cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.pk0p2ngpq
title: Phylogenomics of Fargesia and Yushania reveals a history of reticulate evolution

description: Reticulate evolution is a common and important driving force in angiosperm
 evolution. In this study, we analyzed the phylogenetic signals of genomic
 regions with diﬀerent inheritance patterns to understand the evolutionary
 process of organisms using species‐rich Himalaya–Hengduan taxa of bamboos
 (Fargesia Franchet and Yushania Keng). We constructed phylogenetic trees
 using diﬀerent sampling strategies and reconstruction methods based on
 genome skimming and double digest restriction‐site‐associated DNA
 sequencing data. We assessed the congruence of topologies generated from
 diﬀerent datasets and employed several approaches to reveal the causes of
 phylogenetic incongruence, including the detection of hybridization and
 introgression using PhyloNetworks and the D‐ statistic test (ABBA‐BABA
 test). We found that, in the plastome‐based phylogeny, Fargesia bamboos
 can be clustered into three groups and Yushania was nested within one of
 them, which contradicts the nuclear–double digest
 restriction‐site‐associated DNA sequencing‐based phylogeny. Moreover, the
 genetic variation of chloroplast DNA is signiﬁcantly correlated with
 geographical distribution. The strong signal of incomplete lineage
 sorting, hybridization, introgression, and cytoplasmic gene ﬂow found
 among genera and species suggests that reticulate evolution is the main
 cause for the phylogenetic incongruence between nuclear and chloroplast
 datasets. Our results add evidence that genomes with diﬀerent inheritance
 patterns can reveal distinct evolutionary histories of species and suggest
 that reticulate evolution is prevalent in rapidly diversifying groups.
DOI: 10.4121/6401d3eb-c667-46f3-8c19-78fcdfa38f5f
title: Model input and results underlying the publication: How 3D processes drive trench infill and sand wave regeneration after dredging'

description: This dataset contains Delft3D FM model input and output files underlying the publication “How 3D processes drive trench infill and sand wave regeneration after dredging” submitted to Journal of Geophysical Research: Earth Surface, by the authors. The simulations are used to identify and quantify the physical processes governing hydrodynamics and sediment transport that contribute to multiyear trench infill and sand wave regeneration following dredging. The dataset also includes processing scripts, supporting polygons, bathymetric measurements used for model comparison, and an environmental statement from the dredging contractor. The simulations were run on the Snellius super computer, using the 2023.03 version of the Delft3D FM software. For further details (folder structure etc.) see readme file and Delft3D FM user manual.
DOI: 10.25349/d9g892
title: Isospin magnetism and spin-polarized superconductivity in Bernal bilayer graphene

description: We report the observation of spin-polarized superconductivity in Bernal
 bilayer graphene when doped to a saddle-point van Hove singularity
 generated by large applied perpendicular electric field.   We
 observe a cascade of electrostatic gate-tuned transitions between
 electronic phases distinguished by their polarization within the isospin
 space defined by the combination of the spin and momentum-space valley
 degrees of freedom. While all of these phases are metallic at
 zero magnetic field, we observe a transition to a superconducting state at
 finite B|| ≈ 150mT applied parallel to the two
 dimensional sheet. Superconductivity occurs near a symmetry
 breaking transition, and exists exclusively above the B||-limit expected
 of a paramagnetic superconductor with the observed Tc ≈ 30mK,
 implying a spin-triplet order parameter. 
description: All electrical measurements are performed in a dilution
 refrigerator equipped with a 9T/1T/1T superconducting vector magnet. The
 vector-field control is essential for
 <em>B</em><sub>||</sub>-dependence measurements,
 allowing precise control of the field direction, in particular removing
 residual <em>B</em><sub>⊥</sub>. Transport
 measurements are performed using lock-in techniques at a frequency
 <em>f</em>&lt; 45Hz to reduce the electronic noise.
 Low-pass electronic filtering based on "F. Kuemmeth, C. M. Marcus,
 Reducing noise and temperature during measurements in cryostats, US Patent
 US20150060190A1 (2015)" is applied to lower the electron temperature.
 Penetration field capacitance was measured using a capacitance bridge
 circuit with an FHX15X high electron mobility transistor serving as an
 in-situ impedance transformer, as described in "A. A. Zibrov, et al.,
 Nature 549, 360 (2017)". An excitation frequency of 54245.12Hz was
 used to obtain the capacitance data. To convert the measured values to
 inverse electronic compressibility κ, we use low-magnetic field Landau
 levels as a calibration for perfect screening and perfect penetration, a
 procedure described in detail in "H. Zhou, et al., Nature 598, 429
 (2021)".  
description: Please refer to the README.txt file and the associated
 manuscript.
DOI: 10.4121/6401d3eb-c667-46f3-8c19-78fcdfa38f5f.v2
title: Model input and results underlying the publication: How 3D processes drive trench infill and sand wave regeneration after dredging'

description: This dataset contains Delft3D FM model input and output files underlying the publication “How 3D processes drive trench infill and sand wave regeneration after dredging” submitted to Journal of Geophysical Research: Earth Surface, by the authors. The simulations are used to identify and quantify the physical processes governing hydrodynamics and sediment transport that contribute to multiyear trench infill and sand wave regeneration following dredging. The dataset also includes processing scripts, supporting polygons, bathymetric measurements used for model comparison, and an environmental statement from the dredging contractor. The simulations were run on the Snellius super computer, using the 2023.03 version of the Delft3D FM software. For further details (folder structure etc.) see readme file and Delft3D FM user manual.
DOI: 10.5061/dryad.zgmsbcccq
title: Daphnia magna life history data for caged and uncaged individuals (lab and mesocosm)

description: Life history studies are often conducted in a laboratory environment where
 it is easy to assay individual animals. However, factors such as
 temperature, photoperiod, and nutrition vary greatly between laboratory
 and field environments, making it difficult to compare results.
 Consequently, there is a need to study individual life histories in the
 field, but this is currently difficult in systems such as Daphnia where it
 is not possible to mark and track individual animals. Here, we present a
 proof of principle study showing that field cages are a reliable method
 for collecting individual-level life history data in Daphnia magna. As a
 first step, we compared the life history of paired animals reared outside
 and inside cages to test the hypothesis that cages allow free-flow of
 algal food resources. We then used a semi-natural mesocosm setting to
 compare the performance of individual field cages versus glass jars
 re-filled with mesocosm water each day. We found that cages did not
 inhibit food flow, and that differences in life histories between three
 clones detected in the jar assays were also detectable using the much less
 labour-intensive field cages. We conclude that field cages are a feasible
 approach for collecting individual-level life history data in systems such
 as Daphnia where individual animals cannot be marked and tracked.
DOI: 10.5061/dryad.r4xgxd2dg
title: Allee effects and the allee-effect zone in northwest atlantic cod

description: According to the theory of compensatory dynamics, depleted populations
 should recover when the threat responsible for their decline is removed
 because per capita population growth is assumed to be highest when
 populations are at their smallest viable sizes. Yet, many seriously
 depleted fish populations have failed to recover despite threat
 mitigation. Atlantic cod (Gadus morhua) off Newfoundland despite thirty
 years of dramatically reduced fishing mortality and numerous fishery
 closures has not recovered suggesting that drivers other than fishing
 regulate the growth of collapsed fish populations, inhibiting or
 preventing their recovery. Here, using Bayesian inference, we show strong
 evidence of Allee effects in a south Newfoundland cod population, based on
 data on recruitment and spawning stock biomass. We infer the Allee-effect
 threshold, below which recovery is impaired. We demonstrate the necessity
 of data at low population sizes to make inferences about the nature of
 low-abundance dynamics. Our work indicates that Allee effects are not
 negligible in commercially exploited fish populations, as commonly
 projected, and that they represent an inhibitory force that can
 effectively prevent recovery from overfishing. Our findings contrast with
 prevailing fisheries management practices that assume compensatory
 dynamics at low abundances with potential to seriously overestimate the
 recovery potential of collapsed populations.
description: The stock and recruitment data was extracted from 2021 Stock
 Assessment of NAFO Subdivision 3Ps cod.
description: The data used in the codes is in Matlab's mat-file format.
 For easier access it is also presented in a csv-file. The codes are
 written in Matlab and Stan. One needs Matlab, Cmdstan, MatlabStan and
 MatlabProcessManager to run the codes. All analyses are performed and the
 article figures produced by running main.m script.
DOI: 10.5061/dryad.xpnvx0kgk
title: Reunion of Australasian possums by shared SINE insertions

description: Although first posited to be of a single origin, the two subfamilies of
 Phalangeriform marsupial possums (Phalangeroidea: cuscuses and brushtail
 possums and Petauroidea: possums and gliders) have long been considered,
 based on multiple sequencing studies, to have evolved from two separate
 origins. We reinvestigated these relationships by screening ~200,000
 orthologous SINE loci across the newly available whole-genome sequences of
 Phalangeriform species and their relatives, and identified 106 highly
 reliable phylogenetic SINE markers. The presence/absence patterns of these
 SINE elements within the various Australasian possum genomes provide the
 first highly significant evidence for the reunification of Australasian
 possums into one monophyletic group.
description: Genome data were accessed in cooperation with Charles Y. Feigin.
 Genome TE extraction was performed via the multicomparative 2-n-way genome
 suite.
DOI: 10.21251/32c4bad0-0c3d-477f-ae77-b56e25d87b78
title: A Qualitative Exploration of the Therapeutic Qualities of the Art of Therapy from the Therapists Perspective within the Context of Ayres Sensory Integration Dataset

description: This qualitative phenomenological study explores the therapeutic qualities of the art of therapy, emphasizing the just right challenge; the therapeutic relationship, and the experience of “flow”, from the therapists’ viewpoint, offering a novel perspective. Eight participants kept reflective journals and engaged in semi-structured interviews, which were analyzed using Reflective Thematic Analysis. Three overarching themes emerged: The Human Connection: Bonding, exploring the components of the therapeutic relationship; Setting the Scene: An investigation of the preparation involved, including setting the just right challenge and considering external factors; Magic Happens! The Optimal Experience: An exploration of self-actualization, the experiences of flow and how it is learned. Participants shared their unique therapeutic observations and provided clear insight into their understanding of the art of therapy. The findings demonstrate that this concept is complex and multifaceted, with learning enhanced through hands-on experiences, which has significant implications for the education and ongoing mentoring of both practicing and new clinicians. 

This dataset is made up of 8 individual interviews and 8 participants reflective journals. The data are all in MS Word format.
DOI: 10.21251/65a33227-8cab-4484-b456-2bf201163124
title: "Border Shopping"

description: A film produced by the Nerve Centre in Derry in August 2023, reflecting young people's understanding and experiences of the Irish Border as part of the Bordered Youth Project.
DOI: 10.21251/e4f3974e-0e80-4781-b828-35b6e80cc98c
title: "A Hard Border"

description: A film produced by the Nerve Centre in Derry with a group of young people in August 2023 reflecting their feelings about the Irish Border.
DOI: 10.5061/dryad.2280gb5t4
title: Data for: Soil microbes alter competition between native and invasive plants

description: Invasive plants can alter soil microbial communities and generate positive
 plant-soil feedbacks that facilitate their performance, but the magnitude
 and direction of feedbacks may change with novel conditions under climate
 change. We assessed how potential soil legacy effects of plant invasion
 and simulated drought influenced plant performance and competition in the
 longleaf pine ecosystem. We collected soil from a four-year factorial
 invasion (cogongrass, Imperata cylindrica) by drought (simulated with
 rainout shelters) field experiment and used it as live or sterilized soil
 inoculum in a greenhouse experiment that included two native foundation
 species, longleaf pine (Pinus palustris) and wiregrass (Aristida stricta),
 and cogongrass, grown individually or in competition. There was no
 evidence of biotic soil legacy effects of invasion or drought for any
 plant species, but microbes played a significant role in competition. When
 plants were grown alone, the invader had 12% greater biomass in live soil
 than sterile soil but both native species had 25% less biomass in live
 soil. When grown in competition, these effects were reversed for
 cogongrass (37% smaller in live soil) and pine (17% larger in live soil).
 In competition, the three species grown in sterile soil produced similar
 amounts of biomass, whereas live soil created a competitive hierarchy
 where pine was more competitive than wiregrass and cogongrass. Synthesis:
 These results emphasize the importance of soil biota in native plant
 restoration because, although the invader was highly successful when grown
 alone, plant-microbe interactions influenced the outcome of competition
 between native and invasive species by promoting native longleaf pine.
 There was little evidence that invasive cogongrass inhibited native plants
 via biotic soil legacies, instead, results suggested that plant-soil
 interactions can be highly resilient to global change such that the biotic
 legacy of invasion and drought may not promote or inhibit invasion.
description: Plants of three species (cogongrass- <i>Imperata
 cylindrica</i>, longleaf pine- <i>Pinus palustris</i>,
 and wiregrass- <i>Aristida stricta</i>) were grown with live
 or sterile soil inoculum from invaded or uninvaded field plots with
 ambient precipitation or experimental drought. Above and belowground
 biomass were dried and weighed and arbuscular mycorrhizal (cogongrass and
 wiregrass) or ectomycorrhizal (pine) colonization was quantified with the
 gridline intersect method.
description: Raw data used for statistical models are included. For
 replication of Figures 2 and 3, the relative difference between live and
 sterile soil was calculated as (live-sterile)/sterile within each
 block.
DOI: 10.21251/a950628f-08ec-4897-9fd0-5c43ecabca94
title: Recovery after intensive care dataset

description: This excel dataset guided part of the interview discussion in a qualitative study about recovery after discharge from ICU. The study explored patients views about their recovery at six and twelve months and factors that facilitated recovery, and determined additional services that patients felt were missing during their recovery.
DOI: 10.21251/794ab086-d855-4e44-805a-5c019868546b
title: Dielectric barrier plasma discharge exsolution of nanoparticles at room temperature and atmospheric pressure Dataset

description: The dataset that corresponds to the results reported in the paper are included within this record as an Excel file and with tabs corresponding to each figure. Additional results and raw data underlying this work (full set of microscopy images and size analysis and statistics, high resolution deconvoluted x-ray photoelectron spectra and control magnetic measurements) are available in the Supporting Information (in PDF format) or on request following instructions provided here.

This work has been supported by EPSRC through the UK Catalysis Hub (EP/R027129/1) and the Emergent Nanomaterials-Critical Mass Initiative (EP/R023638/1, EP/R023921/1, EP/R023522/1, EP/R008841/1) as well as the Royal Society (IES\R2\212049). F.F. gratefully acknowledges support from the National Research Council of Italy (2020 STM program). I.S.M. acknowledges funding from the Royal Academy of Engineering through a Chair in Emerging Technologies Award entitled “Engineering Chemical Reactor Technologies for a Low-Carbon Energy Future” (Grant CiET1819\2\57). KK acknowledges funding from the Henry Royce Institute (EP/X527257/1).
DOI: 10.21251/83cf9531-e551-4e19-a2fa-2bcce08ec71d
title: Assessment of the volumetric solar-to-thermal energy conversion performance of carbon nanotubes decorated with gold nanoparticles as a multi-component nanofluid Dataset

description: The dataset that corresponds to the results reported in the paper are included within this record as an Excel file and with tabs corresponding to each figure. Additional results and raw data underlying this work (theoretical calculations) are available in the Supporting Information (in PDF format) or on request following instructions provided here.

This work was supported by EPSRC (award n.EP/M024938/1, EP/V055232/1, EP/R008841/1).
DOI: 10.21251/03361c30-1475-49de-a56e-cb8dae18b6ec
title: Training Needs of Paediatric Occupational Therapists in eating and drinking occupations for children with dysphagia

description: Occupational therapists are a part of the team to support children and infants presenting with eating and drinking difficulties as a result of dysphagia, yet the available literature shows limited focus on training requirements of UK-based occupational therapists working in dysphagia management. This qualitative research project's aim was to explore the training needs and the barriers and opportunities to accessing training in this area. Nine virtual, semi-structured interviews were completed across stakeholder groups (occupational therapists, speech and language therapists and parents). Interviews were transcribed and reflexive thematic analysis was completed. Four themes generated were, the role of occupational therapists, logistics of accessing training, interdisciplinary working and training pathways. Occupational therapists do not have a consensus definition of their role in dysphagia practice, compared to speech and language therapists. The positive impacts of interdisciplinary workings on competencies are reflected, where the realities of current practice are identified by therapists and parents alike. The COVID-19 Pandemic bought opportunities and barriers in relation to the logistics of accessing training. A greater understanding and definition of the role of occupational therapy in dysphagia is required, and a formal competency document may be beneficial to facilitate the identification of appropriate professional development for occupational therapists. Future research into this area is required to develop an understanding of training needs in this area of practice.
DOI: 10.21251/1ee5e496-1dd6-43ff-b559-7f645e3e1cbf
title: Qualitative participatory peer research exploring the educational impact of COVID-19 on Allied Health and Healthcare Science Students

description: The teaching and learning experience of allied health and healthcare science students has altered because of the Covid-19 pandemic. Limited research has explored the experience on the future healthcare workforce using participatory research design. The aim of this study was to explore the impact of a global pandemic on the clinical and academic experiences of healthcare student using a co-production approach with student peer researchers. Twenty-three participants took part in six focus groups. The themes identified were: rapid changes to learning; living alongside Covid-19 and psychological impact. Students preferred blended learning approaches when available, as reduced peer interaction, studying and sleeping in the same space, and technology fatigue decreased motivation.
DOI: 10.5061/dryad.rr4xgxd97
title: Assessing the nutritional consequences of switching foraging behaviour in wood bison

description: Diet is one of the most common traits used to organize species of animals
 into niches. For ruminant herbivores, the breadth and uniqueness of their
 dietary niche is placed on a spectrum from browsers that consume woody
 (i.e., browse) and herbaceous (i.e., forbs) plants, to grazers with
 graminoid-rich diets. However, seasonal changes in plant availability and
 quality can lead to switching of their dietary niche, even within species.
 In this study, we examined whether a population of wood bison (Bison bison
 athabascae) in northeast Alberta, Canada seasonally switched their
 foraging behaviour, and if so, whether this was associated with changes in
 nutrient acquisition. We hypothesized that bison should switch foraging
 behaviours from grazing in the winter when standing, dead graminoids are
 the only foliar plants readily available to browsing during spring and
 summer as nutritious and digestible foliar parts of browse and forbs
 become available. If bison are switching foraging strategy to maximize
 protein consumption, then there should be a corresponding shift in the
 nutritional niche. Alternatively, if bison are eating different plants,
 but consuming similar amounts of nutrients, then bison are switching their
 dietary niche to maintain a particular nutrient composition. We found wood
 bison were grazers in the winter and spring, but switch to a browsing
 during summer. However, only winter nutrient consumption of consumed
 plants differed significantly among seasons. Between spring and summer,
 bison maintained a specific nutritional composition in their diet despite
 compositional differences in the consumed plants. Our evidence suggests
 bison are selecting plants to maintain a target macronutrient composition.
 We posit that herbivore’s can and will switch their dietary niche to
 maintain a target nutrient composition.
description: Please refer to the text in our publication or contact authors
 for R code.
DOI: 10.21251/3f3156a9-8cd4-45e6-b490-13ee74093281
title: Well-Being and Coping of UK Nurses. Midwives and AHPS- a cross sectional study

description: Dataset relating to the above study is available here:
DOI: 10.21251/eefafafa-705c-4cdb-921e-a2bb0d32b6ef
title: Chatpal Chatbot dialogue data set

description: The scripts used in the ChatPal chatbot are freely available as an output from the ChatPal project. The datasets contain the chatbot utterances in English, Swedish, Finnish and Scottish Gaelic. Any replies collected from users through the ChatPal chatbot are not included in these data. Datasets are available in csv format and contain Unicode character encodings (UTF-8). Disclaimer: The datasets are open access, should be used appropriately and can be repurposed. However, the ChatPal project team are not responsible for how you chose to use the data or repurpose the content.
DOI: 10.21251/527b6b95-f6c1-45cc-8292-806cdc904130
title: Picking fights with politicians dataset

description: This is the dataset for the paper 'Picking fights with politicians' paper. This includes two recordings, one taken by the BBC, and the other by a YouTuber. The BBC recording has been transcribed. Data is open for secondary reuse.