown. Gut
 microbiota has been implicated in the regulation of host metabolism and
 may play important roles in the development of NWO in CKD. Methods: In
 this case-control study, we examined the gut microbial diversity and
 taxonomy in 96 hemodialysis patients with normal weight (BMI &lt;25
 kg/m2 and BF% ≤25% for men or ≤35% for women, n = 32), NWO (BMI &lt;25
 kg/m2 and BF% &gt;25% for men or &gt;35% for women, n = 32), and
 overweight/obesity (BMI ≥25 kg/m2, n = 32), matched for age, gender, and
 diabetes. BF% was measured using bioimpedance spectroscopy device. Gut
 microbiota was determined by 16S rRNA sequencing. Results: We found that
 α-diversity was significantly different among the 3 adiposity phenotypes,
 with NWO being the least diverse. α-diversity was positively correlated
 with BMI, subjective global assessment score, and physical activity, but
 negatively correlated with interleukin-6 and tumor necrosis factor-α.
 Patients with or without NWO were distinguished with respect to principal
 coordinate analysis of β-diversity. Notably, the relative abundance of
 butyrate-producing bacteria, such as Faecalibacterium prausnitzii and
 Coprococcus, was markedly reduced in patients with NWO. Conclusion: Our
 findings support associations between gut dysbiosis and a proinflammatory
 and catabolic state in hemodialysis patients with NWO.
DOI: 10.5061/dryad.gqnk98shz
title: Annotation of genome of brown-marbled grouper (Epinephelus fuscoguttatus)

description: Brown-marbled grouper (Epinephelus fuscoguttatus) is an important fish
 species for coral reef ecosystem and marine aquaculture industry. In the
 study, a high quality chromosome-level genome of brown-marbled grouper was
 assembled using Oxford Nanopore technology and Hi-C technology. The GC
 content and heterozygosity were approximate 42% and 0.35 %, respectively
 in brown-marbled grouper genome. A total of 230 contigs with total length
 of 1,047 Mb were assembled, contig N50 was 13.8 Mb, 228 contigs (99.13%)
 can be anchored into 24 chromosomes. A total of 24,005 protein-coding
 genes were predicted, among of them, 23,862 (99.4%) predicted genes were
 annotated. The high quality chromosome-level genome of brown-marbled
 grouper will provide pivotal genetic foundation for further researches of
 grouper.
DOI: 10.5061/dryad.z34tmpg90
title: Spatial point pattern analysis of traces (SPPAT): an approach for visualizing and quantifying site-selectivity patterns of drilling predators

description: Site-selectivity analysis in drilling predation may provide useful
 behavioral information of a predator interacting with its prey. However,
 traditional approaches exclude some spatial information (i.e.,
 oversimplified trace position) and are dependent on the scale of analysis
 (e.g., arbitrary grid system used to divide the prey skeleton into
 sectors). Here we introduce the spatial point pattern analysis of traces
 (SPPAT), an approach for visualizing and quantifying the distribution of
 traces on shelled invertebrate prey, which includes improved collection of
 spatial information inherent to drillhole location (morphometric-based
 estimation), improved visualization of spatial trends (Kernel density and
 hotspot mapping), and distance-based statistics for hypothesis testing
 (K-, L-, and pair correlation functions). We illustrate the SPPAT approach
 through case studies of fossil samples, modern beach-collected samples,
 and laboratory feeding trials of naticid gastropod predation on bivalve
 prey. Overall results show that Kernel density and hotspot maps enable
 visualization of subtle variations in regions of the shell with higher
 density of predation traces, which can be combined with the maximum
 clustering distance metric to generate hypotheses on predatory behavior
 and anti-predatory responses of prey across time and geographic space.
 Distance-based statistics also capture the major features in the
 distribution of traces across the prey skeleton, including aggregated and
 segregated clusters, likely associated with different combinations of two
 modes of drilling predation, edge- and wall-drilling. The SPPAT approach
 is transferrable to other paleoecologic and taphonomic data such as
 encrustation and bioerosion, allowing for standardized investigation of a
 wide range of biotic interactions.
description: Supplementary Table 1. Drilling
 data on <i>L. latilirata</i> and<i> I. subrugosa
 </i>specimens examined in this study including locality information,
 drillhole size and Bookstein shape coordinates. Abbreviations: Bx =
 Bookstein shape coordinate x, By = Bookstein shape coordinate y. Linear
 dimensions are in millimeters (mm).
 Supplementary Table 2.
  Occurrence of naticid gastropods across the fossil bulk samples examined
 in this study. Figure S1. Pseudolandmark data
 collection. The following pseudolandmarks were identified on images of
 individual valves oriented such that the antero-posterior axis was
 horizontal (Kolbe et al. 2011): (1) point of maximum curvature of the
 ventral edge, (2) anterior end of the valve, (3) the beak on the outline,
 (4) posterior end of the valve, and (5) center of the predatory
 drillhole.
DOI: 10.5061/dryad.xgxd254cp
title: Deciphering lifelong thermal niche using otolith δ18O thermometry within supplemented lake trout (Salvelinus namaycush) populations

description: 1. The selection of thermal habitat by fish is strongly regulated by
 physiology and behaviour. However, delineation of a species lifelong
 thermal niche remains technically challenging. Lake trout (Salvelinus
 namaycush) survival and productivity are recognised as being tightly
 linked to a somewhat restricted thermal habitat. The factors guiding
 temperature selection during each life stage remain poorly understood. 2.
 In this study, we tested the significant factors controlling the realised
 thermal niche of lake trout from two southern Quebec small boreal lakes
 that experienced supplementation stocking during the last 20 years. We
 used oxygen stable isotope (δ18O) thermometry of otolith calcium
 carbonates (aragonite) using secondary-ion mass spectrometry (SIMS) to
 estimate experienced lifelong temperatures. We investigated the thermal
 habitat of lake trout with known genotypes (local, hybrid and stocked). 3.
 Ontogeny and genetic origin influenced temperature selection in both
 studied lake trout populations. Young-of-the-year consistently used
 warmer, shallower habitats (10.7 ± 2.6°C, 7.5 m depth) prior to a
 juvenile transition to colder and deeper waters (8.5 ± 3.3°C, 10 m depth).
 Stocked lake trout, originating from a genetically distinct ecotype,
 exhibited a more variable thermal niche, with some individuals
 consistently using warmer habitat (10.4 ± 1°C) than local fish. Their
 hybrid progeny also occupied a warmer thermal niche, intermediate to the
 parental strains. We propose that increased fat content and genetic origin
 are potential explanatory factors for warmer temperature use. 4. This
 study reiterates that high-resolution otolith δ18O thermometry is a
 uniquely well-suited approach for unravelling the multiple factors that
 influence lifelong temperature selection in fish. Our results illustrate
 that the realised thermal niche is influenced by a genetic-environment
 interaction.
DOI: 10.5061/dryad.b5mkkwh90
title: Dynamic changes in DNA methylation during postnatal development in zebra finches (Taeniopygia guttata) exposed to different temperatures

description: Epigenetic changes associated with early life conditions are known to play
 a significant role in shaping the adult phenotype. Studies of DNA
 methylation in wild animals are lacking, yet are important for
 understanding the fitness consequences of environmentally induced
 epigenetic change. In our study, we quantified variation in DNA
 methylation in wild, post-hatch zebra finches Taeniopygia guttata
 developing at seasonally variable temperatures in the Australian desert.
 We also compared variation in DNA methylation among captive zebra finch
 siblings raised in temperature controlled ‘hot’ or ‘cool’ rooms. We
 detected an increase in genome-wide levels of DNA methylation between day
 3 and day 11 of post hatch development in wild zebra finches. In the wild,
 ambient temperatures were also found to affect genome-wide levels of DNA
 methylation and plasticity in the methylation state of individual loci.
 Family effects had a significant influence on DNA methylation throughout
 our study, and while we did not detect an effect of temperature on DNA
 methylation levels in non-related captive birds, our sibling pair analyses
 revealed that within families, elevated temperatures were associated with
 higher levels of DNA methylation. Our findings suggest a wide window in
 early development during which climatically induced variation in DNA
 methylation could occur. Further work is necessary to understand the
 potential for such variation to promote ecologically relevant variation in
 wild birds.
description: See Methods section of paper for more details. 
 Blood samples were collected from zebra finch nestlings at day 3
 and day 11 of development. DNA was then extracted and screened for
 variation in DNA methylation using MS-AFLP. We used peakscanner and
 rawgeno to analyse the data. We  calculated percent DNA methylation and
 the extent of DNA-methylation state change across developemnt. We assessed
 variation in DNA methylation using R 3.6.1.
DOI: 10.15468/dl.jer5f2
title: Occurrence Download

description: A dataset containing 1740 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Astragalus ceramicus"
 ]
}

 The dataset includes 1740 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002228-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.31151638
title: Kolmogorov-Arnold Networks Applied to Materials Property Prediction

description: Supplementary data for the publication "Kolmogorov-Arnold Networks Applied to Materials Property Prediction" by Ryan Jacobs, Lane Schultz, and Dane Morgan (2026).
DOI: 10.6084/m9.figshare.31151638.v1
title: Kolmogorov-Arnold Networks Applied to Materials Property Prediction

description: Supplementary data for the publication "Kolmogorov-Arnold Networks Applied to Materials Property Prediction" by Ryan Jacobs, Lane Schultz, and Dane Morgan (2026).
DOI: 10.13140/rg.2.2.36768.85760
title: Reviewer certificate awarded to Wilmer López in recognition of his contribution for the Journal Educere (ISSN 1316-4910).