cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.s1rn8pk6k
title: Herbivory of a biocontrol agent on a native plant causes an indirect trait-mediated non-target effect on a native insect

description: Identifying food web linkages between biocontrol agents of invasive plants
 and native species is crucial for predicting indirect non-target effects.
 Biocontrol insects can integrate into food webs within recipient habitats
 and influence native insects through apparent competition (altering shared
 natural enemies) or density-mediated exploitation competition (changing
 density of native plants). However, whether and how trait-mediated
 exploitation competition (modifying native plant chemical defenses and
 volatiles profiles) can produce indirect non-target effects remains
 largely overlooked, despite plant phenotypic responses to insect herbivory
 being common and widely documented. The beetle Agasicles hygrophila was
 introduced into China for management of weedy Alternanthera philoxeroides,
 but it also attacks the native congener A. sessilis, which may have
 indirect non-target effects on the native beetle Cassida piperata that
 also feeds on A. sessilis. Here, we examined the relationships among the
 abundance of A. hygrophila and C. piperata, and A. sessilis coverage in
 the field. Then, we investigated the impact of A. hygrophila herbivory on
 C. piperata development and oviposition, as well as A. sessilis primary
 metabolites and leaf volatiles. Cassida piperata abundance was not related
 to A. sessilis coverage, but C. piperata was less abundant on plants with
 more A. hygrophila in the field survey and on plants with more prior A.
 hygrophila damage in the field cage experiment. Cassida piperata
 development was inhibited by prior A. hygrophila herbivory in bioassays in
 enemy-free conditions and they preferred to oviposit on A. sessilis plants
 that had experienced little or no A. hygrophila damage. Agasicles
 hygrophila herbivory decreased A. sessilis foliar glucose and protein, and
 substantially changed its leaf volatile blend. Synthesis. Our results show
 that A. hygrophila has its major indirect non-target effects on C.
 piperata through trait-mediated exploitation competition, rather than
 apparent competition or density-mediated exploitation competition. Our
 results demonstrate a new mechanism for indirect non-target effects of
 biocontrol agents. Furthermore, our results indicate that minor and
 temporary negative impacts on non-target plants might propagate to higher
 trophic levels and such negative impacts can strengthen with increasing
 intensity of the direct non-target effect.
description: Data were collected form
 field survey, field cage experiment, bioassays and chemical
 analyses. Data
 were analyses using SAS.
DOI: 10.5061/dryad.kh189324d
title: Setting the evolutionary timeline: Tillandsia landbeckii in the Chilean Atacama Desert

description: In the Chilean Atacama Desert Tillandsia landbeckii Phil. is forming a
 unique vegetation type known as Tillandsia lomas. This vegetation consists
 in its typical configuration of one single vascular plant species only.
 The species forms regular linear structures in a sloped landscape and is
 largely depending on sand movement and fog occurrence as dominant source
 of water supply. Without developing a typical root system there are also
 few other terrestrial Tillandsia species growing on bare sand in Chile and
 Peru such as T. marconae Till & Vitel, T. virescens Ruiz &
 Pavon, T. purpurea Ruiz & Pavon or T. latifolia Mayen. Although
 phylogenetic evidence is limited, convergent evolution of this unique
 growth behavior is evident. The Atacama Desert is one of the oldest
 hyperarid areas globally alongside the Namib. The predominantly arid and
 hyper-arid climate exists since the Early Miocene, which raises the
 question about timing of T. landbeckii evolutionary history. Our study
 highlights the onset of diversification in T. landbeckii and demonstrates
 also subsequent secondary genetic contact with T. purpurea during Late
 Pleistocene using whole plastome DNA sequence data.
description: <b>List of Content for DRYAD data base:</b>
 SNP-matrix for RaxML-ng ML tree in
 Phylip format:
 Concat_seqData_TillMixed_T.usAndAnanas.phy Partitions of plastome data for RaxML-ng ML tree: partitions_for_raxml.txt RaxML-ng ML tree in Newick format: Concat_seqData_TillMixed_T.usAndAnanas.phy.raxml.support BEAST2 chronogram in Nexus format: treeannotator_100M_newRoot3.nex Suppl. Figure: "Tillandsia" barcode phylogeny based on plastid <i>trn</i>K-<i>mat</i>K-<i>trn</i>K (Large-Single-Copy-region) (alignment length of 1887 bp.), <i>rpo</i>B-<i>trn</i>C-<i>pet</i>N (LSC-Region) (alignment length of 3225 bp.) and <i>ycf</i>1. Treefile corresponding to the Suppl. Fig. (barcode phylogeny):   Barcode_phylogeny_Tillandsiodes_raxml_support.tre Gene list of genes identified and annotated in the various bromeliad species: Gene_list.xlsx
description: The SNP matrix contains SNPs from the various coding regions of
 bromeloid plastomes. The respective gene list is provided as excel table.
 The respective partioning sheme is also provided. Treefiles from
 maximum-likelihood analysis and BEAST analysis complement results from
 respective analyses.  A large-scale barcode phylogeny
 is provided as annotated and edited image file (PDF). The respective
 treefile is is also provided as bracket notation.
DOI: 10.5061/dryad.dv41ns1wx
title: Study of crystallization behavior of electron beam irradiated polypropylene and high-density polyethylene

description: The influence of e-beam irradiation on polypropylene (PP) and high-density
 polyethylene (HDPE) was investigated with the focus on crystallization.
 High temperature (200°C) creep test has revealed that HDPE gradually
 increases crosslinking density in the range 30-120 kGy while PP undergoes
 chain scission which was quantitatively evaluated by GPC. Mechanical
 properties were measured in the range -150 to 200°C by dynamic mechanical
 analysis (DMA). Small presence of C=C and C=O bonds was found in the
 irradiated PP by Fourier transform infrared spectroscopy (FTIR).
 Crystallization kinetics measured by differential scanning calorimetry
 (DSC) and hot-stage optical microscopy results were influenced by
 irradiation tremendously for HDPE and to a smaller extent for PP.
 Irradiation has caused a decrease in both, the number of nucleation
 centers and the growth rate of individual spherulites. Crystallization was
 analyzed in detail with the help of Hoffman-Lauritzen, Avrami and
 Arrhenius equations. Interestingly, increasing β-crystal formation with
 increasing irradiation level was discovered for PP by X-ray diffraction
 (XRD). Generation of defects in crystalline structure due to irradiation
 is discussed.
description: DSC; WAXD; SAXS; optical microscopy; FTIR; DMA
DOI: 10.5061/dryad.x3ffbg7hh
title: Data from: Tracking temperate fish reveals their relevance for plant seed dispersal

description: Seed dispersal is a fundamental process for plant communities, especially
 now that our changing world demands rapid colonization of new habitats.
 Long-distance dispersal is especially important for plant population
 persistence and range expansions. The contribution of fishes to plant seed
 dispersal in aquatic ecosystems (ichthyochory) has long been overlooked.
 Although we know fish disperse seeds, it is largely unknown where, when
 and how far – especially in temperate regions. Here we studied the
 potential of fish to disperse seeds locally and over long distances,
 specifically hypothesizing that i) dispersal by fish depends on the
 season, ii) individual fish contribute differently to seed dispersal, and
 iii) water regulating structures (barriers) inhibit seed dispersal. We
 tested our hypotheses by acoustically tracking 71 common carp (Cyprinus
 carpio) with 21 hydrophones in a 38km-long study system for &gt;2
 years in the Netherlands. We calculated potential seed dispersal
 throughout this system by combining nearly 1.5 million location
 registrations with experimentally assessed retention times of seeds after
 ingestion (i.e. time between ingestion and egestion). Seed dispersal on
 local scales was quantitatively most important during summer and autumn,
 with high dispersal potential in a range of four kilometres from the
 location of seed ingestion. Long-distance dispersal up to 16 km was
 possible at low probabilities in spring. In winter, most seeds were
 egested within two km. Maximum and median dispersal distances varied
 widely among individuals, emphasizing variation in effectiveness among
 individual fish for seed dispersal. Less than two percent of all fish
 movements reached beyond sluices and weirs, indicating that anthropogenic
 barriers in freshwater systems strongly reduced the potential of common
 carp to disperse seeds to these areas. This study shows that common carp
 can locally disperse plant seeds with high probabilities, and over
 distances up to 16 km with low probabilities throughout temperate
 ecosystems. This can contribute to restoration and maintenance of plant
 community diversity. However, this ecosystem function of fish to plants
 requires intact fish populations – because not all individual fish
 contribute equally to dispersal – and unrestricted connectivity throughout
 aquatic ecosystems.
description: Temperate fish (common carp) were tracked using a Vemco
 positioning system in a temperate freshwater system in the Netherlands.
 Based on fish movements, their potential to disperse seeds of wetland
 plants was assessed.
description: We provide two data files in .csv format and one file with all
 background information in .xlsx format. In case of questions please
 contact Casper H.A. van Leeuwen (c.vanleeuwen@nioo.knaw.nl)
DOI: 10.5061/dryad.mw6m905vz
title: Innovative installation of soil moisture sensors in an indoor gravel lysimeter

description: Aquifers of coarse gravel are an important source for drinking water;
 however, coarse sediments are also particularly susceptible to the rapid
 and long-range transport of pollutants through the vadose zone. Therefore,
 understanding the flow and solute transport in unsaturated gravel material
 is of utmost importance for the protection of drinking water resources.
 Experimental investigations of flow and transport processes are dependent
 on suitable sensor technology, but it is a considerable challenge to
 install soil moisture sensors in gravelly material. In this video, we show
 a novel method to install soil moisture sensors with minimal disturbance
 in a large lysimeter with undisturbed gravelly sedimentary material, based
 on drilling access cavities in frozen material.
DOI: 10.5061/dryad.2bvq83bpb
title: Archival and modern DNA SNP data of 13 Baltic salmon populations

description: Intra-species genetic homogenization arising from anthropogenic impacts is
 a major threat for biodiversity. However, few taxa have sufficient
 historical material to systematically quantify long-term genetic changes.
 Using archival DNA collected over ~100 years, we assessed spatio-temporal
 genetic change in Atlantic salmon populations across the Baltic Sea, an
 area heavily impacted by hydropower exploitation and associated
 large-scale mitigation stocking. Analysis was carried out by screening 82
 SNPs in 1680 individuals from 13 Swedish rivers. We found an overall
 decrease in genetic divergence and diminished isolation by distance among
 populations, strongly indicating genetic homogenization over the past
 century. We further observed an increase in genetic diversity within
 populations consistent with increased gene flow. Temporal genetic change
 was lower in larger wild populations than in smaller wild and
 hatchery-reared ones, indicating that larger populations have been able to
 support a high number of native spawners in relation to immigrants. Our
 results demonstrate that stocking practices of salmon in the Baltic Sea
 have led to homogenization of populations over the last century,
 potentially compromising their ability to adapt to environmental change.
 Stocking of reared fish is common worldwide and our study is a cautionary
 example of the potentially long-term negative effects of such activities.
DOI: 10.5061/dryad.b8gtht7bh
title: Chronic insomnia and bed partner actigraphy data

description: The files contain seven nights of continuous actigraphy measurements of 40
 subjects with chronic insomnia and their 40 bed
 partners. Wrist actigraphy was
 used, collected for one
 week using Respironics Actiwatch Spectrum Pro and Actiware software (Respironics, Bend, OR, USA), with movement counts were sampled in 60-second epochs. All recruited subjects wore the devices at all times during day and night. All subjects were free to move and were not prohibited from doing any activities of daily living. The actigraphy data files are first processed to extract features followed by machine learning model, which used these features to classify subjects in chronic insomnia subjects and normal sleepers.
description: The data were collected using Respironics Actiwatch Spectrum Pro
 and Actiware software (Respironics, Bend, OR, USA), with movement counts
 were sampled in 60-second epochs. The actigraphy data were recorded from
 cohabiting couples with one subject seeking treatment for their insomnia.
 Subjects were recruited through online advertisements, radio, print media,
 and via referrals from a psychologist, sleep clinics or general
 practitioner (GP) in Melbourne, Australia. The subjects were recruited as
 part of a larger ongoing clinical trial (Project REST; Australian New
 Zealand Clinical Trials Registry Registration: ACTRN12616000586415), to
 study partner associated behavioural interventions in insomnia. The study
 was approved by the human research ethics committee of Monash University,
 approval number CF16/276 - 2016000125.
description: The data were time stamped actigraphy data. Please refer to the
 ReadMe.txt file.
DOI: 10.15468/dl.acx4m3
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((100.85002 -1.59013,102.24532 -1.59013,102.24532 -0.21773,100.85002 -0.21773,100.85002 -1.59013))",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is VU",
 "OccurrenceStatus is Present",
 "Year 2015-2026"
 ]
}

 The dataset includes 18 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002714-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.9s4mw6mfd
title: Functional assessment of morphological homoplasy in stem-gnathostomes

description: The Osteostraci and Galeaspida are stem gnathostomes, occupying a key
 phylogenetic position for resolving the nature of the jawless ancestor
 from which jawed vertebrates evolved more than 400 million years ago. Both
 groups are characterized by the presence of rigid headshields that share a
 number of common morphological traits, in some cases hindering the
 resolution of their interrelationships and the exact nature of their
 affinities with jawed vertebrates. Here, we explore the morphological and
 functional diversity of osteostracan and galeaspid headshields using an
 innovative approach that combines geometric morphometrics and
 computational fluid dynamics, thereby constraining the underlying factors
 that promoted the evolution of their similar morphologies and informing on
 the ecological scenario under which jawed vertebrates emerged.
 Phylomorphospace, Mantel analysis and Stayton metrics demonstrate a high
 degree of homoplasy. Computational fluid dynamics reveals similar
 hydrodynamic performance among morphologically convergent species,
 indicating the independent acquisition of the same morphofunctional traits
 and, potentially, equivalent lifestyles. This confirms that a number of
 the characters typically used to infer the evolutionary relationships
 among galeaspids, osteostracans and jawed vertebrates are convergent in
 nature, potentially obscuring understanding of the assembly of the
 gnathostome bodyplan. Ultimately, our results reveal that while the
 jawless relatives of the earliest jawed vertebrates were ecologically
 diverse, widespread convergence on the same hydrodynamic adaptations
 suggests they had reached the limits of their potential ecological
 diversity – overcome by jawed vertebrates and their later innovations.
DOI: 10.5061/dryad.vt4b8gtr1
title: Data from: Telomere heritability and parental age at conception effects in a wild avian population

description: Individual variation in telomere length is predictive of health and
 mortality risk across a range of species. However, the relative influence
 of environmental and genetic variation on individual telomere length in
 wild populations remains poorly understood. Heritability of telomere
 length has primarily been calculated using parent–offspring regression
 which can be confounded by shared environments. To control for confounding
 variables, quantitative genetic ‘animal models’ can be used, but few
 studies have applied animal models in wild populations. Furthermore,
 parental age at conception may also influence offspring telomere length,
 but most studies have been cross-sectional. We investigated within- and
 between- parental age at conception effects and heritability of telomere
 length in the Seychelles warbler using measures from birds caught over 20
 years and a multi-generational pedigree. We found a weak negative
 within-paternal age at conception effect (as fathers aged, their offspring
 had shorter telomeres) and a weak positive between-maternal age at
 conception effect (females that survived to older ages had offspring with
 longer telomeres). Animal models provided evidence that heritability and
 evolvability of telomere length was low in this population, and that
 variation in telomere length was not driven by early-life effects of hatch
 period or parental identities. qPCR plate had a large influence on
 telomere length variation and not accounting for it in the models would
 have underestimated heritability. Our study illustrates the need to
 include and account for technical variation in order to accurately
 estimate heritability, as well as other environmental effects, on telomere
 length in natural populations. 
description: These datasets are related to the manuscript:
 Telomere heritability and parental age at conception effects in a
 wild avian population A. M. Sparks, L. G. Spurgin, M.
 van der Velde, E. A. Fairfield, J. Komdeur, T. Burke, D. S. Richardson, H.
 L. Dugdale
description: Please see the README files for descriptions of the columns in
 the pedigree and telomere dataset. Full details of the methods can be
 found in the journal article: https://doi.org/10.1111/mec.15804
 R scripts for analyses can be found at
 https://github.com/Seychelle-Warbler-Project/Sparks_2021_MolEcol
 These datasets
 were collected as part of the long-term individual-based study of
 Seychelles warblers on Cousin Island in the Seychelles.
 For questions related specifically to these datasets, or to
 request access to the pedigree before the embargo is lifted, please
 contact Alexandra Sparks (a.sparks[at]sheffield.ac.uk) or Hannah Dugdale
 (h.l.dugdale[at]rug.nl)
DOI: 10.5061/dryad.0vt4b8gxj
title: Bumble bees in landscapes with abundant floral resources have lower pathogen loads

description: AbstractThe pollination services provided by bees are essential for
 supporting natural and agricultural ecosystems. However, bee population
 declines have been documented across the world. Many of the factors known
 to undermine bee health (e.g., poor nutrition) can decrease
 immunocompetence and, thereby, increase bees’ susceptibility to diseases.
 Given the myriad of stressors that can exacerbate disease in wild bee
 populations, assessments of the relative impact of landscape habitat
 conditions on bee pathogen prevalence are needed to effectively conserve
 pollinator populations. Herein, we assess how landscape-level conditions,
 including various metrics of floral/nesting resources, insecticides,
 weather, and honey bee (Apis mellifera) abundance, drive variation in wild
 bumble bee (Bombus impatiens) pathogen loads. Specifically, we screened
 890 bumble bee workers from varied habitats in Pennsylvania, USA for three
 pathogens (deformed wing virus, black queen cell virus, and Vairimorpha
 (= Nosema) bombi), Defensin expression, and body size. Bumble bees
 collected within low-quality landscapes exhibited the highest pathogen
 loads, with spring floral resources and nesting habitat availability
 serving as the main drivers. We also found higher loads of pathogens where
 honey bee apiaries are more abundant, a positive relationship between
 Vairimorpha loads and rainfall, and differences in pathogens by geographic
 region. Collectively, our results highlight the need to support
 high-quality landscapes (i.e., those with abundant floral/nesting
 resources) to maintain healthy wild bee populations.
DOI: 10.5061/dryad.k98sf7m52
title: Data from: Risk of short-term biodiversity loss under more persistent precipitation regimes

description: Recent findings indicate that atmospheric warming increases the
 persistence of weather patterns in the mid-latitudes, resulting in
 sequences of longer dry and wet periods compared to historic averages. The
 alternation of progressively longer dry and wet extremes could
 increasingly select for species with a broad environmental tolerance. As a
 consequence, biodiversity may decline. Here, we explore the relationship
 between the persistence of summer precipitation regimes and plant
 diversity by subjecting experimental grassland mesocosms to a gradient of
 dry-wet alternation frequencies whilst keeping the total precipitation
 constant. The gradient varied the duration of consecutive wet and dry
 periods, from 1 up to 60 days with or without precipitation, over a total
 of 120 days. An alternation of longer dry and wet spells led to a severe
 loss of species richness (up to –75% relative to the current rainfall
 pattern in W-Europe) and functional diversity (enhanced dominance of
 grasses relative to nitrogen (N)-fixers and non-N-fixing forbs). Loss of
 N-fixers and non-N-fixing forbs in severe treatments was linked to lower
 baseline competitive success and higher physiological sensitivity to
 changes in soil moisture compared to grasses. The extent of diversity
 losses also strongly depended on the timing of the dry and wet periods.
 Regimes in which long droughts (≥ 20 days) coincided with above-average
 temperatures showed significantly more physiological plant stress over the
 experimental period, greater plant mortality, and impoverished communities
 by the end of the season. Across all regimes, the duration of the longest
 period below permanent wilting point was an accurate predictor of
 mortality across the communities, indicating that increasingly persistent
 precipitation regimes may reduce opportunities for drought stress
 alleviation. We conclude that without recruitment, which was precluded in
 this experiment, summer precipitation regimes with longer dry and wet
 spells will likely diminish plant diversity, at least in the short term.
description: See methods section in article.  
description: For questions regarding the dataset, please contact
 Simon.Reynaert@uantwerpen.be