cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.n02v6wwt0
title: Beyond pairwise interactions: multispecies character displacement in Mexican freshwater fish communities

description: Competition has long been recognized as a central force in shaping
 evolution, particularly through character displacement. Yet research on
 character displacement is biased as it has focused almost exclusively on
 pairs of interacting species, while ignoring multispecies interactions.
 Communities are seldom so simple that only pairs of species interact, and
 it is not clear if inferences from pairwise interactions are sufficient to
 explain patterns of phenotypes in nature. Here we test for character
 displacement in a natural system of freshwater fishes in western Mexico
 that contains up to four congeneric species of the genus Poeciliopsis. We
 analyzed body shape differences between populations with different numbers
 of competitors while accounting for confounding environmental variables.
 Surprisingly, we found evidence for convergent character displacement in
 populations of P. prolifica, P. viriosa and P. latidens. We also found
 that the convergence in body shape was not consistently in the same
 direction, meaning that when three or more competitors co-occurred, we did
 not find more extreme body shapes compared to when there were only two
 competitors. Instead, when three or more competitors co-occur, body shape
 was intermediate to the shape found with a pair of species or no
 competitor present. This intermediate shape suggests that evolution in
 multispecies communities likely occurs in response to several competitors,
 rather than to simple pairwise interactions. Overall, our results suggest
 that competition among multiple species is more complex than simple
 pairwise competitive interactions.
DOI: 10.15468/dl.qbyzh4
title: Occurrence Download

description: A dataset containing 254 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Wilbrandia ebracteata",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 254 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002111-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.msbcc2ftv
title: The hornwort genome and early land plant evolution

description: Hornworts, liverworts, and mosses are three early diverging clades of land
 plants, together composing the bryophytes. Here we report the draft genome
 sequence of the hornwort Anthoceros angustus. Phylogenomic inferences
 confirm the monophyly of bryophytes, with hornworts sister to liverworts
 and mosses. The simple morphology of hornworts correlates with low genetic
 redundancy in plant body plan while the basic transcriptional regulation
 toolkit for plant development has already been established in this early
 land plant lineage. Although the Anthoceros genome is small and
 characterized by minimal redundancy, expansions are observed in gene
 families related to RNA editing, UV protection and desiccation tolerance.
 The genome of A. angustus bears the signatures of horizontally transferred
 genes from bacteria and fungi, in particular of genes operating in stress
 response and metabolic pathways. Our study provides insight into the
 unique features of hornworts and their molecular adaptations to life on
 land.
DOI: 10.15468/dl.5ejxxg
title: Occurrence Download

description: A dataset containing 286100 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eugenia"
 ]
}

 The dataset includes 286100 records from 1224 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002056-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.sf7m0cg22
title: Tree diversity is key for promoting the diversity and abundance of forest‐associated taxa in Europe

description: Plant diversity is an important driver of diversity at other trophic
 levels, suggesting that cascading extinctions could reduce overall
 biodiversity. Most evidence for positive effects of plant diversity comes
 from grasslands. Despite the fact that forests are hotspots of
 biodiversity, the importance of tree diversity, in particular its relative
 importance compared to other management related factors, in affecting
 forest‐associated taxa is not well known. To address this, we used data
 from 183 plots, located in different forest types, from Mediterranean to
 Boreal, and established along a climatic gradient across six European
 countries (FunDivEUROPE project). We tested the influence of tree
 diversity, tree functional composition (i.e. functional trait values),
 forest structure, climate and soil on the diversity and abundance/activity
 of nine taxa (bats, birds, spiders, microorganisms, earthworms, ungulates,
 foliar fungal pathogens, defoliating insects and understorey plants) and
 on their overall diversity and abundance/activity
 (multidiversity,multiabundance/activity). Tree diversity was a key driver
 of taxon‐level and overall forest‐associated biodiversity, along with tree
 functional composition, forest structure, climate and soil. Both tree
 species richness and functional diversity (variation in functional trait
 values) were important. The effects of tree diversity on the
 abundance/activity of forest‐associated taxa were less consistent.
 Nonetheless, spiders, ungulates and foliar fungal pathogens were all more
 abundant/active in diverse forests. Tree functional composition and
 structure were also important drivers of abundance/activity: conifer
 stands had lower overall multidiversity (although the effect was driven by
 defoliating insects), while stands with potentially tall trees had lower
 overall multiabundance/activity. We found more synergies than trade‐offs
 between diversity and abundance/activity of different taxa, suggesting
 that forest management can promote high diversity across taxa. Our results
 clearly show the high value of mixed forest stands for multiple
 forest‐associated taxa and indicate that multiple dimensions of tree
 diversity (taxonomic and functional) are important.
DOI: 10.5061/dryad.wdbrv15jn
title: Is Niagara Falls a barrier to gene flow in riverine fishes? A test using genome-wide SNP data from seven native species

description: Since the early Holocene, fish population genetics in the Laurentian Great
 Lakes have been shaped by the dual influences of habitat structure and
 post-glacial dispersal. Riverscape genetics theory predicts that
 longitudinal habitat corridors and unidirectional downstream water-flow
 drive the downstream accumulation of genetic diversity, whereas
 post-glacial dispersal theory predicts that fish genetic diversity should
 decrease with increasing distance from glacial refugia. This study
 examines populations of seven native fish species codistributed above and
 below the 58 m-high Niagara Falls – a hypothesized barrier to gene flow in
 aquatic species. A better understanding of Niagara Falls’ role as a
 barrier to gene flow and dispersal is needed to identify drivers of Great
 Lakes genetic diversity and guide strategies to limit exotic species
 invasions. We used genome-wide SNPs and coalescent models to test whether
 populations are: (1) genetically distinct, consistent with the Niagara
 Falls barrier hypothesis; (2) more genetically diverse upstream,
 consistent with post-glacial expansion theory, or downstream, consistent
 with the riverscape habitat theory; and, (3) are migrating either upstream
 or downstream past Niagara Falls. We found that genetic diversity is
 consistently greater below Niagara Falls and the falls are an effective
 barrier to downstream migration, but at least some species have likely
 dispersed upstream past the falls since the time of their formation yet
 before construction of the Welland Canal. Models restricting migration to
 after opening of the Welland Canal were generally rejected. These results
 help explain how river habitat features affect aquatic species’ genetic
 diversity and highlight the need to better understand post-glacial
 dispersal pathways.
description: These are both original data and permutations of data generated
 via a three-enzyme restriction site associated DNA (3RAD) library
 preparationa and sequencing pipeline applied to seven native
 fish species that are codistributed above and below Niagara Falls, in the
 Niagara River between lakes Erie and Ontario at the Canada – United States
 border. The seven species examined are: Ambloplites rupestris, Ameiurus
 nebulosus, Catostomus commersoni, Micropterus salmoides, Moxostoma
 macrolepidotum, Moxostoma valenciennesi, and Perca flavescens. Raw 3RAD
 sequence reads were clustered and SNPs were called using the program
 Pyrad. Pyrad outputs provided here are the unlinked SNP matrices and the
 VCF files generated for each species. Also provided are the input files
 for our principle coordinate analyses in .xls format, input files for our
 diveRsity analyses in Genepop format, and input files for our fastsimcoal2
 demographic model testing analyses.
description: Each data set contains data for each of the seven species
 *except* the fastsimcoal2 datasets, which exclude Moxostoma valenciennesi,
 for which there were two few individuals to run demographic
 analyses.
DOI: 10.5061/dryad.sf7m0cg23
title: Cheilanthes ecuadorensis: A new species of Cheilanthes s.s. (Pteridaceae) from northern South America

description: Ongoing research on the taxonomically complex genus Cheilanthes
 (Pteridaceae; Cheilanthoideae) has resulted in the identification of a new
 species from Loja Province in Ecuador—Cheilanthes ecuadorensis, described
 and illustrated herein. Originally collected in 1988 and identified as C.
 cf. rufopunctata, C. ecuadorensis is clearly distinct from that species in
 having pubescent adaxial blade surfaces and narrow, poorly-differentiated
 false indusia. Among the South American species currently included in
 Cheilanthes, C. ecuadorensis is superficially most similar to C. pilosa.
 However, our molecular phylogenetic analyses indicate that C. ecuadorensis
 is sister to C. micropteris, the morphologically disparate generitype of
 Cheilanthes. Here we examine the phylogenetic relationships, morphology,
 cytogenetics, and geography of these four South American Cheilanthes
 species in a study that, once again, highlights the importance of herbaria
 in the process of new species discovery.
DOI: 10.5061/dryad.j3tx95x8z
title: Data from: Microplastics disrupt hermit crab shell selection

description: Microplastics (plastics &lt; 5 mm) are a potential threat to marine
 biodiversity. However, the effects of microplastic pollution on animal
 behaviour and cognition are poorly understood. We used shell selection in
 common European hermit crabs (Pagurus bernhardus) as a model to test
 whether microplastic exposure impacts the essential survival behaviours of
 contacting, investigating, and entering an optimal shell. We kept 64
 female hermit crabs in tanks containing either polyethylene spheres (n =
 35) or no plastic (n = 29) for five days. We then transferred subjects
 into suboptimal shells and placed them in an observation tank with an
 optimal alternative shell. Plastic-exposed hermit crabs showed impaired
 shell selection: they were less likely than controls to contact optimal
 shells or enter them. They also took longer to contact and enter the
 optimal shell. Plastic exposure did not affect time spent investigating
 the optimal shell. These results indicate that microplastics impair
 cognition (information-gathering and processing), disrupting an essential
 survival behaviour in hermit crabs.
DOI: 10.5061/dryad.cjsxksn2f
title: 3D-T1 image of Cushing disease

description: Background: The adverse effects of hypercortisolism on total human brain
 had been highlighted in previous neuroscience studies of Cushing’s disease
 (CD). However, the regional alterations associated with hypercortisolism
 remains unclear. The present study was carried out to examine gray matter
 (GM) alterations according to the different stages of chronic
 hypercortisolism exposure. Design: Although longitudinal studies have been
 traditionally used to address the question of reversibility of brain
 alterations in CD, these studies would probably ignore the irreversible
 alterations induced by hypercortisolism. Thus, information from
 cross-sectional neuroimaging studies may provide more useful contributions
 to further clarify this issue. Methods: To examine the GM alterations
 during hypercortisolism exposure and after resolution of the condition,
 ROI-based GM volumes (GMvs) of active and two biochemically remitted CD
 patient groups, as well as those of healthy control subjects were compared
 using the F test of one-way ANOVA. Results: Cross-sectional analysis
 demonstrated significant altered GMvs in most of the brain sub-regions.
 Moreover, different relationship between clinical characteristic and
 regional GMvs and diverse trends after resolution of hypercortisolism were
 found in CD patients, which suggested different response to the
 hypercortisolism in different brain sub-regions. Conclusion: Our study
 enhances the understanding of the structural alterations due to
 hypercortisolism. Furthermore, our study may facilitate the development of
 future studies with neuropsychological tests.
DOI: 10.5061/dryad.fttdz08p1
title: Data from: Antrophyum nambanense, a new vittarioid fern (Pteridaceae; Polypodiales) from Vietnam

description: A new species, Antrophyum nambanense , is described here based on the
 evidence from morphology and molecular phylogeny. Morphologically, short
 taeniform soral paraphyses and large fronds are the diagnostic
 characteristics of A. nambanense . Phylogenetically, it is most closely
 related to A. annamense , but can be readily distinguished from A.
 annamense by taeniform soral paraphyses (vs. filiform). We suggest A.
 nambanense is an allopolyploid of hybrid origin involving A. annamense and
 A. henryi , based on the evidence of morphology, phylogenetic position,
 chromosome number, and partially malformed spores . A description,
 photographs of key characters, distribution, conservation status, and
 ecology of the new species are presented. In addition, A. nambanense is
 also the first confirmed species with chlorophyllous spores in Antrophyum
 . Lastly, an updated key to all known Antrophyum species in Vietnam,
 including A. henryi as a new record for the country, is provided.
DOI: 10.5061/dryad.1jwstqjr0
title: Expression atlas of Selaginella moellendorffii provides insights into the evolution of vasculature, secondary metabolism and roots

description: Selaginella moellendorffii is a representative of the lycophyte lineage
 and is studied to understand the evolution of land plant traits such as
 the vasculature, leaves, stems, roots, and secondary metabolism. However,
 only few studies investigated about the gene expression and
 transcriptional coordination of Selaginella genes, precluding us from
 understanding the evolution of transcriptional programs behind these
 traits. We present a gene expression atlas comprising all major organs,
 tissue types, and the diurnal gene expression profiles for S.
 moellendorffii. We show that the transcriptional gene module responsible
 for the biosynthesis of lignocellulose evolved in the ancestor of vascular
 plants, and pinpoint the duplication and subfunctionalization events that
 generated multiple gene modules involved in the biosynthesis of various
 cell wall types. We demonstrate how secondary metabolism is
 transcriptionally coordinated and integrated with other cellular pathways.
 Finally, we identify root-specific genes and show that the evolution of
 roots did not coincide with an increased appearance of gene families,
 suggesting that the development of new organs does not coincide with
 increased fixation of new gene functions. Our updated database at
 conekt.plant.tools provides a unique resource to study the evolution of
 genes, gene families, transcriptomes, and functional gene modules in the
 Archaeplastida kingdom.
DOI: 10.5061/dryad.3xsj3txbk
title: Latitudinal trend in the reproductive mode of the pea aphid Acyrthosiphon pisum invading a wide climatic range

description: The maintenance of sexuality is a puzzling phenomenon in evolutionary
 biology. Many universal hypotheses have been proposed to explain the
 prevalence of sex despite its costs, but it has been hypothesized that sex
 could be also retained by lineage-specific mechanisms that would confer
 some short-term advantage. Aphids are good models to study the maintenance
 of sex because they exhibit coexistence of both sexual and asexual
 populations within the same species and because they invade a large
 variety of ecosystems. Sex in aphids is thought to be maintained because
 only sexually produced eggs can persist in cold climates but whether sex
 is obligate or facultative depending on climatic conditions remains to be
 elucidated. In this study, we have inferred the reproductive mode of
 introduced populations of the pea aphid Acyrthosiphon pisum in Chile along
 a climatic gradient using phenotypic assays and genetic-based criteria to
 test the ecological short-term advantage of sex in cold environments. Our
 results showed a latitudinal trend in the reproductive mode of Chilean pea
 aphid populations from obligate parthenogenesis in the north to an
 intermediate life-cycle producing both parthenogenetic and sexual progeny
 in the southernmost subpopulation, where harsh winters are usual. These
 findings are congruent with the hypothesis of the ecological short-term
 advantage of sex in aphids.
DOI: 10.5061/dryad.0p2ngf1w8
title: Data for: Deep brain stimulation in early-stage Parkinson disease

description: Objective: To report 5-year outcomes from the subthalamic nucleus (STN)
 deep brain stimulation (DBS) in early-stage Parkinson disease (PD) pilot
 clinical trial. Methods: The pilot was a prospective, single-blind
 clinical trial that randomized patients with early-stage PD (Hoehn
 & Yahr II off medications) to receive bilateral STN DBS plus
 optimal drug therapy (ODT) vs ODT alone (IDEG050016, NCT0282152,
 IRB040797). Participants who completed the 2-year trial participated in
 this observational follow-up study, which included annual outpatient
 visits through 5 years. This analysis includes 28 patients who were taking
 PD medications for 6 months to 4 years at enrollment. Outcomes were
 analyzed using both proportional odds logistic regression and linear mixed
 effects models.ResultsEarly STN DBS + ODT participants required lower
 levodopa equivalent daily doses (p = 0.04, β = −240 mg, 95% confidence
 interval [CI] −471 to −8) and had 0.06 times the odds of requiring
 polypharmacy at 5 years compared to early ODT participants (p = 0.01, odds
 ratio [OR] 0.06, 95% CI 0.00 to 0.65). The odds of having worse rest
 tremor for early STN DBS + ODT participants were 0.21 times those of early
 ODT participants (p &lt; 0.001, OR 0.21, 95% CI 0.09 to 0.45). The
 safety profile was similar between groups. Conclusions: These results
 suggest that early DBS reduces the need for and complexity of PD
 medications while providing long-term motor benefit over standard medical
 therapy. Further investigation is warranted, and the Food and Drug
 Administration has approved the conduct of a prospective, multicenter,
 pivotal clinical trial of DBS in early-stage PD (IDEG050016).
 Classification of evidence: This study provides Class II evidence that DBS
 implanted in early-stage PD decreases the risk of disease progression and
 polypharmacy compared to optimal medical therapy alone.
description: The STN DBS in early PD pilot was a prospective, randomized,
 controlled, single-blind clinical trial (ClinicalTrials.gov NCT00282152)
 that was approved by the FDA (IDEG050016) and Vanderbilt IRB (IRB040797).
 All 29 subjects who completed the two-year pilot trial provided written
 informed consent to participate in an observational follow-up study that
 included annual outpatient visits at three, four, and five years after
 baseline (IRB040797). All adverse events (AEs)
 collected at years three, four, and five were coded using the preferred
 term in the Medical Dictionary for Regulatory Activities (MedDRA)21 and
 classified as mild, moderate, severe and/or serious.
DOI: 10.82294/dvnvs9vsc
title: Entrevistas semiestructuradas. Territorio: Cundinamarca. Sector Cultura. Año: 2023

description: A partir de un proceso de acompañamiento situado, se recopilaron testimonios por medio de entrevistas semiestructuradas durante el año 2023, las cuales indagaron sobre 4 categorías que describían la práctica en educación artística de docentes, cultores, sabedores de la enseñanza del arte, que hacían parte de los programas de formación en educación artística y cultural del sector Cultura (educación informal) en el departamento de Cundinamarca.
DOI: 10.5061/dryad.jq2bvq85x
title: Negative correlations between native macrophyte diversity and water hyacinth abundance are stronger in its introduced than in its native range

description: Aim: We tested the hypothesis that the diversity and abundance of aquatic
 macrophytes are negatively related with Eichhornia crassipes abundance in
 its introduced range, but not in its native range.  Location:
 Upper Parana River Floodplain, Brazil and Southeast China Methods: We
 sampled aquatic macrophytes patches in Brazil (native range) and China
 (introduced range) along a biomass gradient of E. crassipes. For each
 patch, we obtained values of species richness and aquatic macrophytes
 percentage cover, as response variables in regression models. We also used
 species accumulation curves to quantify the total plot diversity in
 dominated and non-dominated plots for both countries. Finally, we compared
 the influence of E. crassipes dominance on community composition and beta
 diversity with Permanova and Permdisp, respectively. Results: The
 regression analyses revealed a negative correlation between macrophyte
 richness and cover and E. crassipes biomass only in the introduced range.
 The cumulative number of species decreased at a higher extent in plots
 dominated by E. crassipes in China, compared to Brazil. Also, species
 composition changed and beta diversity decreased in the dominated plots in
 China, but not in Brazil. Main conclusions: The reduction of all diversity
 attributes related to E. crassipes probably results from its engineer
 species role, which decreases littoral region habitat heterogeneity and
 affects rare species in the introduced range. Differences between
 countries may be associated with impacts of water hyacinth on native
 macrophytes since this plant grows very fast and is highly competitive.
 Although less probable, biotic resistance at the establishment phase of
 water hyacinth in sites with higher number of native species is also a
 possibility. Regardless of the main mechanism explaining our patterns, it
 is suggested that invasion by water hyacinth is a cause for concern for
 its higher impacts in the introduced ranges than the native ranges.
DOI: 10.17909/1j5z-4j22
title: Data used in "Direct Detection of Silicon Monoxide in the Atmosphere of Ultra-Hot Jupiter WASP-178b with Archival HST/STIS Near-ultraviolet Spectroscopy"