cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3tx95x6f8
title: Data from: Diversity patterns and evolutionary history of Arabian squamates

description: Aim: Deserts are generally perceived as areas of low diversity, and hence
 receive little attention from researchers and conservationists. Squamates
 are the dominant group of vertebrates in arid regions, and as such
 represent an ideal model to study biodiversity patterns in these areas. We
 examine spatial patterns of diversity, evolutionary history and endemism
 of terrestrial squamates of the Arabian Peninsula and test hypotheses on
 the role of topography and history of isolation so as to identify possible
 environmental drivers of diversification Location: The Arabian
 Peninsula. Taxon: Squamate reptiles (Squamata; lizards and
 snakes). Methods: We generated distribution maps for all Arabian squamate
 species (including yet undescribed) and reconstructed their phylogenetic
 relationships using existing and newly produced genetic data for nearly
 all the species. We assessed patterns of the distribution of species
 richness, phylogenetic diversity and phylogenetic endemism across the
 peninsula to identify areas that could be considered diversity,
 evolutionary, or endemicity hotspots for squamates. We evaluated community
 turnover across the peninsula and assessed the possible environmental
 drivers affecting the diversity of Arabian squamates in a regression
 framework. Results: The main hotspots of Arabian squamate
 diversity are mostly along the mountains that rim the peninsula while the
 most arid, central regions support a low diversity of species. The
 distribution of the phylogenetic diversity mirrors that of the species
 richness. Phylogenetic endemism is also highest in the mountains,
 especially when only endemic species are analysed. The deserts of northern
 Arabia are poor in terms of species richness and they show low
 connectivity to the peninsular communities. Topographic heterogeneity is
 the strongest predictor for Arabian squamates, followed by elevation.
 There is no correlation between richness and temperature. Main
 Conclusions: The mountains of Arabia support rich and unique squamate
 communities that are dominated by local radiations of closely related and
 narrow-ranging species. In particular, the Asir Mountains of SW Arabia,
 Dhofar Province of Oman, and the Hajar Mountains of northern Oman and UAE
 show unprecedented levels of squamate endemism and phylogenetic endemism.
 While many generalist species range across Arabia, a low number of species
 is shared between the peninsula and mainland Asia, indicating an effective
 isolation of the Arabian fauna. Squamates richness is highest in
 heterogeneous, topographically complex habitats.
DOI: 10.5061/dryad.w9ghx3fnk
title: Mapping the geographic origin of captive and confiscated Hermann’s tortoises: a genetic toolkit for conservation and forensic analyses

description: The illegal trade has been threatening tortoise populations worldwide for
 decades. Nowadays, however, DNA typing and forensic genetic approaches
 allow us to investigate the geographic origin of confiscated animals and
 to relocate them into the wild, providing that suitable molecular tools
 and reference data are available. Here we assess the suitability of a
 small panel of microsatellite markers to investigate patterns of illegal
 translocations and to assist forensic genetic applications in the
 endangered Mediterranean land tortoise Testudo hermanni hermanni. Specific
 allelic ladders were created for each locus and tested on several
 reference samples. We used the microsatellite panel to (i) increase our
 understanding of the population genetic structure in wild populations with
 new data from previously unsampled geographic areas (overall 461 wild
 individuals from 28 sampling sites); (ii) detect the presence of
 non-native individuals in wild populations; and (iii) identify the most
 likely geographic area of origin of 458 confiscated individuals hosted in
 Italian seizure and recovery centers. Our analysis initially identified
 six major genetic clusters corresponding to different geographic
 macro-areas along the Mediterranean range. Long-distance migrants among
 wild populations, due to translocations, were found and removed from the
 reference database. Assignment tests allowed us to allocate approximately
 70% of confiscated individuals of unknown origin to one of the six
 Mediterranean macro-areas. Most of the assigned tortoises belonged to the
 genetic cluster corresponding to the area where the respective captivity
 center was located. However, we also found evidence of long-distance
 origins of confiscated individuals, especially in centers along the
 Adriatic coast and facing the Balkan regions, a well-known source of
 illegally traded individuals. Our results clearly show that the
 microsatellite panel and the reference dataset can play a beneficial role
 in reintroduction and repatriation projects when confiscated individuals
 need to be re-assigned to their respective macro-area of origin
 before release, and can assist future forensic genetic applications in
 detecting the illegal trade and possession of Testudo hermanni
 individuals.
description: Microsatellite data of Mediterranean land tortoise,
 <em>Testudo hermanni</em> The file
 contains the microsatellite reference dataset of <em>Testudo
 hermanni</em>.
 Testudo_hermanni_STR_dataset.txt
DOI: 10.5281/zenodo.18396444
title: THE PRAGMATIC MEANINGS OF PHRASEOLOGICAL UNITS IN ENGLISH LITERATURE

description: Phraseological units , particularly idioms, serve crucial pragmatic functions in English literature by conveying implicatures, enhancing expressiveness, characterizing speakers, and reflecting cultural norms beyond literal semantics. This study explores how PUs operate pragmatically in literary texts, from Shakespearean drama to modern fiction, facilitating irony, persuasion, humor, and interpersonal dynamics. Drawing on pragmatic theories (e.g., speech acts, Gricean maxims, implicature), the analysis examines contextual modifications, creative instantiations, and discourse roles of idioms. Findings indicate that literary authors exploit PUs for indirect communication, power negotiation, and emotional depth, often flouting conversational norms to achieve stylistic effects. The research highlights implications for literary interpretation, translation, and language pedagogy, emphasizing the interplay between pragmatics and literary discourse.
DOI: 10.5281/zenodo.18396443
title: THE PRAGMATIC MEANINGS OF PHRASEOLOGICAL UNITS IN ENGLISH LITERATURE

description: Phraseological units , particularly idioms, serve crucial pragmatic functions in English literature by conveying implicatures, enhancing expressiveness, characterizing speakers, and reflecting cultural norms beyond literal semantics. This study explores how PUs operate pragmatically in literary texts, from Shakespearean drama to modern fiction, facilitating irony, persuasion, humor, and interpersonal dynamics. Drawing on pragmatic theories (e.g., speech acts, Gricean maxims, implicature), the analysis examines contextual modifications, creative instantiations, and discourse roles of idioms. Findings indicate that literary authors exploit PUs for indirect communication, power negotiation, and emotional depth, often flouting conversational norms to achieve stylistic effects. The research highlights implications for literary interpretation, translation, and language pedagogy, emphasizing the interplay between pragmatics and literary discourse.
DOI: 10.5061/dryad.cz8w9gj2q
title: Range expansion, habitat use and choosiness in a butterfly under climate change: marginality and tolerance of oviposition site selection

description: Poleward range shifts under climate change involve the colonization of new
 sites and hence the foundation of new populations at the expanding edge.
 We studied oviposition site selection in a butterfly under range expansion
 (Lycaena dispar), a key process for the establishment of new populations.
 We described and compared the microhabitats used by the species for egg
 laying with those available across the study sites both in edge and in
 core populations. We carried out an ecological niche factor analysis
 (ENFA) to estimate (1) the variety of microhabitats used by the butterfly
 for egg laying (tolerance) and (2) the extent to which these selected
 microhabitats deviated from those available (marginality). Microhabitat
 availability was similar in edge and core populations. Ambient temperature
 recorded at the site level above the vegetation was on average lower at
 core populations. In contrast with what is often assumed, edge populations
 did not have narrower microhabitat use compared to core populations.
 Females in edge populations even showed a higher degree of generalism:
 they laid eggs under a wider range of microhabitats. We suggest that this
 pattern could be related to an overrepresentation of fast deciding
 personalities in edge populations. We also showed that the thermal time
 window for active female behaviour was reduced in edge populations, which
 could significantly decrease the time budget for oviposition and increase
 the threshold of acceptance during microhabitat selection for oviposition
 in recently established populations.
DOI: 10.5281/zenodo.18396457
title: Paleo-Saltwater Dominates Coastal Aquifer Salinization: A Continental-Scale Study in China
DOI: 10.5281/zenodo.18396456
title: Paleo-Saltwater Dominates Coastal Aquifer Salinization: A Continental-Scale Study in China
DOI: 10.5061/dryad.8931zcrpr
title: A superfine glass fiber air filter with rapid response to photocatalytic antibacterial properties under visible light by loading rGO/ZnO

description:   The development of high-performance air filter has become more
 and more important to public health. However, it has always been very
 challenging for developing a multifunctional air filter to simultaneously
 achieve excellent filtration and antibacterial properties. Herein, a
 versatile air filter was prepared with loading the reduced graphener and
 Zinc oxide on the superfine glass fiber with the three-dimensional network
 structure by in-situ sol-gel process followed by calcination, which aims
 to achieve synergistic high efficiency air filtration and rapid response
 to photocatalytic antibacterial under visible light. The air filter showed
 a three-dimensional network structure based on a rGO/ZnO/s-GF multilayer
 and exhibited the highest catalytic performance by achieving a 95%
 degradation effect on Rhodamine B within 2 h and achieving 100%
 antibacterial inactivation of the Escherichia coli and Staphylococcus
 aureus within 4 h under visible light when the weight ratio of rGO in
 rGO/ZnO is 1.6%. The air filtration efficiency can also be maintained at
 99% after loading Zno and rGO photocatalytic particles. The spectrum of
 PL, DRS and ERS indicate that the combination of rGO and ZnO on the s-GF
 can increase the separation of photo-generated carriers and the specific
 surface area of the air filter, thereby increasing the photocatalytic
 response and antibacterial properties of the s-GF air filter under visible
 light in a short time.  
description: The dataset has been collected through characterization of the
 prepared material by several instruments and experimental data from the
 desigend experiments. All the dataset information has been processed
 through the attached Origin Pro files.
description: These are Origin project files that can be viewed using the
 Origin software or viewer.
DOI: 10.5061/dryad.dv41ns1wz
title: Two-Round Ca2+ transient in papillae by mechanical stimulation induces metamorphosis in the ascidian, Ciona intestinalis type A

description: Marine invertebrate larvae are known to begin metamorphosis in response to
 environmentally-derived cues. However, little is known about the
 relationships between the perception of such cues and internal signalling
 for metamorphosis. To elucidate the mechanism underlying the initiation of
 metamorphosis in the ascidian, Ciona intestinalis type A (Ciona robusta),
 we artificially induced ascidian metamorphosis and investigated Ca2+
 dynamics from pre- to post-metamorphosis. Ca2+ transients were observed
 and consisted of two temporally distinct phases with different durations
 before tail regression which is the early event of metamorphosis. In the
 first phase, Phase I, the Ca2+ transient in the papillae (adhesive organ
 of anterior trunk) was coupled with the Ca2+ transient in dorsally
 localised cells and endoderm cells just after mechanical stimulation. The
 Ca2+ transients in Phase I were also observed when applying only short
 stimulation. In the second phase, Phase II, the Ca2+ transient in papillae
 was observed again and lasted for~5–11 min just after the Ca2+ transient
 in Phase I continued for a few minutes. The impaired papillae by
 Foxg-knockdown failed to induce the second Ca2+ transient in Phase II and
 tail regression. In Phase II, a wave-like Ca2+ propagation was also
 observed across the entire epidermis. Our results indicate that the
 papillae sense a mechanical cue and two-round Ca2+ transients in papillae
 transmits the internal metamorphic signals to different tissues, which
 subsequently induces tail regression. Our study will help elucidate the
 internal mechanism of metamorphosis in marine invertebrate larvae in
 response to environmental cues.
DOI: 10.5061/dryad.djh9w0vzk
title: Species asynchrony stabilises productivity under extreme drought across Northern China grasslands

description: 1. Biodiversity can stabilise productivity through different mechanisms,
 such as asynchronous species responses to environmental variability and
 species stability. Global changes, like intensified drought, could
 negatively affect species richness, species asynchrony, and species
 stability, but it is unclear how changes in these mechanisms will affect
 stability of aboveground primary productivity (ANPP) across ecosystems. 2.
 We studied the effects of a 4-year extreme drought on ANPP stability and
 the underlying mechanisms (species richness, species asynchrony, and
 species stability) across six grasslands in Northern China. We also
 assessed the relative importance of these mechanisms in determining ANPP
 stability under extreme drought. 3. We found that extreme drought
 decreased ANPP stability, species richness, species asynchrony, and
 species stability across the six grasslands. However, structural equation
 modelling revealed that species asynchrony, not species richness or
 species stability, was the most important mechanism promoting stability of
 ANPP, regardless of drought across the six grasslands. 4. Synthesis: Our
 results suggest that species asynchrony, not species richness and species
 stability, consistently buffers ecosystem stability against extreme
 drought across and within grasslands spanning a broad precipitation
 gradient. Thus, species asynchrony may be a more general mechanism for
 promoting stability of ANPP in grasslands in the face of intensified
 drought.
DOI: 10.5061/dryad.rjdfn2z95
title: Data for: Immigration counter-acts local micro-evolution of a major fitness component: migration-selection balance in free-living song sparrows

description: Ongoing adaptive evolution, and resulting ‘evolutionary rescue’ of
 declining populations, requires additive genetic variation in fitness.
 Such variation can be increased by gene flow resulting from immigration,
 potentially facilitating evolution. But, gene flow could in fact constrain
 rather than facilitate local adaptive evolution if immigrants have low
 additive genetic values for local fitness. Local migration-selection
 balance and micro-evolutionary stasis could then result. However, key
 quantitative genetic effects of natural immigration, comprising the
 degrees to which gene flow increases the total local additive genetic
 variance yet counter-acts local adaptive evolutionary change, have not
 been explicitly quantified in wild populations. Key implications of gene
 flow for population and evolutionary dynamics consequently remain unclear.
 Our quantitative genetic analyses of long-term data from free-living song
 sparrows (Melospiza melodia) show that mean breeding value for local
 juvenile survival to adulthood, a major component of fitness, increased
 across cohorts more than expected solely due to drift. Such
 micro-evolutionary change should be expected given non-zero additive
 genetic variance and consistent directional selection. However, this
 evolutionary increase was counter-acted by negative additive genetic
 effects of recent immigrants, which increased total additive genetic
 variance but prevented a net directional evolutionary increase in total
 additive genetic value. These analyses imply an approximate quantitative
 genetic migration-selection balance in a major fitness component, and
 hence demonstrate a key mechanism by which substantial additive genetic
 variation can be maintained yet decoupled from local adaptive evolutionary
 change.
description: Please refer to: <b>Immigration counter-acts
 local micro-evolution of a major fitness component: migration-selection
 balance in free-living song sparrows</b> <b>Jane M. Reid et
 al.</b> <b>Evolution Letters,
 2021</b>
DOI: 10.5061/dryad.3bk3j9kj2
title: AID overexpression leads to aggressive murine CLL and non-Ig mutations that mirror human neoplasms

description: Most cancers become more dangerous by the outgrowth of malignant subclones
 with additional DNA mutations that favor proliferation or survival. Using
 chronic lymphocytic leukemia (CLL), a disease exemplary of this process,
 and a model for neoplasms in general, we created transgenic mice
 overexpressing the enzyme, activation-induced deaminase (AID), whose
 normal function is to induce DNA mutations in B lymphocytes. AID allows
 normal B lymphocytes to develop more effective immunoglobulin
 (Ig)-mediated immunity, but also is able to mutate non-Ig genes,
 predisposing to cancer. In chronic lymphocytic leukemia (CLL), AID
 expression correlates with poor prognosis suggesting a role for this
 enzyme in disease progression. Nevertheless, direct experimental evidence
 identifying the specific genes that are mutated by AID and indicating that
 those genes are associated with disease progression is not available. To
 address this point, we overexpressed Aicda in a murine model of CLL
 (Em-TCL1). Analyses of TCL1/AID mice demonstrate a role for AID in disease
 kinetics, CLL-cell proliferation, and the development of cancer-related
 target mutations with canonical AID signatures in non-Igs genes. Notably,
 our mouse models can accumulate mutations in the same genes that are
 mutated in human cancers. Moreover, some of these mutations occur at
 homologous positions, leading to identical or chemically-similar amino
 acid substitutions as in human CLL and lymphoma. Together, these findings
 support a direct link between aberrant AID activity and CLL driver
 mutations that are then selected for their oncogenic effects, whereby AID
 promotes aggressiveness in CLL and other B-cell neoplasms.
description: Peripheral blood mononuclear cells were collected in a prospective study from patients with confirmed CLL diagnosis. All patients were followed at Hospital Maciel and they provided an informed consent according to the ethical regulations from Uruguay and the Helsinki Declaration. Protocols were approved and conducted in accordance with the Institutional Ethical Committee of the Hospital Maciel and with the principles of the Declaration of Helsinki (CEIHM_ protocol No 28/2017 and 04/2019). Samples were obtained at disease onset for all patients and after 4 years during disease evolution or until treatment in progressive cases. Selection of progressive cases were defined by lymphocyte doubling time &lt;6 months, treatment needed within 3 years, positive mRNA AID expression in PB as well as &gt;2% of CLL B cells with ongoing CSR process, and by the presence of an unmutated IgVH gene profile and positive mRNA of LPL marker.
description: Raw data of whole exome sequencing experiments in a pooled
 dataset.
DOI: 10.5061/dryad.pnvx0k6m0
title: Data from: In search of an optimal DNA diagnosis for taxonomic descriptions with MOLD, a novel tool to identify diagnostic nucleotide characters

description: While DNA characters are increasingly used for phylogenetic inference,
 taxa delimitation and identification, their use for formal description of
 taxa remains scarce and inconsistent. The major impediments until recently
 was a lack of a suitable algorithm to identify signature DNA characters.
 The 2019-2020 however were marked by an almost simultaneous release of
 three softwares, simple to run and designed specifically for taxonomists.
 There is, nevertheless, a major concern, whether taxonomy will benefit
 from wide application of these, or any of the previously available tools.
 The reluctance of using DNA data in taxonomy is partly due to concerns of
 insufficient reliability of DNA characters, as robustness of DNA based
 diagnoses, depending on the sampled fraction of the species diversity has
 not thus far been assessed. We propose a novel program, named MOLD that
 recovers diagnostic nucleotide combinations (DNCs) for selected taxa with
 DNA sequences available. We carried our random iterated haplotype
 subsampling on species in six published DNA data sets of varying
 complexity, providing a diagnosis to each subsample to evaluate how the
 robustness of DNA based diagnosis changes depending on the sampled
 fraction of the taxon’s diversity. We demonstrate that the currently used
 diagnostic DNA characters, or combinations thereof (DNCs) often do not
 exist for a particular species in a particular data set, or are not
 sufficiently reliable. We propose a new type of DNA diagnosis, termed
 herein rDNCs, which is compiled to suit pre-defined criteria of
 reliability, and is implemented in MOLD. We demonstrate that rDNCs can be
 successfully identified even in data sets comprising hundreds of species,
 and allow for notably more reliable diagnoses, than the currently used
 diagnostic DNA characters. MOLD recovers reliable and reproducible
 diagnoses in traditionally problematic cases, such as cryptic species or
 species with pronounced genetic structure, and shows unparalleled
 efficiency in large DNA data sets, making a valuable complement to the
 currently existing toolkit.
description: Seven published DNA datasets were analysed using MOLD - a novel
 software tool to recover diagnostic DNA characters for taxonomy.